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= 010325
(513 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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 67/158 (42%), Gaps = 12/158 (7%)
Query: 189 RAQLKALVTIHSQEAGKGGELTHDETTIISGALDLTEKTAEEAMTPIESTFSLDVNSKLD 248
R +L AL+ +++G+ + D + G D+ ++ + P +L N LD
Sbjct: 34 RDELLALI----RDSGQNDLIDEDTRDXLEGVXDIADQRVRDIXIPRSQXITLKRNQTLD 89
Query: 249 WEAMGKILARGHSRVPVYSGNPKNIIGLLLVKSLLTVRPETETPVSAVSIRRIPR----V 304
E + I+ HSR PV S + +I G+L K LL P + A S ++ R V
Sbjct: 90 -ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLL---PFXRSDAEAFSXDKVLRQAVVV 145
Query: 305 PSDMPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
P + L EF+ H A V+ G L + D
Sbjct: 146 PESKRVDRXLKEFRSQRYHXAIVIDEFGGVSGLVTIED 183
>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 = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 36/112 (32%), Positives = 53/112 (47%), Gaps = 10/112 (8%)
Query: 225 EKTAEEAMTPIESTFSLDVNSKLDWEAMGKILARGHSRVPVYSGNPKNIIGLLLVKSLLT 284
E+T + P LD++ L + + I+ HSR PVY + NIIG+LL K LL
Sbjct: 4 ERTVADIXVPRSRXDLLDISQPLP-QLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLR 62
Query: 285 VRPETETPVSAVSIRRIPR----VPSDMPLYDILNEFQKGSSHMAAVVKAKG 332
E A+ IR + R +P L +L EF+ +H+A V+ G
Sbjct: 63 YXLE-----PALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLAIVIDEHG 109
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 56/142 (39%), Gaps = 1/142 (0%)
Query: 201 QEAGKGGELTHDETTIISGALDLTEKTAEEAMTPIESTFSLDVNSKLDWEAMGKILARGH 260
QE G + H+E + L E+T P LD+N LD + + H
Sbjct: 17 QEGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIVFLDLNLPLDAN-LRTVXQSPH 75
Query: 261 SRVPVYSGNPKNIIGLLLVKSLLTVRPETETPVSAVSIRRIPRVPSDMPLYDILNEFQKG 320
SR PV N + +G++ K LL+ E ++ VP+ + ++L F+
Sbjct: 76 SRFPVCRNNVDDXVGIISAKQLLSESIAGERLELVDLVKNCNFVPNSLSGXELLEHFRTT 135
Query: 321 SSHMAAVVKAKGKSKTLPPMTD 342
S VV G K L + D
Sbjct: 136 GSQXVFVVDEYGDLKGLVTLQD 157
>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 = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 34/122 (27%), Positives = 50/122 (40%), Gaps = 8/122 (6%)
Query: 225 EKTAEEAMTPIESTFSLDVNSKLDWEAMGKILARGHSRVPVYSGNPKNIIGLLLVKSLLT 284
++ + P +L N LD E + I+ HSR PV S + +I G+L K LL
Sbjct: 2 DQRVRDIXIPRSQXITLKRNQTLD-ECLDVIIESAHSRFPVISEDKDHIEGILXAKDLL- 59
Query: 285 VRPETETPVSAVSIRRIPR----VPSDMPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPM 340
P + A S ++ R VP + L EF+ H A V+ G L +
Sbjct: 60 --PFXRSDAEAFSXDKVLRTAVVVPESKRVDRXLKEFRSQRYHXAIVIDEFGGVSGLVTI 117
Query: 341 TD 342
D
Sbjct: 118 ED 119
>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 = 36.6 bits (83), Expect = 0.038, Method: Composition-based stats.
