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= 001078
(1162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W36|C Chain C, Recbcd:dna Complex
pdb|1W36|F Chain F, Recbcd:dna Complex
pdb|3K70|C Chain C, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
pdb|3K70|F Chain F, Crystal Structure Of The Complete Initiation Complex Of
Recbcd
Length = 1122
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 54/120 (45%), Gaps = 13/120 (10%)
Query: 246 VYYGNINSYTDVLEKVLSESGINRYNPQIITDAKVKPKFISLASSFLGRETELKDINYLH 305
V +I+SY+ ++ V + +RY P I+D + + L + I+ L
Sbjct: 410 VMVADIDSYSPFIQAVFGSAPADRYLPYAISDRRARQSHPVLEAF----------ISLLS 459
Query: 306 SPETVDDVKPVTHLLAVDVTSKKGMKLLHEGIRFLIGGSN--GARLGVLFSASREADLPS 363
P++ + V LL V V + + + EG+R+L N G R G+ RE +LP+
Sbjct: 460 LPDSRFVSEDVLALLDVPVLAAR-FDITEEGLRYLRQWVNESGIRWGIDDDNVRELELPA 518
>pdb|2WVX|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVX|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVX|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
Length = 744
Score = 33.1 bits (74), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 968 ELYDMDIKGRPLAYTPFCDNNKDMDGYRFWRQGFW 1002
+ Y++D G+P+ Y+P+ N + + GY F GFW
Sbjct: 296 KFYELDANGQPIHYSPY--NGQVLPGYXFTDTGFW 328
>pdb|2WVX|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
Length = 744
Score = 33.1 bits (74), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 968 ELYDMDIKGRPLAYTPFCDNNKDMDGYRFWRQGFW 1002
+ Y++D G+P+ Y+P+ N + + GY F GFW
Sbjct: 296 KFYELDANGQPIHYSPY--NGQVLPGYXFTDTGFW 328
>pdb|2WZS|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|E Chain E, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|F Chain F, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|G Chain G, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
pdb|2WZS|H Chain H, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Mannoimidazole
Length = 738
Score = 33.1 bits (74), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 968 ELYDMDIKGRPLAYTPFCDNNKDMDGYRFWRQGFW 1002
+ Y++D G+P+ Y+P+ N + + GY F GFW
Sbjct: 296 KFYELDANGQPIHYSPY--NGQVLPGYMFTDTGFW 328
>pdb|2WVZ|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVZ|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVZ|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVZ|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|E Chain E, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|F Chain F, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|G Chain G, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW0|H Chain H, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW1|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW1|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW1|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW1|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|D Chain D, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|E Chain E, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
pdb|2WW3|F Chain F, Structure Of The Family Gh92 Inverting Mannosidase Bt3990
From Bacteroides Thetaiotaomicron Vpi-5482 In Complex
With Thiomannobioside
Length = 744
Score = 33.1 bits (74), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 968 ELYDMDIKGRPLAYTPFCDNNKDMDGYRFWRQGFW 1002
+ Y++D G+P+ Y+P+ N + + GY F GFW
Sbjct: 296 KFYELDANGQPIHYSPY--NGQVLPGYMFTDTGFW 328
>pdb|2WVY|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVY|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WVY|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW2|A Chain A, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW2|B Chain B, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
pdb|2WW2|C Chain C, Structure Of The Family Gh92 Inverting Mannosidase Bt2199
From Bacteroides Thetaiotaomicron Vpi-5482
Length = 737
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 968 ELYDMDIKGRPLAYTPFCDNNKDMDGYRFWRQGFW 1002
E Y+ D +G P+ Y+P+ N DGY + GFW
Sbjct: 300 EFYEFDSQGNPVYYSPYDGNVH--DGYMYTDNGFW 332
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 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,668,264
Number of Sequences: 62578
Number of extensions: 1333074
Number of successful extensions: 3128
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 3123
Number of HSP's gapped (non-prelim): 7
length of query: 1162
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1053
effective length of database: 8,152,335
effective search space: 8584408755
effective search space used: 8584408755
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: 57 (26.6 bits)