BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= psy498
         (189 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|3ZTQ|A Chain A, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|B Chain B, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|C Chain C, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|D Chain D, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|E Chain E, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|F Chain F, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|G Chain G, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTQ|H Chain H, Hexagonal Crystal Form P61 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTO|A Chain A, Orthorhombic Crystal Form C222 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTP|A Chain A, Orthorhombic Crystal Form P21212 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTP|C Chain C, Orthorhombic Crystal Form P21212 Of The Aquifex Aeolicus
           Nucleoside Diphosphate Kinase
 pdb|3ZTR|A Chain A, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|B Chain B, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|C Chain C, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|D Chain D, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|E Chain E, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|F Chain F, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|G Chain G, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|H Chain H, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|I Chain I, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|J Chain J, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|K Chain K, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTR|L Chain L, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (First Stage Of Radiation Damage)
 pdb|3ZTS|A Chain A, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|B Chain B, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|C Chain C, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|D Chain D, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|E Chain E, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|F Chain F, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|G Chain G, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|H Chain H, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|I Chain I, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|J Chain J, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|K Chain K, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
 pdb|3ZTS|L Chain L, Hexagonal Form P6122 Of The Aquifex Aeolicus Nucleoside
           Diphosphate Kinase (Final Stage Of Radiation Damage)
          Length = 142

 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 27/107 (25%), Positives = 56/107 (52%), Gaps = 7/107 (6%)

Query: 68  TIAFLRPHANDSKS--ELFQDLINHGFEFINLLMVEFNEE----IKRIMSQQEYTARIPI 121
           T+  ++P A +  +  ++    I  GF+   L M  F  E       +  ++ +   + +
Sbjct: 6   TLIIVKPDAMEKGALGKILDRFIQEGFQIKALKMFRFTPEKAGEFYYVHRERPFFQEL-V 64

Query: 122 SSMLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
             M +GPV+   L G +A++++++++GP D EEA    P+S+RA++ 
Sbjct: 65  EFMSSGPVVAAVLEGEDAIKRVREIIGPTDSEEARKVAPNSIRAQFG 111


>pdb|2HUR|A Chain A, Escherichia Coli Nucleoside Diphosphate Kinase
 pdb|2HUR|B Chain B, Escherichia Coli Nucleoside Diphosphate Kinase
 pdb|2HUR|C Chain C, Escherichia Coli Nucleoside Diphosphate Kinase
 pdb|2HUR|D Chain D, Escherichia Coli Nucleoside Diphosphate Kinase
 pdb|2HUR|E Chain E, Escherichia Coli Nucleoside Diphosphate Kinase
 pdb|2HUR|F Chain F, Escherichia Coli Nucleoside Diphosphate Kinase
          Length = 142

 Score = 35.8 bits (81), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 29/45 (64%), Gaps = 3/45 (6%)

Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
           M +GP++V  L G NAVQ+ +D++G  +   AL+    +LRA Y+
Sbjct: 66  MTSGPIVVSVLEGENAVQRHRDLLGATNPANALAG---TLRADYA 107


>pdb|3VGS|A Chain A, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGS|B Chain B, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGT|A Chain A, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGT|B Chain B, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGT|C Chain C, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGT|D Chain D, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGT|E Chain E, Wild-Type Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
          Length = 141

 Score = 31.2 bits (69), Expect = 0.38,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 3/46 (6%)

Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSH 169
           M +GPV+V  L G NA+   +D++G  + +EA +    ++RA Y+ 
Sbjct: 67  MTSGPVVVQVLEGENAIAANRDLMGATNPKEAEAG---TIRADYAQ 109


