RPS-BLAST 2.2.16 [Mar-25-2007]

Database: 95pdb09Oct16_0000; 95pdb09Oct16_0001; 95pdb09Oct16_0002;
95pdb09Oct16_0003 
           66,450 sequences; 15,983,541 total letters

Searching..................................................done

Query= ABE38828.1 rpal2 ABE38828.1 GIB00345CH01 "Methionine synthase,
vitamin-B12 independent"
         (372 letters)



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

3bq6B [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-                  161   4e-42
3bq5B [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-                  138   2e-35
3bq6A [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-                  136   1e-34
3bq5A [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-                  128   3e-32

>3bq6B [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-
          Length = 718

 Score =  161 bits (407), Expect = 4e-42
 Identities = 59/364 (16%), Positives = 119/364 (32%), Gaps = 37/364 (10%)

Query: 7   PFRADEVGSLLRPQSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGE 66
            F    +GS  +   ++  R++  KGEIS  +       +I+K +  Q  IGL +   GE
Sbjct: 390 LFPTTTIGSFPQTPEVRKMRSKYRKGEISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGE 449

Query: 67  FRRSWWHFDFLSHLTGCELYHPDTGIQFAGVQTRNDSIRVIGKLDFPDDHPMLEHFRFLK 126
           F R+     F   L G         + +     R     + G +  P +   L+   + +
Sbjct: 450 FERTDMVEFFAEKLNGIATTQNGWVLSYGSRCYRPPI--IYGTVTRP-EPMTLKEITYAQ 506

Query: 127 RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRKAVKAFYDAGC 186
              +      K  +  P  +      +                +A    + VK   +AG 
Sbjct: 507 SLTE---KPVKGMLTGPVTIMSWSYYREDIP-----EREIAYQIALAINEEVKDLEEAGI 558

Query: 187 RYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSDMVITTHVCRG 246
           + +Q D+  +              +        +      N A   RP +  I  H+C  
Sbjct: 559 KIVQIDEPAFREKAP--------IKKSKWPEYFEWAINAFNLAANARP-ETQIHAHMCYS 609

Query: 247 NFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGNKVVVVGVITS 306
           +F            + E +   + +D   +E    +              K + VGV   
Sbjct: 610 DF----------NEIIEYIHQ-LEFDVISIEASRSKGEIISAFENFKGWIKQIGVGVWDI 658

Query: 307 KFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEGNILSEQEQWDKLRLAVEVA 366
               +   ++++  ++   +  P   + ++P CG  +       +  E    LR  V +A
Sbjct: 659 HSPAVPSINEMREIVERVLRVLPKELIWINPDCGLKT------RNWDEVIPSLRNMVALA 712

Query: 367 QDVW 370
           +++ 
Sbjct: 713 KEMR 716



 Score =  132 bits (334), Expect = 1e-33
 Identities = 34/351 (9%), Positives = 84/351 (23%), Gaps = 54/351 (15%)

Query: 13  VGSLLRP---QSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGEFRR 69
                +    +  K A     KG+I+        + ++   + +     + +    E   
Sbjct: 5   AFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMN-KLRMYMVENYRKNVDVIPSNELSY 63

Query: 70  SWWHFDFLSHLTGC-ELYHPDTGIQFAGVQTRNDSIRVIGKL----------DFPDDHPM 118
             +  D    +    E +    G+       R      + K           +   +   
Sbjct: 64  YDFVLDTAVMVGAVPERFGEYRGLSTYFDMARGGKALEMTKFFNTNYHYLVPEIETEEFY 123

Query: 119 LEHFRFLK--RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRK 176
           L   + L+         +     +  P    +   R          ++   E L   Y++
Sbjct: 124 LLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLLESLVSVYKE 183

Query: 177 AVKAFYDAGCRYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSD 236
             +   + GC+ +  ++  +     +                       +   ++E P  
Sbjct: 184 VFEKLVENGCKEILVNEPAFVCDLEKA---------------HWDLILNVYRELSEFP-- 226

Query: 237 MVITTHVCRGNFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGN 296
             +T                      E     +       ++ S         +     +
Sbjct: 227 --LTVFTY-----------YDSVSDYE-ACVSLPVKRLHFDFVSNEENLKNLEKHGFPED 272

Query: 297 KVVVVGVITSKFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEG 347
           K +V GVI  +         +   ++       L   A+S  C        
Sbjct: 273 KKLVAGVINGRQPWKVDLRKVASLVE------KLGASAISNSCPLFHLPVT 317


