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= 000718
(1334 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CG2|A Chain A, Carboxypeptidase G2
pdb|1CG2|B Chain B, Carboxypeptidase G2
pdb|1CG2|C Chain C, Carboxypeptidase G2
pdb|1CG2|D Chain D, Carboxypeptidase G2
Length = 393
Score = 33.5 bits (75), Expect = 0.93, Method: Composition-based stats.
Identities = 36/129 (27%), Positives = 63/129 (48%), Gaps = 11/129 (8%)
Query: 799 DLVKKSLSAVFDYVGGEEPHNGID---CVGTSMPTSVQVSKLGR--YLFILSHIAMNQLV 853
DL+++ + + DYV EP + D +GTS VQV+ G+ + + +N LV
Sbjct: 162 DLIQEE-AKLADYVLSFEPTSAGDEKLSLGTSGIAYVQVNITGKASHAGAAPELGVNALV 220
Query: 854 YIESCVCEIRKQKIK-KEKMIADDQNIHSNNNTNGDLPKDTSINAELGLAASE--DAKLD 910
V +R I K K + + I N + +P ++NA++ A +E DA +
Sbjct: 221 EASDLV--LRTMNIDDKAKNLRFNWTIAKAGNVSNIIPASATLNADVRYARNEDFDAAMK 278
Query: 911 TLSEKAEKE 919
TL E+A+++
Sbjct: 279 TLEERAQQK 287
>pdb|3K7D|A Chain A, C-Terminal (Adenylylation) Domain Of E.Coli Glutamine
Synthetase Adenylyltransferase
pdb|3K7D|B Chain B, C-Terminal (Adenylylation) Domain Of E.Coli Glutamine
Synthetase Adenylyltransferase
Length = 498
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 5/74 (6%)
Query: 1060 EDEDQRISNLAKLFFHELSKK-----GNNPIYNLLPDILGKLCNQNLKTESFCNIMQLLI 1114
ED+ +++ L F EL K+ G + +L+P +L +C + + I LL+
Sbjct: 26 EDDRKQVLTLIADFRKELDKRTIGPRGRQVLDHLMPHLLSDVCAREDAAVTLSRITALLV 85
Query: 1115 GFIKKDKQMEALVE 1128
G + + +E L E
Sbjct: 86 GIVTRTTYLELLSE 99
>pdb|3FIP|A Chain A, Crystal Structure Of Usher Papc Translocation Pore
pdb|3FIP|B Chain B, Crystal Structure Of Usher Papc Translocation Pore
Length = 493
Score = 31.2 bits (69), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 498 VDDLNAEVVVQEQQESLTDSCLPLADEGIADKDSSV 533
+ + NA VVV +Q L DS +P I D DSSV
Sbjct: 124 IAETNARVVVSQQGRVLYDSMVPAGPFSIQDLDSSV 159
>pdb|3ULQ|A Chain A, Crystal Structure Of The Anti-Activator Rapf Complexed With
The Response Regulator Coma Dna Binding Domain
Length = 383
Score = 30.8 bits (68), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 1086 YNLLPDILGKLCNQNLKTESFCNIMQLLIGFIKKDKQMEALVEKLCNRFSGVTDIRQWEY 1145
+NL+ + L L + ++ E + LL+ KK ++ L+E N F G+ ++ Q EY
Sbjct: 62 HNLMLEYLEPL--EKMRIEEQPRLSDLLLEIDKKQARLTGLLEYYFNFFRGMYELDQREY 119
Query: 1146 ISYCLSQLAFTEKGMKKLI 1164
LS + F +K KLI
Sbjct: 120 ----LSAIKFFKKAESKLI 134
>pdb|2VQI|A Chain A, Structure Of The P Pilus Usher (Papc) Translocation Pore
pdb|2VQI|B Chain B, Structure Of The P Pilus Usher (Papc) Translocation Pore
Length = 515
Score = 30.8 bits (68), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 498 VDDLNAEVVVQEQQESLTDSCLPLADEGIADKDSSV 533
+ + NA VVV +Q L DS +P I D DSSV
Sbjct: 138 IAETNARVVVSQQGRVLYDSXVPAGPFSIQDLDSSV 173
>pdb|2QGM|A Chain A, Crystal Structure Of Succinoglycan Biosynthesis Protein At
The Resolution 1.7 A. Northeast Structural Genomics
Consortium Target Bcr136
Length = 445
Score = 30.4 bits (67), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%)
Query: 260 DFVVVHMADAVAGAEKKYADGSLATYLIREIGRTNPKAYVKDTVGAENIGRFL 312
D+V +H D +A E+ Y + S T I+E + PK K AE + R L
Sbjct: 185 DYVRLHRPDLLAEVEENYKELSSFTGSIQEYXKLTPKLKEKFKANAERVARLL 237
>pdb|2Z6G|A Chain A, Crystal Structure Of A Full-Length Zebrafish Beta-Catenin
Length = 780
Score = 30.4 bits (67), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 32/60 (53%), Gaps = 2/60 (3%)
Query: 1021 RLKDPSMAVRKNAVLVLSHLILNDMMKVKGYINEMAIRVEDEDQRISNLAKLFFHELSKK 1080
RL +PS ++ V ++++ +D I E+ + DEDQ + N A + H+LSKK
Sbjct: 123 RLAEPSQMLKHAVVNLINYQ--DDAELATRAIPELTKLLNDEDQVVVNKAAVMVHQLSKK 180
>pdb|1YB3|A Chain A, Conserved Hypothetical Protein Pfu-178653-001 From
Pyrococcus Furiosus
Length = 175
Score = 30.4 bits (67), Expect = 7.0, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 1159 GMKKLIESFKTYEHALSEDSVMDNFRNIINKSKK---------FAKPEVKVCIEEFEEKL 1209
G + +E F +EH +S D V D I+N ++ F K EVK I+ F E
Sbjct: 113 GAENFLEDFYNFEHPISGDEVWD---RIVNSDEEXINFEVDLGFDKEEVKREIKRFIELA 169
Query: 1210 NKYH 1213
+Y+
Sbjct: 170 RRYN 173
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 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,611,620
Number of Sequences: 62578
Number of extensions: 1413511
Number of successful extensions: 3633
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3624
Number of HSP's gapped (non-prelim): 19
length of query: 1334
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1224
effective length of database: 8,089,757
effective search space: 9901862568
effective search space used: 9901862568
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)