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= 009304
(538 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VFR|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2): Native
Enzyme
pdb|2VFS|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Xylitol
pdb|2VFT|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Sorbitol
pdb|2VFU|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Mannitol
pdb|2VFV|A Chain A, Alditol Oxidase From Streptomyces Coelicolor A3(2):
Complex With Sulphite
Length = 422
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 68/145 (46%), Gaps = 9/145 (6%)
Query: 44 HSIPKLVCPDGQDGLLISTKYLNKIINIDTEAMTITMESGVTLRQIIGESAKAGLALPYT 103
HS ++ P G G+L+S L ++++DT A T+ + GV ++ GLALP
Sbjct: 50 HSFNEIAEP-GDGGVLLSLAGLPSVVDVDTAARTVRVGGGVRYAELARVVHARGLALPNM 108
Query: 104 PYXXXXXXXXXXXXXAHGSSLWGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDL 163
HGS + G G S+ V E+ +V++ G V+ D+
Sbjct: 109 ASLPHISVAGSVATGTHGSGV-GNG-SLASVVREVELVTADG------STVVIARGDERF 160
Query: 164 DAAKVSLGVLGVISQVTLKLQPLFK 188
A SLG LGV++ +TL L+P ++
Sbjct: 161 GGAVTSLGALGVVTSLTLDLEPAYE 185
>pdb|4AUT|A Chain A, Crystal Structure Of The Tuberculosis Drug Target
Decaprenyl-Phosphoryl-Beta-D-Ribofuranose-2-
Oxidoreductase (Dpre1) From Mycobacterium Smegmatis
pdb|4F4Q|A Chain A, Crystal Structure Of M. Smegmatis Dpre1 In Complex With
Fad And Covalently Bound Btz043
Length = 468
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 80/184 (43%), Gaps = 12/184 (6%)
Query: 5 RSACKAADVAYPTSEQEIISVVSAATIAKRKMKVATRFSHSIPKLVCPDGQDGLLISTKY 64
R+A A V + + I+ V+ A + +A S G GL+I
Sbjct: 26 RTAPTVASVLSTSDPEVIVRAVTRAAEEGGRGVIARGLGRSYGDNAQNGG--GLVIDMPA 83
Query: 65 LNKIINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXXXXXXXXAHGSSL 124
LN+I +ID+ + +++GV+L Q++ + GL +P P HG +
Sbjct: 84 LNRIHSIDSGTRLVDVDAGVSLDQLMKAALPHGLWVPVLPGTRQVTVGGAIGCDIHGKNH 143
Query: 125 WGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNEN--DQDLDAAKV-SLGVLGVISQVTL 181
G S ++V + ++++ G +VR L D DL A V G+ G+I + T+
Sbjct: 144 HSAG-SFGNHVRSMELLTANG------EVRHLTPAGPDSDLFWATVGGNGLTGIILRATI 196
Query: 182 KLQP 185
++ P
Sbjct: 197 EMTP 200
>pdb|4G3T|A Chain A, Mycobacterium Smegmatis Dpre1 - Hexagonal Crystal Form
pdb|4G3U|A Chain A, Mycobacterium Smegmatis Dpre1 - Monoclinic Crystal Form
pdb|4G3U|B Chain B, Mycobacterium Smegmatis Dpre1 - Monoclinic Crystal Form
Length = 403
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 63/132 (47%), Gaps = 10/132 (7%)
Query: 57 GLLISTKYLNKIINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXXXXXX 116
GL+I LN+I +ID+ + +++GV+L Q++ + GL +P P
Sbjct: 11 GLVIDMPALNRIHSIDSGTRLVDVDAGVSLDQLMKAALPHGLWVPVLPGTRQVTVGGAIG 70
Query: 117 XXAHGSSLWGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNEN--DQDLDAAKV-SLGVL 173
HG + G S ++V + ++++ G +VR L D DL A V G+
Sbjct: 71 CDIHGKNHHSAG-SFGNHVRSMELLTANG------EVRHLTPAGPDSDLFWATVGGNGLT 123
Query: 174 GVISQVTLKLQP 185
G+I + T+++ P
Sbjct: 124 GIILRATIEMTP 135
>pdb|4BCA|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