>3bq5B [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-
          Length = 722

 Score =  138 bits (349), Expect = 2e-35
 Identities = 33/346 (9%), Positives = 82/346 (23%), Gaps = 54/346 (15%)

Query: 13  VGSLLRP---QSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGEFRR 69
                +    +  K A     KG+I+        + ++   + +     + +    E   
Sbjct: 5   AFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMN-KLRMYMVENYRKNVDVIPSNELSY 63

Query: 70  SWWHFDFLSHLTG-CELYHPDTGIQFAGVQTRNDSIRVIGKL----------DFPDDHPM 118
             +  D    +    E +    G+       R      + K           +   +   
Sbjct: 64  YDFVLDTAVMVGAVPERFGEYRGLSTYFDMARGGKALEMTKFFNTNYHYLVPEIETEEFY 123

Query: 119 LEHFRFLK--RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRK 176
           L   + L+         +     +  P    +   R          ++   E L   Y++
Sbjct: 124 LLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLLESLVSVYKE 183

Query: 177 AVKAFYDAGCRYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSD 236
             +   + GC+ +  ++  +     +                           +    S+
Sbjct: 184 VFEKLVENGCKEILVNEPAFVCDLEKAHWDLIL-------------------NVYRELSE 224

Query: 237 MVITTHVCRGNFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGN 296
             +T                      E     +       ++ S         +     +
Sbjct: 225 FPLTVFTY-----------YDSVSDYE-ACVSLPVKRLHFDFVSNEENLKNLEKHGFPED 272

Query: 297 KVVVVGVITSKFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFA 342
           K +V GVI  +         +   ++       L   A+S  C   
Sbjct: 273 KKLVAGVINGRQPWKVDLRKVASLVE------KLGASAISNSCPLF 312



 Score =  127 bits (319), Expect = 6e-32
 Identities = 55/354 (15%), Positives = 114/354 (32%), Gaps = 39/354 (11%)

Query: 18  RPQSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGEFRRSWWHFDFL 77
            PQ+ +  + R +  +IS  +       +I+K +  Q  IGL +   GEF R+     F 
Sbjct: 406 FPQTPEVRKMRSKYRKISKEEYEAFIKEQIKKAIELQEEIGLDVLVHGEFERTDMVEFFA 465

Query: 78  SHLTGCELYHPDTGIQFAGVQTRNDSIRVIGKLDFPDDHPMLEHFRFLKRHADIAHVTAK 137
             L G         + +     R     + G +  P +   L+   + +   +      K
Sbjct: 466 EKLNGIATTQNGWVLSYGSRCYRPP--IIYGTVTRP-EPMTLKEITYAQSLTE---KPVK 519

Query: 138 MTIPSPAVLHFRGGRKAISSEVYPDLD-GFFEDLARTYRKAVKAFYDAGCRYLQFDDTVW 196
             +  P  +       + S       +      +A    + VK   +AG + +Q D+  +
Sbjct: 520 GMLTGPVTIM------SWSYYREDIPEREIAYQIALAINEEVKDLEEAGIKIVQIDEPAF 573

Query: 197 AYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSDMVITTHVCRGNFRSTWISSG 256
                         +        +      N A   RP +  I  H+C  +F        
Sbjct: 574 REKAP--------IKKSKWPEYFEWAINAFNLAANARP-ETQIHAHMCYSDFNEII---- 620

Query: 257 GYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGNKVVVVGVITSKFGELEKKDD 316
                    +  + +D   +E    +              K + VGV       +   ++
Sbjct: 621 -------EYIHQLEFDVISIEASRSKGEIISAFENFKGWIKQIGVGVWDIHSPAVPSINE 673

Query: 317 IKRRLDEAAKFAPLAQLALSPQCGFASTEEGNILSEQEQWDKLRLAVEVAQDVW 370
           ++  ++   +  P   + ++P CG  +       +  E    LR  V +A+++ 
Sbjct: 674 MREIVERVLRVLPKELIWINPDCGLKT------RNWDEVIPSLRNMVALAKEMR 721


>3bq6A [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-
          Length = 716

 Score =  136 bits (342), Expect = 1e-34
 Identities = 33/355 (9%), Positives = 84/355 (23%), Gaps = 62/355 (17%)

Query: 13  VGSLLRP---QSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGEFRR 69
                +    +  K A     KG+I+        + ++   + +     + +    E   
Sbjct: 5   AFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMN-KLRMYMVENYRKNVDVIPSNELSY 63