>pdb|3VGU|A Chain A, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|B Chain B, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|C Chain C, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|D Chain D, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|E Chain E, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|F Chain F, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|G Chain G, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGU|H Chain H, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|A Chain A, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|B Chain B, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|C Chain C, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|D Chain D, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|E Chain E, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|F Chain F, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|G Chain G, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|H Chain H, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|I Chain I, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|J Chain J, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|K Chain K, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|L Chain L, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|M Chain M, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|N Chain N, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|O Chain O, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
 pdb|3VGV|P Chain P, E134a Mutant Nucleoside Diphosphate Kinase Derived From
           Halomonas Sp. 593
          Length = 141

 Score = 31.2 bits (69), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 3/46 (6%)

Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSH 169
           M +GPV+V  L G NA+   +D++G  + +EA +    ++RA Y+ 
Sbjct: 67  MTSGPVVVQVLEGENAIAANRDLMGATNPKEAEAG---TIRADYAQ 109


>pdb|3PJ9|A Chain A, Crystal Structure Of A Nucleoside Diphosphate Kinase From
           Campylobacter Jejuni
 pdb|3PJ9|B Chain B, Crystal Structure Of A Nucleoside Diphosphate Kinase From
           Campylobacter Jejuni
 pdb|3PJ9|C Chain C, Crystal Structure Of A Nucleoside Diphosphate Kinase From
           Campylobacter Jejuni
 pdb|3PJ9|D Chain D, Crystal Structure Of A Nucleoside Diphosphate Kinase From
           Campylobacter Jejuni
          Length = 140

 Score = 30.8 bits (68), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 29/46 (63%), Gaps = 3/46 (6%)

Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYSH 169
           M++GPV+V  L G  AV K +D++G  + +EA +    ++RA ++ 
Sbjct: 68  MISGPVVVSILEGEGAVLKNRDLMGATNPKEAKAG---TIRADFAE 110


>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
           Bound To Origin Dna (From S. Solfataricus)
          Length = 386

 Score = 30.8 bits (68), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 25/93 (26%), Positives = 53/93 (56%), Gaps = 10/93 (10%)

Query: 24  FIGNSV-KLFSRILKIV-DYGDRILKIVDYGDRYTKSYLESTNYQCTIAFLRPHANDSKS 81
           F G S+ +L+ R++K V DYG +++ ++D  D + K Y +   Y+ +    R ++  +KS
Sbjct: 107 FTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLS----RINSEVNKS 162

Query: 82  ELFQDLINHGFEFINLLMVEFNEEIKRIMSQQE 114
           ++    I +  +F++LL    +  +K  +S++E
Sbjct: 163 KISFIGITNDVKFVDLL----DPRVKSSLSEEE 191


>pdb|1XLM|A Chain A, D254e, D256e Mutant Of D-Xylose Isomerase Complexed With
           Al3 And Xylitol
 pdb|1XLM|B Chain B, D254e, D256e Mutant Of D-Xylose Isomerase Complexed With
           Al3 And Xylitol
          Length = 394

 Score = 30.0 bits (66), Expect = 0.83,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 43  DRILKIVDYGDRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLL 98
           DR+ + VD        Y++   Y   IA L P  N+ + ++F   + HG  FI  L
Sbjct: 155 DRMREGVDT----AAGYIKDKGYNLRIA-LEPKPNEPRGDIFLPTVGHGLAFIEQL 205


>pdb|1DID|A Chain A, Observations Of Reaction Intermediates And The Mechanism
           Of Aldose- Ketose Interconversion By D-Xylose Isomerase
 pdb|1DID|B Chain B, Observations Of Reaction Intermediates And The Mechanism
           Of Aldose- Ketose Interconversion By D-Xylose Isomerase
 pdb|1DIE|A Chain A, Observations Of Reaction Intermediates And The Mechanism
           Of Aldose- Ketose Interconversion By D-Xylose Isomerase
 pdb|1DIE|B Chain B, Observations Of Reaction Intermediates And The Mechanism
           Of Aldose- Ketose Interconversion By D-Xylose Isomerase
 pdb|1XLA|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLA|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLB|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLB|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLC|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLC|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLD|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLD|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLE|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLE|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLF|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLF|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLG|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLG|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLH|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLH|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLI|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLI|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLJ|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLJ|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLK|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLK|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLL|A Chain A, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
 pdb|1XLL|B Chain B, Mechanism For Aldose-Ketose Interconversion By D-Xylose
           Isomerase Involving Ring Opening Followed By A
           1,2-Hydride Shift
          Length = 394

