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= 022005
(304 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 = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 43/72 (59%), Gaps = 1/72 (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 IHPEDEVPVKSV 274
E + ++S+
Sbjct: 63 YXLEPALDIRSL 74
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 48/95 (50%), Gaps = 5/95 (5%)
Query: 167 RAELKTLVNLHGNEAGKGGELTHDETTIIAGALELTEKTASDAMTPIAETFAIDINAKLD 226
R EL L+ ++G+ + D + G ++ ++ D P ++ + N LD
Sbjct: 34 RDELLALIR----DSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLD 89
Query: 227 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLL 261
E +++I+E HSR PV E+ +I G++ K+LL
Sbjct: 90 -ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLL 123
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 1/83 (1%)
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 RVPVYYEEPTNIIGLILVKNLLT 262
R PV + +G+I K LL+
Sbjct: 77 RFPVCRNNVDDXVGIISAKQLLS 99
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 33/59 (55%), Gaps = 1/59 (1%)
Query: 203 EKTASDAMTPIAETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLL 261
++ D P ++ + N LD E +++I+E HSR PV E+ +I G++ K+LL
Sbjct: 2 DQRVRDIXIPRSQXITLKRNQTLD-ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLL 59
>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 = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 23/35 (65%)
Query: 227 KELMNLILEKGHSRVPVYYEEPTNIIGLILVKNLL 261
+E + +++ HSR PV E +++G++L K+LL
Sbjct: 25 REFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLL 59
>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 = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 233 ILEKGHSRVPVYYEEPTNIIGLILVKNLLT--IHPEDEVPVKSVTIRRIPRYLISLGKCS 290
+++ HSR PV E+ ++G++ K+LL +PE + +KS+ +R P + GK
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPE-QFHLKSI-LR--PAVFVPEGKSL 121
Query: 291 CALFRSL 297
AL +
Sbjct: 122 TALLKEF 128
>pdb|1JRK|A Chain A, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1JRK|B Chain B, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1JRK|C Chain C, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1JRK|D Chain D, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum Reveals A Dimer With Intertwined Beta Sheets
pdb|1K26|A Chain A, Structure Of A Nudix Protein From Pyrobaculum Aerophilum
Solved By The Single Wavelength Anomolous Scattering
Method
pdb|1K26|B Chain B, Structure Of A Nudix Protein From Pyrobaculum Aerophilum
Solved By The Single Wavelength Anomolous Scattering
Method
pdb|1K2E|A Chain A, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum
pdb|1K2E|B Chain B, Crystal Structure Of A Nudix Protein From Pyrobaculum
Aerophilum
Length = 156
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 45/97 (46%), Gaps = 13/97 (13%)
Query: 155 VLLGHGRVALFRRAELKTLVNLHGNEAGKGGELTHDETTIIAGALELTEKTASDAMTPIA 214
VL+ +G+V L + L + GG + H+ET I A E E+T + PI
Sbjct: 7 VLVENGKVLLVKHKRLGVYIY-------PGGHVEHNETPIEAVKREFEEETGI-VVEPIG 58
Query: 215 ETFAIDINAKLDKELMNLILEKGHSRVPVYYEEPTNI 251
T+ I +++ + +ILE+ V Y E T+I
Sbjct: 59 FTYGIIDENAVERPMPLVILEE-----VVKYPEETHI 90
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
0.324 0.140 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,464,049
Number of Sequences: 62578
Number of extensions: 278111
Number of successful extensions: 571
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 564
Number of HSP's gapped (non-prelim): 15
length of query: 304
length of database: 14,973,337
effective HSP length: 98
effective length of query: 206
effective length of database: 8,840,693
effective search space: 1821182758
effective search space used: 1821182758
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)