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= 010123
(517 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HG0|A Chain A, Crystal Structure Of Magnesium And Cobalt Efflux Protein
Corc, Northeast Structural Genomics Consortium (nesg)
Target Er40
Length = 292
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 36/138 (26%), Positives = 61/138 (44%), Gaps = 6/138 (4%)
Query: 187 RAQLKALVSIHSQEAGKGGELTHDETTIISGALDLTEKTAEEAMTPIESTFSLDVNSKLD 246
R +L AL+ +++G+ + D + G D+ ++ + P +L N LD
Sbjct: 34 RDELLALI----RDSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLD 89
Query: 247 WEAIGKILARGHSRVPIYSGNPKNIIGLLLVKSLLTV-RAETETPVSAVSIRRMPRVPAD 305
E + I+ HSR P+ S + +I G+L K LL R++ E +R+ VP
Sbjct: 90 -ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLLPFXRSDAEAFSXDKVLRQAVVVPES 148
Query: 306 MPLYDILNEFQKGSSHMA 323
+ L EF+ H A
Sbjct: 149 KRVDRXLKEFRSQRYHXA 166
>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: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 10/105 (9%)
Query: 223 EKTAEEAMTPIESTFSLDVNSKLDWEAIGKILARGHSRVPIYSGNPKNIIGLLLVKSLLT 282
E+T + P LD++ L + + I+ HSR P+Y + NIIG+LL K LL
Sbjct: 4 ERTVADIXVPRSRXDLLDISQPL-PQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLR 62
Query: 283 VRAETETPVSAVSIRRMPR----VPADMPLYDILNEFQKGSSHMA 323
E A+ IR + R +P L +L EF+ +H+A
Sbjct: 63 YXLE-----PALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLA 102
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 56/143 (39%), Gaps = 5/143 (3%)
Query: 179 GHHDALFRRAQLKALVSIHSQEAGKGGELTHDETTIISGALDLTEKTAEEAMTPIESTFS 238
GH D + ++A + QE G + H+E + L E+T P
Sbjct: 1 GHLDDNVTQEDIQAXL----QEGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIVF 56
Query: 239 LDVNSKLDWEAIGKILARGHSRVPIYSGNPKNIIGLLLVKSLLTVRAETETPVSAVSIRR 298
LD+N LD + + HSR P+ N + +G++ K LL+ E ++
Sbjct: 57 LDLNLPLDAN-LRTVXQSPHSRFPVCRNNVDDXVGIISAKQLLSESIAGERLELVDLVKN 115
Query: 299 MPRVPADMPLYDILNEFQKGSSH 321
VP + ++L F+ S
Sbjct: 116 CNFVPNSLSGXELLEHFRTTGSQ 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 = 35.8 bits (81), Expect = 0.061, Method: Composition-based stats.
Identities = 28/102 (27%), Positives = 43/102 (42%), Gaps = 2/102 (1%)
Query: 223 EKTAEEAMTPIESTFSLDVNSKLDWEAIGKILARGHSRVPIYSGNPKNIIGLLLVKSLLT 282
++ + P +L N LD E + I+ HSR P+ S + +I G+L K LL
Sbjct: 2 DQRVRDIXIPRSQXITLKRNQTLD-ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLLP 60
Query: 283 -VRAETETPVSAVSIRRMPRVPADMPLYDILNEFQKGSSHMA 323
R++ E +R VP + L EF+ H A
Sbjct: 61 FXRSDAEAFSXDKVLRTAVVVPESKRVDRXLKEFRSQRYHXA 102
>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 = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 39/78 (50%), Gaps = 2/78 (2%)
Query: 248 EAIGKILARGHSRVPIYSGNPKNIIGLLLVKSL--LTVRAETETPVSAVSIRRMPRVPAD 305
E + ++ HSR P+ + +++G+LL K L L ++A+ ++ +R VP
Sbjct: 26 EFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKLLRPATFVPES 85
Query: 306 MPLYDILNEFQKGSSHMA 323
L +L EF+ +H A
Sbjct: 86 KRLNVLLREFRANHNHXA 103
>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 = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%)
Query: 253 ILARGHSRVPIYSGNPKNIIGLLLVKSLLTVRAETETPVSAVSIRRMPRVPADMPLYDIL 312
++ HSR P+ + ++G+L K LL E +R VP L +L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPEQFHLKSILRPAVFVPEGKSLTALL 125
Query: 313 NEFQKGSSHMA 323
EF++ +H A
Sbjct: 126 KEFREQRNHXA 136
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
0.319 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,562,164
Number of Sequences: 62578
Number of extensions: 436669
Number of successful extensions: 745
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 739
Number of HSP's gapped (non-prelim): 9
length of query: 517
length of database: 14,973,337
effective HSP length: 103
effective length of query: 414
effective length of database: 8,527,803
effective search space: 3530510442
effective search space used: 3530510442
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)