Query: 70  SWWHFDFLSHLTGCELYHPDTG-----------------IQFAGVQTRNDSIRVIGKLDF 112
             +  D    +        +                    +F           +  +  +
Sbjct: 64  YDFVLDTAVMVGAVPERFGEYRGLSTYFDMARGGKALEMTKFFNTNYHYLVPEIETEEFY 123

Query: 113 PDDHPMLEHFRFLKRHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLAR 172
             ++  LE + F K       +     +  P    +   R          ++   E L  
Sbjct: 124 LLENKPLEDYLFFKS----KGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLLESLVS 179

Query: 173 TYRKAVKAFYDAGCRYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAE 232
            Y++  +   + GC+ +  ++  +     +                       +   ++E
Sbjct: 180 VYKEVFEKLVENGCKEILVNEPAFVCDLEKAHWD---------------LILNVYRELSE 224

Query: 233 RPSDMVITTHVCRGNFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFL 292
            P    +T                      E     +       ++ S         +  
Sbjct: 225 FP----LTVFTY-----------YDSVSDYE-ACVSLPVKRLHFDFVSNEENLKNLEKHG 268

Query: 293 PKGNKVVVVGVITSKFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEG 347
              +K +V GVI  +         +   ++       L   A+S  C        
Sbjct: 269 FPEDKKLVAGVINGRQPWKVDLRKVASLVE------KLGASAISNSCPLFHLPVT 317



 Score =  130 bits (327), Expect = 7e-33
 Identities = 51/364 (14%), Positives = 109/364 (29%), Gaps = 41/364 (11%)

Query: 7   PFRADEVGSLLRPQSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGE 66
            F    +GS  +   ++  R++  K E    +       +I+K +  Q  IGL +   GE
Sbjct: 393 LFPTTTIGSFPQTPEVRKMRSKYRKKE----EYEAFIKEQIKKAIELQEEIGLDVLVHGE 448

Query: 67  FRRSWWHFDFLSHLTGCELYHPDTGIQFAGVQTRNDSIRVIGKLDFPDDHPMLEHFRFLK 126
           F R+     F   L G         + +    +R     +I       +   L+   + +
Sbjct: 449 FERTDMVEFFAEKLNGIATTQNGWVLSY---GSRCYRPPIIYGTVTRPEPMTLKEITYAQ 505

Query: 127 RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRKAVKAFYDAGC 186
              +      K  +  P  +                       +A    + VK   +AG 
Sbjct: 506 SLTE---KPVKGMLTGPVTIMSW-----SYYREDIPEREIAYQIALAINEEVKDLEEAGI 557

Query: 187 RYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSDMVITTHVCRG 246
           + +Q D+  +              +        +      N A   RP   +        
Sbjct: 558 KIVQIDEPAFREKAPI--------KKSKWPEYFEWAINAFNLAANARPETQIHAHMCYSD 609

Query: 247 NFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGNKVVVVGVITS 306
                      +  + E +   + +D   +E    +              K + VGV   
Sbjct: 610 -----------FNEIIEYIHQ-LEFDVISIEASRSKGEIISAFENFKGWIKQIGVGVWDI 657

Query: 307 KFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEGNILSEQEQWDKLRLAVEVA 366
               +   ++++  ++   +  P   + ++P CG  +       +  E    LR  V +A
Sbjct: 658 HSPAVPSINEMREIVERVLRVLPKELIWINPDCGLKT------RNWDEVIPSLRNMVALA 711

Query: 367 QDVW 370
           +++ 
Sbjct: 712 KEMR 715


>3bq5A [x.x.x] 5-METHYLTETRAHYDROPTEROYLTRIGLUTAMATE-
          Length = 709

 Score =  128 bits (322), Expect = 3e-32
 Identities = 32/351 (9%), Positives = 82/351 (23%), Gaps = 54/351 (15%)

Query: 13  VGSLLRP---QSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGEFRR 69
                +    +  K A     KG+I+        + ++   + +     + +    E   
Sbjct: 5   AFGFPKIGEKREFKKALEDFWKGKITEEQFEEEMN-KLRMYMVENYRKNVDVIPSNELSY 63

