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= 020002
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SJ5|A Chain A, Crystal Structure Of A Duf151 Family Protein (tm0160) From
Thermotoga Maritima At 2.8 A Resolution
pdb|1SJ5|B Chain B, Crystal Structure Of A Duf151 Family Protein (tm0160) From
Thermotoga Maritima At 2.8 A Resolution
Length = 164
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 53/118 (44%), Gaps = 8/118 (6%)
Query: 140 PAIVLKMEDGTGLLLPIIVRTRDAKRVAYGGNAQCANCRPTLYQVVKEMIEKMGYEVRLV 199
P ++L +E GT +LPI + + +A + RP + ++ ++E + V V
Sbjct: 30 PVVILGIE-GTNRVLPIWIGAAEGHALALAME-KMEFPRPLTHDLLLSVLESLEARVDKV 87
Query: 200 RVTKRVHEAYFAQL------YLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYL 251
+ ++A L Y + E + D RPSDAI +AV+ PI V+ L
Sbjct: 88 IIHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNL 145
>pdb|1VJL|A Chain A, Crystal Structure Of A Duf151 Family Protein (Tm0160) From
Thermotoga Maritima At 1.90 A Resolution
pdb|1VJL|B Chain B, Crystal Structure Of A Duf151 Family Protein (Tm0160) From
Thermotoga Maritima At 1.90 A Resolution
Length = 164
Score = 32.3 bits (72), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 53/118 (44%), Gaps = 8/118 (6%)
Query: 140 PAIVLKMEDGTGLLLPIIVRTRDAKRVAYGGNAQCANCRPTLYQVVKEMIEKMGYEVRLV 199
P ++L +E GT +LPI + + +A + RP + ++ ++E + V V
Sbjct: 30 PVVILGIE-GTNRVLPIWIGACEGHALALAXE-KXEFPRPLTHDLLLSVLESLEARVDKV 87
Query: 200 RVTKRVHEAYFAQL------YLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYL 251
+ ++A L Y + E + D RPSDAI +AV+ PI V+ L
Sbjct: 88 IIHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNL 145
>pdb|3CDU|A Chain A, Crystal Structure Of Coxsackievirus B3 Rna-dependent Rna
Polymerase (3dpol) In Complex With A Pyrophosphate
pdb|3CDW|A Chain A, Crystal Structure Of Coxsackievirus B3 Rna-Dependent Rna
Polymerase (3dpol) In Complex With Protein Primer Vpg
And A Pyrophosphate
Length = 468
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 39/90 (43%), Gaps = 6/90 (6%)
Query: 154 LPIIVRTRDAKRVAYGGNAQCANCRPTLYQVVKEMIEKMGY---EVRLVRVTKRVHEAYF 210
+P+++ D +A+ + A+ P + +K ++EK+GY E + H Y
Sbjct: 221 IPVML---DGHLIAFDYSGYDASLSPVWFACLKMLLEKLGYTHKETNYIDYLCNSHHLYR 277
Query: 211 AQLYLTKVGNETECVSFDLRPSDAINIAVR 240
+ Y + G + C + S NI +R
Sbjct: 278 DKHYFVRGGMPSGCSGTSIFNSMINNIIIR 307
>pdb|1VL2|A Chain A, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|B Chain B, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|C Chain C, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|D Chain D, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
Length = 421
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 232 SDAINIAVRCKVPIQVNKYLAYSDGMRVI----ESGKLS--THSPGSDGLLFTELDKPSG 285
+D IN A+ +PI+V+K YS+ ++ E+GKL H P D +FT P
Sbjct: 168 TDLINYAMEKGIPIKVSKKRPYSEDENLMHISHEAGKLEDPAHIPDED--VFTWTVSPKD 225
Query: 286 QPCLDT 291
P +T
Sbjct: 226 APDEET 231
>pdb|3DDK|A Chain A, Coxsackievirus B3 3dpol Rna Dependent Rna Polymerase
Length = 462
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 39/90 (43%), Gaps = 6/90 (6%)
Query: 154 LPIIVRTRDAKRVAYGGNAQCANCRPTLYQVVKEMIEKMGY---EVRLVRVTKRVHEAYF 210
+P+++ D +A+ + A+ P + +K ++EK+GY E + H Y
Sbjct: 221 IPVML---DGHLIAFDYSGYDASLSPVWFACLKMILEKLGYTHKETNYIDYLCNSHHLYR 277
Query: 211 AQLYLTKVGNETECVSFDLRPSDAINIAVR 240
+ Y + G + C + S NI +R
Sbjct: 278 DKHYFVRGGMPSGCSGTSIFNSMINNIIIR 307
>pdb|1JVN|A Chain A, Crystal Structure Of Imidazole Glycerol Phosphate
Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
TWO ACTIVE SITES
pdb|1JVN|B Chain B, Crystal Structure Of Imidazole Glycerol Phosphate
Synthase: A Tunnel Through A (BetaALPHA)8 BARREL JOINS
TWO ACTIVE SITES
pdb|1OX4|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX5|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX5|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
Length = 555
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 9/100 (9%)
Query: 183 QVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVS--FDLRPSDAINIAVR 240
Q + IE +GYEV+LV+ K + + ++L L VGN V F+ I +
Sbjct: 18 QSLTNAIEHLGYEVQLVKSPKDFNISGTSRLILPGVGNYGHFVDNLFNRGFEKPIREYIE 77
Query: 241 CKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTEL 280
PI + G++ + +G S SP S GL + +
Sbjct: 78 SGKPI-----MGIXVGLQALFAG--SVESPKSTGLNYIDF 110
>pdb|2P90|A Chain A, The Crystal Structure Of A Protein Of Unknown Function
From Corynebacterium Glutamicum Atcc 13032
pdb|2P90|B Chain B, The Crystal Structure Of A Protein Of Unknown Function
From Corynebacterium Glutamicum Atcc 13032
pdb|2P90|C Chain C, The Crystal Structure Of A Protein Of Unknown Function
From Corynebacterium Glutamicum Atcc 13032
Length = 319
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 24/42 (57%), Gaps = 7/42 (16%)
Query: 132 HLPDY---APHPAIVLKM----EDGTGLLLPIIVRTRDAKRV 166
H+P Y +P+PA LK+ D L LP++ RDA++V
Sbjct: 200 HVPHYVSASPYPAATLKLLQSIADSADLNLPLLALERDAEKV 241
>pdb|1OX4|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX6|A Chain A, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
pdb|1OX6|B Chain B, Towards Understanding The Mechanism Of The Complex
Cyclization Reaction Catalyzed By Imidazole
Glycerophosphate Synthase
Length = 555
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 45/100 (45%), Gaps = 9/100 (9%)
Query: 183 QVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVS--FDLRPSDAINIAVR 240
Q + IE +GYEV+LV+ K + + ++L L VGN V F+ I +
Sbjct: 18 QSLTNAIEHLGYEVQLVKSPKDFNISGTSRLILPGVGNYGHFVDNLFNRGFEKPIREYIE 77
Query: 241 CKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTEL 280
PI + G++ + +G S SP S GL + +
Sbjct: 78 SGKPI-----MGICVGLQALFAG--SVESPKSTGLNYIDF 110
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 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,437,985
Number of Sequences: 62578
Number of extensions: 371356
Number of successful extensions: 744
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 739
Number of HSP's gapped (non-prelim): 9
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)