Length = 658
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/181 (20%), Positives = 82/181 (45%), Gaps = 14/181 (7%)
Query: 13 VAYPTSEQEIISVVSAA---TIAKRKMKVATRFSHSIPKLVCPDGQDGLLIS--TKYLNK 67
V +PT +++ +V+ A + + T S+ L+CP + +IS T +N+
Sbjct: 209 VLWPTCHDDVVKIVNLACKYNLCIIPIGGGTSVSYG---LMCPADETRTIISLDTSQMNR 265
Query: 68 IINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXX---XXXXXXAHGSSL 124
I+ +D +T +E+G+T +++ + ++G + P ++
Sbjct: 266 ILWVDENNLTAHVEAGITGQELERQLKESGYCTGHEPDSLEFSTVGGWISTRASGMKKNI 325
Query: 125 WGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTLKLQ 184
+G +I D VV +++V+ G + + ++ S G LGVI++ T+K++
Sbjct: 326 YG---NIEDLVVHMKVVTPRGVIEKSCQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIR 382
Query: 185 P 185
P
Sbjct: 383 P 383
>pdb|4BBY|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BC9|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
Length = 658
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/181 (20%), Positives = 82/181 (45%), Gaps = 14/181 (7%)
Query: 13 VAYPTSEQEIISVVSAA---TIAKRKMKVATRFSHSIPKLVCPDGQDGLLIS--TKYLNK 67
V +PT +++ +V+ A + + T S+ L+CP + +IS T +N+
Sbjct: 209 VLWPTCHDDVVKIVNLACKYNLCIIPIGGGTSVSYG---LMCPADETRTIISLDTSQMNR 265
Query: 68 IINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXX---XXXXXXAHGSSL 124
I+ +D +T +E+G+T +++ + ++G + P ++
Sbjct: 266 ILWVDENNLTAHVEAGITGQELERQLKESGYCTGHEPDSLEFSTVGGWISTRASGMKKNI 325
Query: 125 WGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTLKLQ 184
+G +I D VV +++V+ G + + ++ S G LGVI++ T+K++
Sbjct: 326 YG---NIEDLVVHMKVVTPRGVIEKSCQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIR 382
Query: 185 P 185
P
Sbjct: 383 P 383
>pdb|4BC7|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
Length = 658
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/181 (20%), Positives = 82/181 (45%), Gaps = 14/181 (7%)
Query: 13 VAYPTSEQEIISVVSAA---TIAKRKMKVATRFSHSIPKLVCPDGQDGLLIS--TKYLNK 67
V +PT +++ +V+ A + + T S+ L+CP + +IS T +N+
Sbjct: 209 VLWPTCHDDVVKIVNLACKYNLCIIPIGGGTSVSYG---LMCPADETRTIISLDTSQMNR 265
Query: 68 IINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXX---XXXXXXAHGSSL 124
I+ +D +T +E+G+T +++ + ++G + P ++
Sbjct: 266 ILWVDENNLTAHVEAGITGQELERQLKESGYCTGHEPDSLEFSTVGGWISTRASGMKKNI 325
Query: 125 WGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTLKLQ 184
+G +I D VV +++V+ G + + ++ S G LGVI++ T+K++
Sbjct: 326 YG---NIEDLVVHMKVVTPRGVIEKSCQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIR 382
Query: 185 P 185
P
Sbjct: 383 P 383
>pdb|4FDN|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Hexagonal Crystal Form
pdb|4FDO|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct319
pdb|4FDP|A Chain A, Mycobacterium Tuberculosis Dpre1 - Monoclinic Crystal Form
pdb|4FDP|B Chain B, Mycobacterium Tuberculosis Dpre1 - Monoclinic Crystal Form
pdb|4FEH|A Chain A, Mycobacterium Tuberculosis Dpre1 - Hexagonal Crystal Form
pdb|4FF6|A Chain A, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Monoclinic Crystal Form