 Score = 30.0 bits (66), Expect = 0.86,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 43  DRILKIVDYGDRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLL 98
           DR+ + VD        Y++   Y   IA L P  N+ + ++F   + HG  FI  L
Sbjct: 155 DRMREGVDT----AAGYIKDKGYNLRIA-LEPKPNEPRGDIFLPTVGHGLAFIEQL 205


>pdb|4XIA|A Chain A, Structures Of D-xylose Isomerase From Arthrobacter Strain
           B3728 Containing The Inhibitors Xylitol And D-sorbitol
           At 2.5 Angstroms And 2.3 Angstroms Resolution,
           Respectively
 pdb|4XIA|B Chain B, Structures Of D-xylose Isomerase From Arthrobacter Strain
           B3728 Containing The Inhibitors Xylitol And D-sorbitol
           At 2.5 Angstroms And 2.3 Angstroms Resolution,
           Respectively
 pdb|5XIA|A Chain A, Structures Of D-Xylose Isomerase From Arthrobacter Strain
           B3728 Containing The Inhibitors Xylitol And D-Sorbitol
           At 2.5 Angstroms And 2.3 Angstroms Resolution,
           Respectively
 pdb|5XIA|B Chain B, Structures Of D-Xylose Isomerase From Arthrobacter Strain
           B3728 Containing The Inhibitors Xylitol And D-Sorbitol
           At 2.5 Angstroms And 2.3 Angstroms Resolution,
           Respectively
          Length = 393

 Score = 30.0 bits (66), Expect = 0.87,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 5/56 (8%)

Query: 43  DRILKIVDYGDRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLL 98
           DR+ + VD        Y++   Y   IA L P  N+ + ++F   + HG  FI  L
Sbjct: 154 DRMREGVDT----AAGYIKDKGYNLRIA-LEPKPNEPRGDIFLPTVGHGLAFIEQL 204


>pdb|1EHW|A Chain A, Human Nucleoside Diphosphate Kinase 4
 pdb|1EHW|B Chain B, Human Nucleoside Diphosphate Kinase 4
          Length = 162

 Score = 29.6 bits (65), Expect = 0.97,   Method: Compositional matrix adjust.
 Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 10/93 (10%)

Query: 81  SELFQDLINHGFEFINLLMVEFNEEIKRIMSQQEYTARIP-----ISSMLNGPVIVFQLR 135
            ++ Q     GF  + + M++  E +  +    +   R P     I  M +GPV+     
Sbjct: 42  GDVIQRFERRGFTLVGMKMLQAPESV--LAEHYQDLRRKPFYPALIRYMSSGPVVAMVWE 99

Query: 136 GVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
           G N V+  + ++G  D  EA    P ++R  +S
Sbjct: 100 GYNVVRASRAMIGHTDSAEAA---PGTIRGDFS 129


>pdb|2NCK|R Chain R, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
 pdb|2NCK|L Chain L, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
 pdb|1NLK|R Chain R, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
 pdb|1NLK|L Chain L, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
 pdb|1NHK|R Chain R, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
 pdb|1NHK|L Chain L, Crystal Structure Of Myxococcus Xanthus Nucleoside
           Diphosphate Kinase And Its Interaction With A Nucleotide
           Substrate At 2.0 Angstroms Resolution
          Length = 144

 Score = 28.9 bits (63), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 21/32 (65%)

Query: 124 MLNGPVIVFQLRGVNAVQKLQDVVGPADREEA 155
           M++GPV++  L G NAV   +D++G  +  +A
Sbjct: 66  MISGPVVLMVLEGENAVLANRDIMGATNPAQA 97