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 6/120 (5%)
Query: 227 TAEEAMTPIESTFSLDVNSKLDWEAMGKILARG-HSRVPVYSGNPKNIIGLLLVKS---L 282
+ + M P +D+N DW+++ + L H R+ +Y + + I +L V+ L
Sbjct: 3 SVNDIMVPRNEIVGIDIND--DWKSIVRQLTHSPHGRIVLYRDSLDDAISMLRVREAYRL 60
Query: 283 LTVRPETETPVSAVSIRRIPRVPSDMPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
+T + E + + I VP PL L +FQ+ + VV G + L + D
Sbjct: 61 MTEKKEFTKEIMLRAADEIYFVPEGTPLSTQLVKFQRNKKKVGLVVDEYGDIQGLVTVED 120
>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 = 0.067, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 37/88 (42%)
Query: 255 ILARGHSRVPVYSGNPKNIIGLLLVKSLLTVRPETETPVSAVSIRRIPRVPSDMPLYDIL 314
++ HSR PV + ++G+L K LL E +R VP L +L
Sbjct: 66 VIDTAHSRFPVIGEDKDEVLGILHAKDLLKYXFNPEQFHLKSILRPAVFVPEGKSLTALL 125
Query: 315 NEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
EF++ +H A V+ G + L D
Sbjct: 126 KEFREQRNHXAIVIDEYGGTSGLVTFED 153
>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 = 35.0 bits (79), Expect = 0.095, Method: Composition-based stats.
Identities = 26/95 (27%), Positives = 43/95 (45%), Gaps = 2/95 (2%)
Query: 250 EAMGKILARGHSRVPVYSGNPKNIIGLLLVKSLLTVRPETETPVSAVS--IRRIPRVPSD 307
E + ++ HSR PV + +++G+LL K LL + + + V +R VP
Sbjct: 26 EFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILKADGDSDDVKKLLRPATFVPES 85
Query: 308 MPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
L +L EF+ +H A V+ G L + D
Sbjct: 86 KRLNVLLREFRANHNHXAIVIDEYGGVAGLVTIED 120
>pdb|2QH1|A Chain A, Structure Of Ta289, A Cbs-Rubredoxin-Like Protein, In Its
Fe+2-Bound State
pdb|2QH1|B Chain B, Structure Of Ta289, A Cbs-Rubredoxin-Like Protein, In Its
Fe+2-Bound State
Length = 198
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 7/95 (7%)
Query: 254 KILARGHSRVPVYSGNPKNIIGLLLVKSLL------TVRPETETPVSAVSIRRIPRVPSD 307
KI+ H V + N +GLL +S++ +P+ E P+ V + IP+V SD
Sbjct: 47 KIMNENHLYGLVVKDDNGNDVGLLSERSIIKRFIPRNKKPD-EVPIRLVMRKPIPKVKSD 105
Query: 308 MPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
+ D+ + AVV G+ + +TD
Sbjct: 106 YDVKDVAAYLSENGLERCAVVDDPGRVVGIVTLTD 140
>pdb|1PVM|A Chain A, Crystal Structure Of A Conserved Cbs Domain Protein Ta0289
Of Unknown Function From Thermoplasma Acidophilum
pdb|1PVM|B Chain B, Crystal Structure Of A Conserved Cbs Domain Protein Ta0289
Of Unknown Function From Thermoplasma Acidophilum
Length = 184
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 42/95 (44%), Gaps = 7/95 (7%)
Query: 254 KILARGHSRVPVYSGNPKNIIGLLLVKSLL------TVRPETETPVSAVSIRRIPRVPSD 307
KI+ H V + N +GLL +S++ +P+ E P+ V + IP+V SD
Sbjct: 33 KIMNENHLYGLVVKDDNGNDVGLLSERSIIKRFIPRNKKPD-EVPIRLVMRKPIPKVKSD 91
Query: 308 MPLYDILNEFQKGSSHMAAVVKAKGKSKTLPPMTD 342
+ D+ + AVV G+ + +TD
Sbjct: 92 YDVKDVAAYLSENGLERCAVVDDPGRVVGIVTLTD 126
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
0.317 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,723,919
Number of Sequences: 62578
Number of extensions: 454359
Number of successful extensions: 881
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 874
Number of HSP's gapped (non-prelim): 12
length of query: 513
length of database: 14,973,337
effective HSP length: 103
effective length of query: 410
effective length of database: 8,527,803
effective search space: 3496399230
effective search space used: 3496399230
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: 54 (25.4 bits)