pdb|4FF6|B Chain B, Mycobacterium Tuberculosis Dpre1 In Complex With Ct325 -
Monoclinic Crystal Form
Length = 481
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 61/132 (46%), Gaps = 10/132 (7%)
Query: 57 GLLISTKYLNKIINIDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXXXXXX 116
GL+I LN I +ID + + +++GV L Q++ + GL +P P
Sbjct: 89 GLVIDMTPLNTIHSIDADTKLVDIDAGVNLDQLMKAALPFGLWVPVLPGTRQVTVGGAIA 148
Query: 117 XXAHGSSLWGRGSSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSL---GVL 173
HG + G S ++V + ++++ G ++R L +D + ++ G+
Sbjct: 149 CDIHGKNHHSAG-SFGNHVRSMDLLTADG------EIRHLTPTGEDAELFWATVGGNGLT 201
Query: 174 GVISQVTLKLQP 185
G+I + T+++ P
Sbjct: 202 GIIMRATIEMTP 213
>pdb|3JS8|A Chain A, Solvent-Stable Cholesterol Oxidase
Length = 540
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 42/184 (22%), Positives = 72/184 (39%), Gaps = 17/184 (9%)
Query: 16 PTSEQEIISVVSAATIAKRKMKVATRFSHSIPKLVCPDGQDG----LLISTKYLNKI-IN 70
P S E++ V + A K++ A H+ L G LL +T+YL + I+
Sbjct: 36 PRSADEVVKVANWAKDNGYKVR-ARGMMHNWSPLTLAAGVSCPAVVLLDTTRYLTAMSID 94
Query: 71 IDTEAMTITMESGVTLRQIIGESAKAGLALPYTPYXXXXXXXXXXXXXAHGSSLWGRG-- 128
+T ++G+T+ ++ KAGL + P HG+++ +G
Sbjct: 95 ASGPVAKVTAQAGITMEALLTGLEKAGLGVTAAPAPGDLTLGGVLAINGHGTAIPAKGER 154
Query: 129 -------SSIHDYVVELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTL 181
SI + V+ L V YA +R ND + +G +I + TL
Sbjct: 155 RLAGASYGSISNLVLSLTAVVYDKASGAYA-LRKFARNDPQIAPLLAHVG-RSLIVEATL 212
Query: 182 KLQP 185
+ P
Sbjct: 213 QAAP 216
>pdb|3PM9|A Chain A, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|B Chain B, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|C Chain C, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|D Chain D, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|E Chain E, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|F Chain F, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
Length = 476
Score = 32.3 bits (72), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 47/91 (51%), Gaps = 2/91 (2%)
Query: 13 VAYPTSEQEIISVVSAATIAKRKMKVATRFSHSIPKLVCPDGQDGLLISTKYLNKIINID 72
V P S +E++++ A A+ + + + +G+ ++IS K +KI ID
Sbjct: 55 VLRPGSTEEVVAICKLANEARVALVPQGGNTGLVGGQTPHNGE--VVISLKRXDKIREID 112
Query: 73 TEAMTITMESGVTLRQIIGESAKAGLALPYT 103
T + TIT+E+G L+++ ++A+ P +
Sbjct: 113 TSSNTITVEAGAILQRVQEKAAEVDRLFPLS 143
>pdb|1SDM|A Chain A, Crystal Structure Of Kinesin-Like Calmodulin Binding
Protein
pdb|3CNZ|A Chain A, Structural Dynamics Of The Microtubule Binding And
Regulatory Elements In The Kinesin-Like Calmodulin
Binding Protein
pdb|3CNZ|B Chain B, Structural Dynamics Of The Microtubule Binding And
Regulatory Elements In The Kinesin-Like Calmodulin
Binding Protein
pdb|3COB|A Chain A, Structural Dynamics Of The Microtubule Binding And
Regulatory Elements In The Kinesin-Like Calmodulin
Binding Protein
pdb|3COB|C Chain C, Structural Dynamics Of The Microtubule Binding And
Regulatory Elements In The Kinesin-Like Calmodulin
Binding Protein
Length = 369
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 58/115 (50%), Gaps = 13/115 (11%)
