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= 012416
(464 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 = 46.2 bits (108), Expect = 4e-05, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 235 IMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDIL 294
I+ HSR PVY + NIIG++L K+LL A+ +R + +R + E L +L
Sbjct: 33 IIETAHSRFPVYEDDRDNIIGILLAKDLLRYXLEPALDIRSL-VRPAVFIPEVKRLNVLL 91
Query: 295 NEFQKGHSHIAVV 307
EF+ +H+A+V
Sbjct: 92 REFRASRNHLAIV 104
>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 = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 234 AIMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYR---DAVPLRKMIIRRIPRVSEDMPL 290
A++ HSR PV + +++G++L K+LL + + D+ ++K+ +R V E L
Sbjct: 30 AVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKL-LRPATFVPESKRL 88
Query: 291 YDILNEFQKGHSHIAVV 307
+L EF+ H+H A+V
Sbjct: 89 NVLLREFRANHNHXAIV 105
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 54/127 (42%), Gaps = 2/127 (1%)
Query: 182 EAGKGGDLTHDETTIIAGALELTEKTAKDAMTPISKAFSXXXXXXXXXXXXNAIMTMGHS 241
++G+ + D + G ++ ++ +D P S+ + + I+ HS
Sbjct: 43 DSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLDECL-DVIIESAHS 101
Query: 242 RVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLR-KMIIRRIPRVSEDMPLYDILNEFQKG 300
R PV S + +I G++ K+LL DA ++R+ V E + L EF+
Sbjct: 102 RFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRQAVVVPESKRVDRXLKEFRSQ 161
Query: 301 HSHIAVV 307
H A+V
Sbjct: 162 RYHXAIV 168
>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 = 36.2 bits (82), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%)
Query: 235 IMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDIL 294
++ HSR PV + ++G++ K+LL + K I+R V E L +L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPEQFHLKSILRPAVFVPEGKSLTALL 125
Query: 295 NEFQKGHSHIAVV 307
EF++ +H A+V
Sbjct: 126 KEFREQRNHXAIV 138
>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 = 34.3 bits (77), Expect = 0.15, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 233 NAIMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRK-MIIRRIPRVSEDMPLY 291
+ I+ HSR PV S + +I G++ K+LL DA ++R V E +
Sbjct: 29 DVIIESAHSRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRTAVVVPESKRVD 88
Query: 292 DILNEFQKGHSHIAVV 307
L EF+ H A+V
Sbjct: 89 RXLKEFRSQRYHXAIV 104
>pdb|3LV9|A Chain A, Crystal Structure Of Cbs Domain Of A Putative Transporter
From Clostridium Difficile 630
Length = 148
Score = 29.3 bits (64), Expect = 4.8, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 35/69 (50%)
Query: 239 GHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDILNEFQ 298
G +R PV N +I+G + +++L + + + I+R I +SE++ + L +
Sbjct: 55 GVTRYPVCRKNKDDILGFVHIRDLYNQKINENKIELEEILRDIIYISENLTIDKALERIR 114
Query: 299 KGHSHIAVV 307
K +A+V
Sbjct: 115 KEKLQLAIV 123
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 29/83 (34%), Gaps = 1/83 (1%)
Query: 182 EAGKGGDLTHDETTIIAGALELTEKTAKDAMTPISKAFSXXXXXXXXXXXXNAIMTMGHS 241
E G + H+E + L E+T P S + HS
Sbjct: 18 EGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIV-FLDLNLPLDANLRTVXQSPHS 76
Query: 242 RVPVYSGNPTNIIGLILVKNLLS 264
R PV N + +G+I K LLS
Sbjct: 77 RFPVCRNNVDDXVGIISAKQLLS 99
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 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,666,334
Number of Sequences: 62578
Number of extensions: 437996
Number of successful extensions: 828
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 12
length of query: 464
length of database: 14,973,337
effective HSP length: 102
effective length of query: 362
effective length of database: 8,590,381
effective search space: 3109717922
effective search space used: 3109717922
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: 53 (25.0 bits)