>pdb|2Y3T|A Chain A, Mutant (K220e) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
 pdb|2Y3T|B Chain B, Mutant (K220e) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
 pdb|2Y3T|C Chain C, Mutant (K220e) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
 pdb|2Y3T|D Chain D, Mutant (K220e) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
          Length = 1033

 Score = 27.7 bits (60), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 8/45 (17%)

Query: 53 DRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINL 97
          D+Y K+     +YQ          +D + EL QDL N G+EFI++
Sbjct: 18 DKYIKAEPTGDSYQS--------ESDLERELIQDLRNQGYEFISV 54


>pdb|2W00|A Chain A, Crystal Structure Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
 pdb|2W00|B Chain B, Crystal Structure Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
          Length = 1038

 Score = 27.7 bits (60), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 8/45 (17%)

Query: 53 DRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINL 97
          D+Y K+     +YQ          +D + EL QDL N G+EFI++
Sbjct: 18 DKYIKAEPTGDSYQS--------ESDLERELIQDLRNQGYEFISV 54


>pdb|2W74|B Chain B, Mutant (K220r) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
 pdb|2W74|D Chain D, Mutant (K220r) Of The Hsdr Subunit Of The Ecor124i
          Restriction Enzyme In Complex With Atp
          Length = 875

 Score = 27.7 bits (60), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 8/45 (17%)

Query: 53 DRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINL 97
          D+Y K+     +YQ          +D + EL QDL N G+EFI++
Sbjct: 7  DKYIKAEPTGDSYQS--------ESDLERELIQDLRNQGYEFISV 43


>pdb|1XQI|A Chain A, Crystal Structure Analysis Of An Ndp Kinase From
           Pyrobaculum Aerophilum
 pdb|1XQI|B Chain B, Crystal Structure Analysis Of An Ndp Kinase From
           Pyrobaculum Aerophilum
 pdb|1XQI|C Chain C, Crystal Structure Analysis Of An Ndp Kinase From
           Pyrobaculum Aerophilum
          Length = 195

 Score = 27.3 bits (59), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 3/43 (6%)

Query: 126 NGPVIVFQLRGVNAVQKLQDVVGPADREEALSNYPHSLRARYS 168
           +GP +V  L+G  AV+ ++ +VGP     A    P ++R  YS
Sbjct: 114 SGPNVVXVLKGNRAVEIVRKLVGPTSPHSA---PPGTIRGDYS 153


>pdb|2BH1|X Chain X, X-Ray Structure Of The General Secretion Pathway Complex
           Of The N-Terminal Domain Of Epse And The Cytosolic
           Domain Of Epsl Of Vibrio Cholerae
 pdb|2BH1|Y Chain Y, X-Ray Structure Of The General Secretion Pathway Complex
           Of The N-Terminal Domain Of Epse And The Cytosolic
           Domain Of Epsl Of Vibrio Cholerae
          Length = 96

 Score = 26.6 bits (57), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 15/78 (19%), Positives = 37/78 (47%), Gaps = 10/78 (12%)

Query: 41  YGDRILKIVDYGDRYTKSYLESTNYQCTIAFLRPHANDSKSELFQDLINHGFEFINLLMV 100
           + +R   ++D+ + ++         Q +I +L P + ++  E  + ++ H F+ I L   
Sbjct: 21  FANRFKLVLDWNEDFS---------QASIYYLAPLSMEALVET-KRVVKHAFQLIELSQA 70

Query: 101 EFNEEIKRIMSQQEYTAR 118
           EF  ++ ++  +    AR
Sbjct: 71  EFESKLTQVYQRDSSEAR 88


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.321    0.138    0.392 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,341,801
Number of Sequences: 62578
Number of extensions: 204308
Number of successful extensions: 574
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 19
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)