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= 015912
(398 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 = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 26/73 (35%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 150 IMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDIL 209
I+ HSR PVY + NIIG++L K+LL A+ +R + +R + E L +L
Sbjct: 33 IIETAHSRFPVYEDDRDNIIGILLAKDLLRYXLEPALDIRSL-VRPAVFIPEVKRLNVLL 91
Query: 210 NEFQKGHSHIAVV 222
EF+ +H+A+V
Sbjct: 92 REFRASRNHLAIV 104
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 55/132 (41%), Gaps = 2/132 (1%)
Query: 96 NEAGKGGDLTHDETTIIAGALELTEKTAKDAMTPISKAFSXXXXXXXXXXXXNAIMTMGH 155
++G+ + D + G ++ ++ +D P S+ + + I+ H
Sbjct: 42 RDSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLDECL-DVIIESAH 100
Query: 156 SRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPL-RKMIIRRIPRVSEDMPLYDILNEFQK 214
SR PV S + +I G++ K+LL DA ++R+ V E + L EF+
Sbjct: 101 SRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRQAVVVPESKRVDRXLKEFRS 160
Query: 215 GHSHIAVVYKDL 226
H A+V +
Sbjct: 161 QRYHXAIVIDEF 172
>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 = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 149 AIMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYR---DAVPLRKMIIRRIPRVSEDMPL 205
A++ HSR PV + +++G++L K+LL + + D+ ++K+ +R V E L
Sbjct: 30 AVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKL-LRPATFVPESKRL 88
Query: 206 YDILNEFQKGHSHIAVV 222
+L EF+ H+H A+V
Sbjct: 89 NVLLREFRANHNHXAIV 105
>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 = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%)
Query: 150 IMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDIL 209
++ HSR PV + ++G++ K+LL + K I+R V E L +L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPEQFHLKSILRPAVFVPEGKSLTALL 125
Query: 210 NEFQKGHSHIAVV 222
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 = 0.14, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 148 NAIMTMGHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRK-MIIRRIPRVSEDMPLY 206
+ I+ HSR PV S + +I G++ K+LL DA ++R V E +
Sbjct: 29 DVIIESAHSRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRTAVVVPESKRVD 88
Query: 207 DILNEFQKGHSHIAVV 222
L EF+ H A+V
Sbjct: 89 RXLKEFRSQRYHXAIV 104
>pdb|3I1C|A Chain A, Crystal Structure Of A Novel Engineered Diels-Alderase:
Da_20_00_a74i
Length = 324
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 60/143 (41%), Gaps = 28/143 (19%)
Query: 198 RVSEDMP-----LYDILNEFQKGHSHIAVVYKDLNEKKEGELFKDNCKKPRG----QPEK 248
+V+ED+P ++D + G +I Y ++N K GE+ + + K + +PE
Sbjct: 12 KVTEDIPGAAGPVFD-----KNGDFYIVAPYVEVNGKPAGEILRIDLKTGKKTVICKPEV 66
Query: 249 SSQKVDNGVTAAGQNLR--NKLESKDAQQTKKVPPATPTF---------NKRHRGCSYCI 297
+ G+ Q R N+L D + V TF +R +GC+YC
Sbjct: 67 NGY---GGIPIGCQCDRDANQLFVADMRLGLLVVQTDGTFEEIAKKDSEGRRMQGCAYCA 123
Query: 298 LDFENGPFPDFPSNDEAVGVITM 320
D+E + P+ + A T+
Sbjct: 124 FDYEGNLWITAPAGEVAPADFTI 146
>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 = 4.6, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 29/83 (34%), Gaps = 1/83 (1%)
Query: 97 EAGKGGDLTHDETTIIAGALELTEKTAKDAMTPISKAFSXXXXXXXXXXXXNAIMTMGHS 156
E G + H+E + L E+T P S + HS
Sbjct: 18 EGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIV-FLDLNLPLDANLRTVXQSPHS 76
Query: 157 RVPVYSGNPTNIIGLILVKNLLS 179
R PV N + +G+I K LLS
Sbjct: 77 RFPVCRNNVDDXVGIISAKQLLS 99
>pdb|3LV9|A Chain A, Crystal Structure Of Cbs Domain Of A Putative Transporter
From Clostridium Difficile 630
Length = 148
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 35/69 (50%)
Query: 154 GHSRVPVYSGNPTNIIGLILVKNLLSVDYRDAVPLRKMIIRRIPRVSEDMPLYDILNEFQ 213
G +R PV N +I+G + +++L + + + I+R I +SE++ + L +
Sbjct: 55 GVTRYPVCRKNKDDILGFVHIRDLYNQKINENKIELEEILRDIIYISENLTIDKALERIR 114
Query: 214 KGHSHIAVV 222
K +A+V
Sbjct: 115 KEKLQLAIV 123
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 0.134 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,789,156
Number of Sequences: 62578
Number of extensions: 416644
Number of successful extensions: 811
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 802
Number of HSP's gapped (non-prelim): 12
length of query: 398
length of database: 14,973,337
effective HSP length: 101
effective length of query: 297
effective length of database: 8,652,959
effective search space: 2569928823
effective search space used: 2569928823
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)