Query: 137 ELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTLKLQPLFKRSITFLMK 196
EL+ + G + + ++NE +++ L V +I L+ Q + + ++F+
Sbjct: 180 ELKTIIQRGSEQRHTTGTLMNEQ-----SSRSHLIVSVIIESTNLQTQAIARGKLSFVDL 234
Query: 197 NDSELGDEAGSFGHQHEFADIVWYPSQHKALYRIDDRISSNATGNAVYNYIPFRS 251
SE ++GS G+Q + A + +K+L + D IS+ ++GN +IP+R+
Sbjct: 235 AGSERVKKSGSAGNQLKEAQSI-----NKSLSALGDVISALSSGN---QHIPYRN 281
>pdb|1T1I|A Chain A, High Resolution Crystal Structure Of Mutant W129a Of
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 364
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 129 SSIHDYVVELRIVS--SGGPDDGYAKVRVLNENDQDLDAAKVSLGVL 173
+++HD + IVS +GGP+D +A + N LDAA + + VL
Sbjct: 113 TAVHDPTHKPSIVSISAGGPEDSWAPASIAAMNRAFLDAAALGVTVL 159
>pdb|3H4S|A Chain A, Structure Of The Complex Of A Mitotic Kinesin With Its
Calcium Binding Regulator
Length = 386
Score = 29.3 bits (64), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 58/115 (50%), Gaps = 13/115 (11%)
Query: 137 ELRIVSSGGPDDGYAKVRVLNENDQDLDAAKVSLGVLGVISQVTLKLQPLFKRSITFLMK 196
ELR++ G + + +NE ++++ L + VI + L+ Q + ++F+
Sbjct: 188 ELRMILERGSERRHVSGTNMNE-----ESSRSHLILSVVIESIDLQTQSAARGKLSFVDL 242
Query: 197 NDSELGDEAGSFGHQHEFADIVWYPSQHKALYRIDDRISSNATGNAVYNYIPFRS 251
SE ++GS G+Q + A + +K+L + D I + ++GN +IP+R+
Sbjct: 243 AGSERVKKSGSAGNQLKEAQSI-----NKSLSALGDVIGALSSGN---QHIPYRN 289
>pdb|3FWA|A Chain A, Structure Of Berberine Bridge Enzyme, C166a Variant In
Complex With (S)-Reticuline
Length = 497
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 48/108 (44%), Gaps = 6/108 (5%)
Query: 1 MFPDRSACKAADVAYPTSEQEIISVVSAATIAKRKMKVATRFSHSIPKLVCPDGQDGLLI 60
+F + K + + P S++E+ + + +++ + HS L +LI
Sbjct: 37 LFQNSLISKPSAIILPGSKEELSNTIRCIRKGSWTIRLRSG-GHSYEGLSYTSDTPFILI 95
Query: 61 STKYLNKIINIDTEAMTITMESGVTLRQ----IIGESAKAGLALPYTP 104
LN++ +ID E+ T +ESG TL + I S+K G + P
Sbjct: 96 DLMNLNRV-SIDLESETAWVESGSTLGELYYAITESSSKLGFTAGWAP 142
>pdb|3FW8|A Chain A, Structure Of Berberine Bridge Enzyme, C166a Variant
Length = 495
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 48/108 (44%), Gaps = 6/108 (5%)
Query: 1 MFPDRSACKAADVAYPTSEQEIISVVSAATIAKRKMKVATRFSHSIPKLVCPDGQDGLLI 60
+F + K + + P S++E+ + + +++ + HS L +LI
Sbjct: 37 LFQNSLISKPSAIILPGSKEELSNTIRCIRKGSWTIRLRSG-GHSYEGLSYTSDTPFILI 95
Query: 61 STKYLNKIINIDTEAMTITMESGVTLRQ----IIGESAKAGLALPYTP 104
LN++ +ID E+ T +ESG TL + I S+K G + P
Sbjct: 96 DLMNLNRV-SIDLESETAWVESGSTLGELYYAITESSSKLGFTAGWAP 142
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 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,893,314
Number of Sequences: 62578
Number of extensions: 672241
Number of successful extensions: 1418
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1402
Number of HSP's gapped (non-prelim): 34
length of query: 538
length of database: 14,973,337
effective HSP length: 103
effective length of query: 435
effective length of database: 8,527,803
effective search space: 3709594305
effective search space used: 3709594305
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)