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= 043231
(353 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PBW|A Chain A, Structure Of Bcr-Homology (Bh) Domain
pdb|1PBW|B Chain B, Structure Of Bcr-Homology (Bh) Domain
Length = 216
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 14/106 (13%)
Query: 155 MADQLTGQGVMPVSNIKYRNLLVKQGMKFSQLHN--------QLTVYFFCDHQQLHLESA 206
+A+Q + P IK + K+G++ S L+ +L CD + LE
Sbjct: 15 LAEQFAPPDIAPPLLIKLVEAIEKKGLECSTLYRTQSSSNLAELRQLLDCDTPSVDLEMI 74
Query: 207 ACYVLAGSFKTHHYDTCK---NGRLYRELAYVISFLPYYWRAMQYV 249
+VLA +FK + D +Y E+ IS P + +Y+
Sbjct: 75 DVHVLADAFKRYLLDLPNPVIPAAVYSEM---ISLAPEVQSSEEYI 117
>pdb|2FL8|A Chain A, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|B Chain B, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|C Chain C, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|D Chain D, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|E Chain E, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|F Chain F, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|G Chain G, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|H Chain H, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|I Chain I, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|J Chain J, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|K Chain K, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|L Chain L, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|M Chain M, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|N Chain N, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|O Chain O, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|P Chain P, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|Q Chain Q, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL8|R Chain R, Fitting Of The Gp10 Trimer Structure Into The Cryoem Map
Of The Bacteriophage T4 Baseplate In The Hexagonal
Conformation.
pdb|2FL9|A Chain A, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|B Chain B, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|C Chain C, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|D Chain D, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|E Chain E, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|F Chain F, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|G Chain G, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|H Chain H, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|I Chain I, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|J Chain J, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|K Chain K, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|L Chain L, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|M Chain M, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|N Chain N, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|O Chain O, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|P Chain P, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|Q Chain Q, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
pdb|2FL9|R Chain R, Evolution Of Bacteriophage Tails: Structure Of T4 Gene
Product 10
Length = 602
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 130 NTALKYKDAFATWACSPVVLMVDFFMADQLTGQGVMPVSNIKYRNL 175
N ++ +D FATW +PV L+ D + G V N+++ +L
Sbjct: 90 NKVIRARDVFATWNVNPVTLVA--ASGDTIKGSAVPVEINVRFSDL 133
>pdb|3CFZ|A Chain A, Crystal Structure Of M. Jannaschii Periplasmic Binding
Protein ModaWTPA WITH BOUND TUNGSTATE
Length = 292
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 7/54 (12%)
Query: 259 LTYTRQSNYL-------WFGIVLGTSVDWGFLNPNSRNPWLRDDLILRNKSIYY 305
L YT +S Y W+ I+ V GF NPN R ++L+ +YY
Sbjct: 89 LAYTDKSKYKDEINSTNWYKILQRPDVKIGFSNPNDDPCGYRTQMVLQLAELYY 142
>pdb|3CFX|A Chain A, Crystal Structure Of M. Acetivorans Periplasmic Binding
Protein Moda/wtpa With Bound Tungstate
pdb|3CFX|B Chain B, Crystal Structure Of M. Acetivorans Periplasmic Binding
Protein Moda/wtpa With Bound Tungstate
Length = 296
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 259 LTYTRQSNYL-------WFGIVLGTSVDWGFLNPNSRNPWLRDDLILRNKSIYY 305
L YT +S Y W+ I+ V +GF NPN R ++ + YY
Sbjct: 89 LAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYY 142
>pdb|3K6U|A Chain A, M. Acetivorans Molybdate-binding Protein (moda) In
Unliganded Open Form
pdb|3K6V|A Chain A, M. Acetivorans Molybdate-Binding Protein (Moda) In
Citrate-Bound Open Form
pdb|3K6W|A Chain A, Apo And Ligand Bound Structures Of Moda From The Archaeon
Methanosarcina Acetivorans
pdb|3K6X|A Chain A, M. Acetivorans Molybdate-Binding Protein (Moda) In
Molybdate-Bound Close Form With 2 Molecules In
Asymmetric Unit Forming Beta Barrel
pdb|3K6X|B Chain B, M. Acetivorans Molybdate-Binding Protein (Moda) In
Molybdate-Bound Close Form With 2 Molecules In
Asymmetric Unit Forming Beta Barrel
Length = 354
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 7/54 (12%)
Query: 259 LTYTRQSNYL-------WFGIVLGTSVDWGFLNPNSRNPWLRDDLILRNKSIYY 305
L YT +S Y W+ I+ V +GF NPN R ++ + YY
Sbjct: 127 LAYTNESKYGDEINTDNWYEILRRPDVRYGFSNPNDDPAGYRSQMVTQLAESYY 180
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
0.330 0.139 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,379,353
Number of Sequences: 62578
Number of extensions: 340950
Number of successful extensions: 710
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 710
Number of HSP's gapped (non-prelim): 5
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 52 (24.6 bits)