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= 019653
(337 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JTF|A Chain A, The Cbs Domain Pair Structure Of A Magnesium And Cobalt
Efflux Protein From Bordetella Parapertussis In Complex
With Amp
pdb|3JTF|B Chain B, The Cbs Domain Pair Structure Of A Magnesium And Cobalt
Efflux Protein From Bordetella Parapertussis In Complex
With Amp
Length = 129
Score = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 63/107 (58%), Gaps = 2/107 (1%)
Query: 203 EKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLT 262
E+T +D P + +DI+ L +L+ I+E HSR PVY ++ NIIG++L K+LL
Sbjct: 4 ERTVADIXVPRSRXDLLDISQPL-PQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLR 62
Query: 263 IHPEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHMAVVVRQY 309
E + ++S+ +R +PE L +L EF+ +H+A+V+ ++
Sbjct: 63 YXLEPALDIRSL-VRPAVFIPEVKRLNVLLREFRASRNHLAIVIDEH 108
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 69/144 (47%), Gaps = 6/144 (4%)
Query: 167 RAELKTLVNLHGNEAGKGGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLD 226
R EL L+ ++G+ + D + G ++ ++ D P ++ + N LD
Sbjct: 34 RDELLALIR----DSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLD 89
Query: 227 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTIHPED-EVPVKSVTIRRIPRVPET 285
E +++I+E HSR PV E+ +I G++ K+LL D E +R+ VPE+
Sbjct: 90 -ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRQAVVVPES 148
Query: 286 LPLYEILNEFQKGHSHMAVVVRQY 309
+ L EF+ H A+V+ ++
Sbjct: 149 KRVDRXLKEFRSQRYHXAIVIDEF 172
>pdb|3NQR|A Chain A, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|B Chain B, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|C Chain C, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
pdb|3NQR|D Chain D, A Putative Cbs Domain-Containing Protein From Salmonella
Typhimurium Lt2
Length = 127
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 53/108 (49%), Gaps = 2/108 (1%)
Query: 203 EKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLT 262
++ D P ++ + N LD E +++I+E HSR PV E+ +I G++ K+LL
Sbjct: 2 DQRVRDIXIPRSQXITLKRNQTLD-ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLLP 60
Query: 263 IHPED-EVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHMAVVVRQY 309
D E +R VPE+ + L EF+ H A+V+ ++
Sbjct: 61 FXRSDAEAFSXDKVLRTAVVVPESKRVDRXLKEFRSQRYHXAIVIDEF 108
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 1/130 (0%)
Query: 180 EAGKGGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHS 239
E G + H+E + L E+T S P ++ +D+N LD L + + HS
Sbjct: 18 EGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIVFLDLNLPLDANLRT-VXQSPHS 76
Query: 240 RVPVYYEEPTNIIGLILVKNLLTIHPEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGH 299
R PV + +G+I K LL+ E ++ VP +L E+L F+
Sbjct: 77 RFPVCRNNVDDXVGIISAKQLLSESIAGERLELVDLVKNCNFVPNSLSGXELLEHFRTTG 136
Query: 300 SHMAVVVRQY 309
S VV +Y
Sbjct: 137 SQXVFVVDEY 146
>pdb|3LFR|A Chain A, The Crystal Structure Of A Cbs Domain From A Putative
Metal Ion Transporter Bound To Amp From Pseudomonas
Syringae To 1.55a
pdb|3LFR|B Chain B, The Crystal Structure Of A Cbs Domain From A Putative
Metal Ion Transporter Bound To Amp From Pseudomonas
Syringae To 1.55a
Length = 136
Score = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 49/86 (56%), Gaps = 4/86 (4%)
Query: 227 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTI---HPEDEVPVKSVTIRRIPRVP 283
+E + +++ HSR PV E +++G++L K+LL + D VK + +R VP
Sbjct: 25 REFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKL-LRPATFVP 83
Query: 284 ETLPLYEILNEFQKGHSHMAVVVRQY 309
E+ L +L EF+ H+H A+V+ +Y
Sbjct: 84 ESKRLNVLLREFRANHNHXAIVIDEY 109
>pdb|3OI8|A Chain A, The Crystal Structure Of Functionally Unknown Conserved
Protein Domain From Neisseria Meningitidis Mc58
pdb|3OI8|B Chain B, The Crystal Structure Of Functionally Unknown Conserved
Protein Domain From Neisseria Meningitidis Mc58
Length = 156
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 47/79 (59%), Gaps = 4/79 (5%)
Query: 233 ILEKGHSRVPVYYEEPTNIIGLILVKNLLT--IHPEDEVPVKSVTIRRIPRVPETLPLYE 290
+++ HSR PV E+ ++G++ K+LL +PE + +KS+ +R VPE L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPE-QFHLKSI-LRPAVFVPEGKSLTA 123
Query: 291 ILNEFQKGHSHMAVVVRQY 309
+L EF++ +H A+V+ +Y
Sbjct: 124 LLKEFREQRNHXAIVIDEY 142
>pdb|3HF7|A Chain A, The Crystal Structure Of A Cbs-Domain Pair With Bound Amp
From Klebsiella Pneumoniae To 2.75a
Length = 130
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 4/108 (3%)
Query: 205 TASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTIH 264
+ +D M P E IDIN K ++ + H R+ +Y + + I ++ V+ +
Sbjct: 3 SVNDIMVPRNEIVGIDINDDW-KSIVRQLTHSPHGRIVLYRDSLDDAISMLRVREAYRLM 61
Query: 265 PEDEVPVKSVTIR---RIPRVPETLPLYEILNEFQKGHSHMAVVVRQY 309
E + K + +R I VPE PL L +FQ+ + +VV +Y
Sbjct: 62 TEKKEFTKEIMLRAADEIYFVPEGTPLSTQLVKFQRNKKKVGLVVDEY 109
>pdb|3LV9|A Chain A, Crystal Structure Of Cbs Domain Of A Putative Transporter
From Clostridium Difficile 630
Length = 148
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 26/127 (20%), Positives = 62/127 (48%), Gaps = 3/127 (2%)
Query: 184 GGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPV 243
G + E ++ E EK + P + I + +++++ ++ E+G +R PV
Sbjct: 3 AGLIDESEQRLVDNIFEFEEKKIREIXVPRTDXVCI-YESDSEEKILAILKEEGVTRYPV 61
Query: 244 YYEEPTNIIGLILVKNLLTIH-PEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHM 302
+ +I+G + +++L E+++ ++ + +R I + E L + + L +K +
Sbjct: 62 CRKNKDDILGFVHIRDLYNQKINENKIELEEI-LRDIIYISENLTIDKALERIRKEKLQL 120
Query: 303 AVVVRQY 309
A+VV +Y
Sbjct: 121 AIVVDEY 127
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 226 DKELMNLILEKGHSRVPVYYEEPTNIIGLILVKN------LLTIHPEDEVPVKSVTIRRI 279
D+ LM++ E G P + + + K+ LL IH E+ +PVK V ++
Sbjct: 192 DENLMHISHEAGKLEDPAHIPDEDVFTWTVSPKDAPDEETLLEIHFENGIPVKVVNLKDG 251
Query: 280 PRVPETLPLYEILNE 294
+ L L+E LNE
Sbjct: 252 TEKTDPLELFEYLNE 266
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
0.322 0.138 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,772,093
Number of Sequences: 62578
Number of extensions: 333858
Number of successful extensions: 678
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 664
Number of HSP's gapped (non-prelim): 18
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
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)