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= 017404
(372 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 = 5e-10, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 63/108 (58%), Gaps = 2/108 (1%)
Query: 143 TEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLL 202
E+T +D P + +DI+ L +L+ I+E HSR PVY ++ NIIG++L K+LL
Sbjct: 3 AERTVADIXVPRSRXDLLDISQPL-PQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLL 61
Query: 203 TIHPEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHMAVVVRQY 250
E + ++S+ +R +PE L +L EF+ +H+A+V+ ++
Sbjct: 62 RYXLEPALDIRSL-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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 69/145 (47%), Gaps = 6/145 (4%)
Query: 108 RAELKTLVNLHGNEAGKGGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLD 167
R EL L+ ++G+ + D + G ++ ++ D P ++ + N LD
Sbjct: 34 RDELLALIR----DSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLD 89
Query: 168 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTIHPED-EVPVKSVTIRRIPRVPET 226
E +++I+E HSR PV E+ +I G++ K+LL D E +R+ VPE+
Sbjct: 90 -ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRQAVVVPES 148
Query: 227 LPLYEILNEFQKGHSHMAVVVRQYN 251
+ L EF+ H A+V+ ++
Sbjct: 149 KRVDRXLKEFRSQRYHXAIVIDEFG 173
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 55/130 (42%), Gaps = 1/130 (0%)
Query: 121 EAGKGGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHS 180
E G + H+E + L E+T S P ++ +D+N LD L + + HS
Sbjct: 18 EGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIVFLDLNLPLDANLRT-VXQSPHS 76
Query: 181 RVPVYYEEPTNIIGLILVKNLLTIHPEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGH 240
R PV + +G+I K LL+ E ++ VP +L E+L F+
Sbjct: 77 RFPVCRNNVDDXVGIISAKQLLSESIAGERLELVDLVKNCNFVPNSLSGXELLEHFRTTG 136
Query: 241 SHMAVVVRQY 250
S VV +Y
Sbjct: 137 SQXVFVVDEY 146
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 53/110 (48%), Gaps = 2/110 (1%)
Query: 143 TEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLL 202
++ D P ++ + N LD E +++I+E HSR PV E+ +I G++ K+LL
Sbjct: 1 ADQRVRDIXIPRSQXITLKRNQTLD-ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLL 59
Query: 203 TIHPED-EVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHMAVVVRQYN 251
D E +R VPE+ + L EF+ H A+V+ ++
Sbjct: 60 PFXRSDAEAFSXDKVLRTAVVVPESKRVDRXLKEFRSQRYHXAIVIDEFG 109
>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 = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 50/90 (55%), Gaps = 4/90 (4%)
Query: 168 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTI---HPEDEVPVKSVTIRRIPRVP 224
+E + +++ HSR PV E +++G++L K+LL + D VK + +R VP
Sbjct: 25 REFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKL-LRPATFVP 83
Query: 225 ETLPLYEILNEFQKGHSHMAVVVRQYNKNA 254
E+ L +L EF+ H+H A+V+ +Y A
Sbjct: 84 ESKRLNVLLREFRANHNHXAIVIDEYGGVA 113
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 47/79 (59%), Gaps = 4/79 (5%)
Query: 174 ILEKGHSRVPVYYEEPTNIIGLILVKNLL--TIHPEDEVPVKSVTIRRIPRVPETLPLYE 231
+++ HSR PV E+ ++G++ K+LL +PE + +KS+ +R VPE L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPE-QFHLKSI-LRPAVFVPEGKSLTA 123
Query: 232 ILNEFQKGHSHMAVVVRQY 250
+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 = 0.001, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 4/108 (3%)
Query: 146 TASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLLTIH 205
+ +D M P E IDIN K ++ + H R+ +Y + + I ++ V+ +
Sbjct: 3 SVNDIMVPRNEIVGIDINDDW-KSIVRQLTHSPHGRIVLYRDSLDDAISMLRVREAYRLM 61
Query: 206 PEDEVPVKSVTIR---RIPRVPETLPLYEILNEFQKGHSHMAVVVRQY 250
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 = 0.029, Method: Compositional matrix adjust.
Identities = 26/127 (20%), Positives = 62/127 (48%), Gaps = 3/127 (2%)
Query: 125 GGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPV 184
G + E ++ E EK + P + I + +++++ ++ E+G +R PV
Sbjct: 3 AGLIDESEQRLVDNIFEFEEKKIREIXVPRTDXVCI-YESDSEEKILAILKEEGVTRYPV 61
Query: 185 YYEEPTNIIGLILVKNLLTIH-PEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHM 243
+ +I+G + +++L E+++ ++ + +R I + E L + + L +K +
Sbjct: 62 CRKNKDDILGFVHIRDLYNQKINENKIELEEI-LRDIIYISENLTIDKALERIRKEKLQL 120
Query: 244 AVVVRQY 250
A+VV +Y
Sbjct: 121 AIVVDEY 127
>pdb|3OCO|A Chain A, The Crystal Structure Of A Hemolysin-Like Protein
Containing Cbs Domain Of Oenococcus Oeni Psu
pdb|3OCO|B Chain B, The Crystal Structure Of A Hemolysin-Like Protein
Containing Cbs Domain Of Oenococcus Oeni Psu
Length = 153
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 59/141 (41%), Gaps = 2/141 (1%)
Query: 139 ALELTEKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYE-EPTNIIGLIL 197
A E +K ASD +D++ + L+ L LE+ +SR PV + + IIG
Sbjct: 14 AFEXNDKVASDVXVDRTSXSVVDVDETIADALL-LYLEEQYSRFPVTADNDKDKIIGYAY 72
Query: 198 VKNLLTIHPEDEVPVKSVTIRRIPRVPETLPLYEILNEFQKGHSHMAVVVRQYNKNAEQP 257
+++ D+ S R I VPE + ++ E A+V+ +Y +
Sbjct: 73 NYDIVRQARIDDKAKISTIXRDIVSVPENXKVPDVXEEXSAHRVPXAIVIDEYGGTSGII 132
Query: 258 ASNPASKSAYGSARDVKIDID 278
+ +G+ RD + D D
Sbjct: 133 TDKDVYEELFGNLRDEQDDED 153
>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 = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%)
Query: 199 KNLLTIHPEDEVPVKSVTIRRIPRVPETLPLYEILNE 235
+ LL IH E+ +PVK V ++ + L L+E LNE
Sbjct: 230 ETLLEIHFENGIPVKVVNLKDGTEKTDPLELFEYLNE 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
0.318 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,342,902
Number of Sequences: 62578
Number of extensions: 467644
Number of successful extensions: 1151
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1135
Number of HSP's gapped (non-prelim): 24
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)