Query: 70  SWWHFDFLSHLTGC-ELYHPDTGIQFAGVQTRN----------DSIRVIGKLDFPDDHPM 118
             +  D    +    E +    G+       R           ++       +   +   
Sbjct: 64  YDFVLDTAVMVGAVPERFGEYRGLSTYFDMARGGKALEMTKFFNTNYHYLVPEIETEEFY 123

Query: 119 LEHFRFLK--RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRK 176
           L   + L+         +     +  P    +   R          ++   E L   Y++
Sbjct: 124 LLENKPLEDYLFFKSKGIETAPWVIGPFTFLYLSKRNGEWIRRPNQMEKLLESLVSVYKE 183

Query: 177 AVKAFYDAGCRYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSD 236
             +   + GC+ +  ++  +     +                           +    S+
Sbjct: 184 VFEKLVENGCKEILVNEPAFVCDLEKAHWDLIL-------------------NVYRELSE 224

Query: 237 MVITTHVCRGNFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGN 296
             +T                      E     +       ++ S         +     +
Sbjct: 225 FPLTVFTY-----------YDSVSDYE-ACVSLPVKRLHFDFVSNEENLKNLEKHGFPED 272

Query: 297 KVVVVGVITSKFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEG 347
           K +V GVI  +         +   ++       L   A+S  C        
Sbjct: 273 KKLVAGVINGRQPWKVDLRKVASLVE------KLGASAISNSCPLFHLPVT 317



 Score =  117 bits (294), Expect = 5e-29
 Identities = 54/363 (14%), Positives = 108/363 (29%), Gaps = 50/363 (13%)

Query: 7   PFRADEVGSLLRPQSIKDARARLEKGEISAADLRRIEDMEIEKIVHKQSAIGLKLATDGE 66
            F    +GS  +   ++  R++  K +I             +K +  Q  IGL +   GE
Sbjct: 396 LFPTTTIGSFPQTPEVRKMRSKFIKEQI-------------KKAIELQEEIGLDVLVHGE 442

Query: 67  FRRSWWHFDFLSHLTGCELYHPDTGIQFAGVQTRNDSIRVIGKLDFPDDHPMLEHFRFLK 126
           F R+     F   L G         + +     R   I            P     + + 
Sbjct: 443 FERTDMVEFFAEKLNGIATTQNGWVLSYGSRCYRPPII------YGTVTRPEPMTLKEIT 496

Query: 127 RHADIAHVTAKMTIPSPAVLHFRGGRKAISSEVYPDLDGFFEDLARTYRKAVKAFYDAGC 186
               +     K  +  P  +      +    E           +A    + VK   +AG 
Sbjct: 497 YAQSLTEKPVKGMLTGPVTIMSWSYYREDIPE-----REIAYQIALAINEEVKDLEEAGI 551

Query: 187 RYLQFDDTVWAYLCSQDELQKARERGDNPDNLQQIYSRVINYAIAERPSDMVITTHVCRG 246
           + +Q D+  +              +        +      N A   RP +  I  H+C  
Sbjct: 552 KIVQIDEPAFREKAP--------IKKSKWPEYFEWAINAFNLAANARP-ETQIHAHMCYS 602

Query: 247 NFRSTWISSGGYEPVAETLLAGINYDGYFLEYDSERAGGFEPLRFLPKGNKVVVVGVITS 306
           +F                 +  + +D   +E    +              K + VGV   
Sbjct: 603 DFNEII-----------EYIHQLEFDVISIEASRSKGEIISAFENFKGWIKQIGVGVWDI 651

Query: 307 KFGELEKKDDIKRRLDEAAKFAPLAQLALSPQCGFASTEEGNILSEQEQWDKLRLAVEVA 366
               +   ++++  ++   +  P   + ++P CG  +       +  E    LR  V +A
Sbjct: 652 HSPAVPSINEMREIVERVLRVLPKELIWINPDCGLKT------RNWDEVIPSLRNMVALA 705

Query: 367 QDV 369
           +++
Sbjct: 706 KEM 708


  Database: 95pdb09Oct16_0000
    Posted date:  Oct 27, 2009  4:27 PM
  Number of letters in database: 15,983,541
  Number of sequences in database:  66,450
  
Lambda     K      H
   0.326    0.138    0.417 

Gapped
Lambda     K      H
   0.267   0.0454    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 66450
Number of Hits to DB: 22,014,515
Number of extensions: 1359944
Number of successful extensions: 16328
Number of sequences better than 1.0e-03: 10
Number of HSP's gapped: 7432
Number of HSP's successfully gapped: 954
Length of database: 100,000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)