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= 004734
(732 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T5P|A Chain A, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|B Chain B, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|C Chain C, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|D Chain D, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|E Chain E, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|F Chain F, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|G Chain G, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|H Chain H, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|I Chain I, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|J Chain J, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|K Chain K, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|L Chain L, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
Length = 306
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 68/269 (25%), Positives = 108/269 (40%), Gaps = 56/269 (20%)
Query: 419 VLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLARVLFWGGGLSSVERNGGLCT 478
++V GGDGTV N + P +AI+P GT ND +R L V +N
Sbjct: 71 IIVFGGDGTVFECTNGLAPLEI--RPTLAIIPGGTCNDFSRTL-------GVPQNIAEAA 121
Query: 479 MLQHIEHAAVTILDRWKVAILNQQGKLLEPPKFLNNYLGVGCDAKVALDIHNLREENPEK 538
L EH + VA N Q FL N+ G+G ++V+ +N+ E K
Sbjct: 122 KLITKEH-----VKPVDVAKANGQ-------HFL-NFWGIGLVSEVS---NNIDAEEKAK 165
Query: 539 FYNQFMNKVLYAREGAKSIMDRTFEDFPWQVRVVVDGTEIEVPEDAEGVLVANIGSYMGG 598
+ K+ Y +++ + E FP V++ DG +V ED ++ G Y+GG
Sbjct: 166 -----LGKIGYYLSTIRTV--KNAETFP--VKITYDG---QVYEDEAVLVXVGNGEYLGG 213
Query: 599 VDLWQNEDENYDNFDPQ-SMHDKVLEVVSISGTW------HLGKLQVGLSRARRL--AQG 649
+ +F P D L++ + T ++GK S + +
Sbjct: 214 I----------PSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKA 263
Query: 650 QSIRIQLFAPLPVQIDGEPWFQQPCTLAI 678
+SI I+ V DGE PC + +
Sbjct: 264 KSIHIETEEEKEVDTDGESSLHTPCQIEL 292
>pdb|3S40|A Chain A, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|B Chain B, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|C Chain C, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|D Chain D, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
Length = 304
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 68/269 (25%), Positives = 108/269 (40%), Gaps = 56/269 (20%)
Query: 419 VLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLARVLFWGGGLSSVERNGGLCT 478
++V GGDGTV N + P +AI+P GT ND +R L V +N
Sbjct: 67 IIVFGGDGTVFECTNGLAPLEI--RPTLAIIPGGTCNDFSRTL-------GVPQNIAEAA 117
Query: 479 MLQHIEHAAVTILDRWKVAILNQQGKLLEPPKFLNNYLGVGCDAKVALDIHNLREENPEK 538
L EH + VA N Q FL N+ G+G ++V+ +N+ E K
Sbjct: 118 KLITKEH-----VKPVDVAKANGQ-------HFL-NFWGIGLVSEVS---NNIDAEEKAK 161
Query: 539 FYNQFMNKVLYAREGAKSIMDRTFEDFPWQVRVVVDGTEIEVPEDAEGVLVANIGSYMGG 598
+ K+ Y +++ + E FP V++ DG +V ED ++ G Y+GG
Sbjct: 162 -----LGKIGYYLSTIRTV--KNAETFP--VKITYDG---QVYEDEAVLVXVGNGEYLGG 209
Query: 599 VDLWQNEDENYDNFDPQ-SMHDKVLEVVSISGTW------HLGKLQVGLSRARRL--AQG 649
+ +F P D L++ + T ++GK S + +
Sbjct: 210 I----------PSFIPNVKCDDGTLDIFVVKSTGIQAFKDYIGKKLFEDSNENDIFHVKA 259
Query: 650 QSIRIQLFAPLPVQIDGEPWFQQPCTLAI 678
+SI I+ V DGE PC + +
Sbjct: 260 KSIHIETEEEKEVDTDGESSLHTPCQIEL 288
>pdb|2QV7|A Chain A, Crystal Structure Of Diacylglycerol Kinase Dgkb In Complex
With Adp And Mg
pdb|2QVL|A Chain A, Crystal Structure Of Diacylglycerol Kinase
Length = 337
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 419 VLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLARVL 461
++ GGDGT+ V+N I ++ + P + ++P GT ND R L
Sbjct: 84 LIAAGGDGTLNEVVNGIAEK--PNRPKLGVIPXGTVNDFGRAL 124
>pdb|2BON|A Chain A, Structure Of An Escherichia Coli Lipid Kinase (Yegs)
pdb|2BON|B Chain B, Structure Of An Escherichia Coli Lipid Kinase (Yegs)
Length = 332
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 412 RKVPHFRVLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLA 458
RK V+ GGDGT+ V A+ + P + ILP GT ND A
Sbjct: 79 RKFGVATVIAGGGDGTINEVSTALIQCEGDDIPALGILPLGTANDFA 125
>pdb|2JGR|A Chain A, Crystal Structure Of Yegs In Complex With Adp
Length = 299
Score = 33.1 bits (74), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%)
Query: 412 RKVPHFRVLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLA 458
