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= 013480
(442 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LXM|A Chain A, Lip5-chmp5
Length = 168
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 59/144 (40%), Positives = 84/144 (58%), Gaps = 12/144 (8%)
Query: 14 YLQRADELQKHEPLVAYYCRLYAMERGLRIPQGERTKTTNSLLVSLMNQLEKDKKSLKLG 73
+L+ A E K +P+VAYYCRLYAM+ G++I +T L LM+QLE KK +LG
Sbjct: 20 HLRTAQEHDKRDPVVAYYCRLYAMQTGMKID--SKTPECRKFLSKLMDQLEALKK--QLG 75
Query: 74 PEDSL--------HLEGFALNVFAKADKQDRAGRADLNTAKTFYAASIFFEILNQFGALQ 125
+++ HLE +AL +F AD +DRAGR N K+FY AS+ +++ FG L
Sbjct: 76 DNEAITQEIVGCAHLENYALKMFLYADNEDRAGRFHKNMIKSFYTASLLIDVITVFGELT 135
Query: 126 PDLEEKQKYAAWKAADIRKAMKEG 149
+ + +KYA WKA I +K G
Sbjct: 136 DENVKHRKYARWKATYIHNCLKNG 159
>pdb|2LXL|A Chain A, Lip5(mit)2
Length = 183
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 59/144 (40%), Positives = 84/144 (58%), Gaps = 12/144 (8%)
Query: 14 YLQRADELQKHEPLVAYYCRLYAMERGLRIPQGERTKTTNSLLVSLMNQLEKDKKSLKLG 73
+L+ A E K +P+VAYYCRLYAM+ G++I +T L LM+QLE KK +LG
Sbjct: 20 HLRTAQEHDKRDPVVAYYCRLYAMQTGMKID--SKTPECRKFLSKLMDQLEALKK--QLG 75
Query: 74 PEDSL--------HLEGFALNVFAKADKQDRAGRADLNTAKTFYAASIFFEILNQFGALQ 125
+++ HLE +AL +F AD +DRAGR N K+FY AS+ +++ FG L
Sbjct: 76 DNEAITQEIVGCAHLENYALKMFLYADNEDRAGRFHKNMIKSFYTASLLIDVITVFGELT 135
Query: 126 PDLEEKQKYAAWKAADIRKAMKEG 149
+ + +KYA WKA I +K G
Sbjct: 136 DENVKHRKYARWKATYIHNCLKNG 159
>pdb|3DNT|A Chain A, Structures Of Mdt Proteins
pdb|3DNT|B Chain B, Structures Of Mdt Proteins
pdb|3DNU|A Chain A, Structure Of Mdt Protein
Length = 440
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|2WIU|A Chain A, Mercury-Modified Bacterial Persistence Regulator Hipba
pdb|2WIU|C Chain C, Mercury-Modified Bacterial Persistence Regulator Hipba
Length = 446
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3TPD|A Chain A, Structure Of Phipa, Monoclinic Form
Length = 440
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3FBR|A Chain A, Structure Of Hipa-Amppnp-Peptide
Length = 437
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3DNV|A Chain A, Mdt Protein
Length = 440
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3TPT|A Chain A, Structure Of Hipa(D309q) Bound To Adp
pdb|3TPT|B Chain B, Structure Of Hipa(D309q) Bound To Adp
Length = 440
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3TPB|A Chain A, Structure Of Hipa(S150a)
Length = 440
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3TPE|A Chain A, The Phipa P3121 Structure
pdb|3TPV|B Chain B, Structure Of Phipa Bound To Adp
Length = 440
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
>pdb|3HZI|A Chain A, Structure Of Mdt Protein
Length = 440
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 30 YYCRLYAMERGLRIPQGERTKTTN 53
YYC L A E GL +P E K N
Sbjct: 204 YYCLLLAKELGLNVPDAEIIKAGN 227
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
0.311 0.129 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,716,374
Number of Sequences: 62578
Number of extensions: 472332
Number of successful extensions: 763
Number of sequences better than 100.0: 134
Number of HSP's better than 100.0 without gapping: 122
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 639
Number of HSP's gapped (non-prelim): 134
length of query: 442
length of database: 14,973,337
effective HSP length: 102
effective length of query: 340
effective length of database: 8,590,381
effective search space: 2920729540
effective search space used: 2920729540
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 53 (25.0 bits)