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= 015949
(397 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LHH|A Chain A, The Crystal Structure Of Cbs Domain Protein From
Shewanella Oneidensis Mr-1
Length = 172
Score = 35.0 bits (79), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 180 EAGKGGELTRDETTIITGALELSEKTARDAMTPASETFAIDVSFKLDRNLMRLVLEKGHS 239
E G + +E + L E+T P S+ +D++ LD NL R V + HS
Sbjct: 18 EGSSAGVIEHNEHAXVKNVFRLDERTISSLXVPRSDIVFLDLNLPLDANL-RTVXQSPHS 76
Query: 240 RVPV 243
R PV
Sbjct: 77 RFPV 80
>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 = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 50/105 (47%), Gaps = 16/105 (15%)
Query: 202 SEKTARDAMTPASETFAIDVSFKLDRNLMRLVLEKGHSRVPV--------------KNLL 247
+E+T D P S +D+S L + L+ ++E HSR PV K+LL
Sbjct: 3 AERTVADIXVPRSRXDLLDISQPLPQ-LLATIIETAHSRFPVYEDDRDNIIGILLAKDLL 61
Query: 248 TIHPEDEVPVKNVSIRRIPRVSETMPLYDILNEFQKGHSHMAVVV 292
E + ++++ +R + E L +L EF+ +H+A+V+
Sbjct: 62 RYXLEPALDIRSL-VRPAVFIPEVKRLNVLLREFRASRNHLAIVI 105
>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
Ssdna From A Portion Of Fuse
Length = 216
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 32/132 (24%), Positives = 56/132 (42%), Gaps = 18/132 (13%)
Query: 178 GNEAGKGGELTRDE-----TTIITGAL--ELSEKTARDAMTPASETFAIDVSFKLDRNLM 230
G + G+G R + + G++ EL E T R A P +ID+S+ D M
Sbjct: 10 GQQMGRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW--DSVTM 67
Query: 231 RLVLEKGHS----RVPVKNLLTIHPEDEVPV--KNVSIRRIPRVSETMPLYDILNEFQKG 284
+ KG + VP L + + V + +N+ + R + + P+ D L E +
Sbjct: 68 K---HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARA 124
Query: 285 HSHMAVVVRHQN 296
+ + V HQ+
Sbjct: 125 FNRIYVASVHQD 136
>pdb|2KXF|A Chain A, Solution Structure Of The First Two Rrm Domains Of
Fbp-Interacting Repressor (Fir)
pdb|2KXH|A Chain A, Solution Structure Of The First Two Rrm Domains Of Fir In
The Complex With Fbp Nbox Peptide
Length = 199
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 11/104 (10%)
Query: 199 LELSEKTARDAMTPASETFAIDVSFKLDRNLMRLVLEKGHS----RVPVKNLLTIHPEDE 254
EL E T R A P +ID+S+ D M+ KG + VP L + +
Sbjct: 23 YELGEDTIRQAFAPFGPIKSIDMSW--DSVTMK---HKGFAFVEYEVPEAAQLALEQMNS 77
Query: 255 VPV--KNVSIRRIPRVSETMPLYDILNEFQKGHSHMAVVVRHQN 296
V + +N+ + R + + P+ D L E + + + V HQ+
Sbjct: 78 VMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQD 121
>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 = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 46/103 (44%), Gaps = 19/103 (18%)
Query: 207 RDAMTPASETFAIDVSFKLDRNLMRLVLEKGHSRVPV--------------KNLLTI--- 249
RD P S+ +I + + R + V++ HSR PV K+LL +
Sbjct: 6 RDIXVPRSQXISIKAT-QTPREFLPAVIDAAHSRYPVIGESHDDVLGVLLAKDLLPLILK 64
Query: 250 HPEDEVPVKNVSIRRIPRVSETMPLYDILNEFQKGHSHMAVVV 292
D VK + +R V E+ L +L EF+ H+H A+V+
Sbjct: 65 ADGDSDDVKKL-LRPATFVPESKRLNVLLREFRANHNHXAIVI 106
>pdb|1VL2|A Chain A, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|B Chain B, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|C Chain C, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
pdb|1VL2|D Chain D, Crystal Structure Of Argininosuccinate Synthase (Tm1780)
From Thermotoga Maritima At 1.65 A Resolution
Length = 421
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 244 KNLLTIHPEDEVPVKNVSIRRIPRVSETMPLYDILNE 280
+ LL IH E+ +PVK V+++ ++ + L++ LNE
Sbjct: 230 ETLLEIHFENGIPVKVVNLKDGTEKTDPLELFEYLNE 266
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
0.320 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,457,093
Number of Sequences: 62578
Number of extensions: 408908
Number of successful extensions: 759
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 755
Number of HSP's gapped (non-prelim): 11
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
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: 52 (24.6 bits)