RK V+ GGDGT+ V A+ + P + ILP GT ND A
Sbjct: 54 RKFGVATVIAGGGDGTINEVSTALIQCEGDDIPALGILPLGTANDFA 100
>pdb|4GWP|A Chain A, Structure Of The Mediator Head Module From S. Cerevisiae
pdb|4GWQ|A Chain A, Structure Of The Mediator Head Module From S. Cerevisiae
In Complex With The Carboxy-Terminal Domain (Ctd) Of Rna
Polymerase Ii Rpb1 Subunit
Length = 115
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 39/71 (54%), Gaps = 2/71 (2%)
Query: 321 GELDKKIES-KPSFKRS-GSINQKDESQILQLKQKYELIDMPPDARPLLVFINKKSGAQR 378
GEL + ES KP F+ ++ + QL+++ +L+D R L + +NKK+ Q
Sbjct: 35 GELKRGNESVKPQFENHVKQFYERLDKSTTQLRKEIQLLDENVGTRLLPINVNKKALGQD 94
Query: 379 GDSLRQRLNLL 389
+ + ++L+LL
Sbjct: 95 TEKMEEQLDLL 105
>pdb|1A0H|A Chain A, The X-Ray Crystal Structure Of Ppack-Meizothrombin Desf1:
KringleTHROMBIN AND CARBOHYDRATEKRINGLETHROMBIN
INTERACTIONS AND Location Of The Linker Chain
pdb|1A0H|D Chain D, The X-Ray Crystal Structure Of Ppack-Meizothrombin Desf1:
KringleTHROMBIN AND CARBOHYDRATEKRINGLETHROMBIN
INTERACTIONS AND Location Of The Linker Chain
Length = 159
Score = 31.6 bits (70), Expect = 1.7, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 159 WTEITDQPSEASFC--SYCEEPCSGSF---LGGSP 188
W + DQP + +C +YCEEP G LG P
Sbjct: 67 WCYVADQPGDFEYCDLNYCEEPVDGDLGDRLGEDP 101
>pdb|2P1R|A Chain A, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|B Chain B, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|C Chain C, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases.
pdb|2P1R|D Chain D, Crystal Structure Of Salmonella Typhimurium Yegs, A
Putative Lipid Kinase Homologous To Eukaryotic
Sphingosine And Diacylglycerol Kinases
Length = 299
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%)
Query: 412 RKVPHFRVLVCGGDGTVGWVLNAIDKQNFVSPPPVAILPAGTGNDLA 458
R++ V+ GGDGT+ V A+ + P + +LP GT ND A
Sbjct: 54 RRLGVETVIAGGGDGTINEVSTALIQIRDGVAPALGLLPLGTANDFA 100
>pdb|3SZ3|A Chain A, Crystal Structure Of Tryptophanyl-Trna Synthetase From
Vibrio Cholerae With An Endogenous Tryptophan
Length = 341
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 13/50 (26%)
Query: 591 NIGSYMGGVDLWQNEDENYD-------------NFDPQSMHDKVLEVVSI 627
+IG+Y+G + WQ ++YD DPQ++H+ L+ ++I
Sbjct: 20 SIGNYLGALRQWQQMQDDYDCQYCVVDLHAITVRQDPQALHEATLDALAI 69
>pdb|2RHS|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
pdb|2RHS|D Chain D, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 800
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 570 RVVVDGTEIEVPEDAEGVLVANIGSYMGGVDLWQNEDENYDNFDPQSMHDKVLEVVSISG 629
RV E E+P++ E + G Y+ V+ WQ + E D F + + D+V E +++
Sbjct: 583 RVFFGNGEGELPDEVEYLSGILTGEYV--VNAWQGKKEEIDFFIAKGVVDRVAEKLNLEF 640
Query: 630 TWHLGKLQVGLSRAR 644
++ GK++ GL R
Sbjct: 641 SYKAGKIE-GLHPGR 654
>pdb|2RHQ|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 795
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 39/75 (52%), Gaps = 3/75 (4%)
Query: 570 RVVVDGTEIEVPEDAEGVLVANIGSYMGGVDLWQNEDENYDNFDPQSMHDKVLEVVSISG 629
RV E E+P++ E + G Y+ V+ WQ + E D F + + D+V E +++
Sbjct: 579 RVFFGNGEGELPDEVEYLSGILTGEYV--VNAWQGKKEEIDFFIAKGVVDRVAEKLNLEF 636
Query: 630 TWHLGKLQVGLSRAR 644
++ GK++ GL R
Sbjct: 637 SYKAGKIE-GLHPGR 650
>pdb|3RJ1|A Chain A, Architecture Of The Mediator Head Module
pdb|3RJ1|H Chain H, Architecture Of The Mediator Head Module
pdb|3RJ1|O Chain O, Architecture Of The Mediator Head Module
Length = 131
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 321 GELDKKIES-KPSFKRS-GSINQKDESQILQLKQKYELIDMPPDARPLLVFINKKSGAQR 378
GEL + ES KP F+ ++ + QL+++ +L+D R L + +NKK+ Q
Sbjct: 51 GELKRGNESVKPQFENHVKQFYERLDKSTTQLRKEIQLLDENVGTRLLPINVNKKALGQD 110
Query: 379 GDSLRQRLNLL 389
+ ++L+LL
Sbjct: 111 TEKXEEQLDLL 121
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
0.319 0.135 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,444,134
Number of Sequences: 62578
Number of extensions: 892118
Number of successful extensions: 1764
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1756
Number of HSP's gapped (non-prelim): 17
length of query: 732
length of database: 14,973,337
effective HSP length: 106
effective length of query: 626
effective length of database: 8,340,069
effective search space: 5220883194
effective search space used: 5220883194
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: 55 (25.8 bits)