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= 026927
(230 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I5I|A Chain A, Crystal Structure Of A Putative Cellobiose-phosphate
Cleavage Protein (ef3048) From Enterococcus Faecalis
V583 At 1.70 A Resolution
pdb|2I5I|B Chain B, Crystal Structure Of A Putative Cellobiose-phosphate
Cleavage Protein (ef3048) From Enterococcus Faecalis
V583 At 1.70 A Resolution
Length = 263
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 81 NKRRKQLREQFMRRTRLVLKDSEHEVFCKRYMELYQELRENWERLY--WDEGYSKK 134
NK+ + R+ +L L+++ + K Y+ELYQ++R E LY +D+ S +
Sbjct: 137 NKKLLGVALALARKYQLPLRNASRSIETKDYLELYQDVRTPDEXLYQFYDKAISTE 192
>pdb|1A8L|A Chain A, Protein Disulfide Oxidoreductase From Archaeon Pyrococcus
Furiosus
Length = 226
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 14/89 (15%)
Query: 79 IPNKRRKQLREQFMRRTR-----LVLKDSEHEVFCKRYMELYQELRE-----NWERLYWD 128
I + +K ++E+F + +V +H +C + +L QEL E ++E + +D
Sbjct: 4 ISDADKKVIKEEFFSKMVNPVKLIVFVRKDHCQYCDQLKQLVQELSELTDKLSYEIVDFD 63
Query: 129 EGYSKKLAK----DHANYDSAEEDDQDFN 153
K+LAK D A + +D +DF
Sbjct: 64 TPEGKELAKRYRIDRAPATTITQDGKDFG 92
>pdb|1Q8I|A Chain A, Crystal Structure Of Escherichia Coli Dna Polymerase Ii
Length = 783
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 10/92 (10%)
Query: 43 TKPNKEKSEWWIVDGEMHEIGDHVPPRERFV-IPRDNIPNKRRKQLREQFMRRTRLVLKD 101
T E S W D ++ + P+E IP D +P + EQ R T L LKD
Sbjct: 15 TPQGTEVSFWLATDNGPLQV--TLAPQESVAFIPADQVPRAQHILQGEQGFRLTPLALKD 72
Query: 102 ----SEHEVFCKRYMELY---QELRENWERLY 126
+ ++C+ + +L + LRE +Y
Sbjct: 73 FHRQPVYGLYCRAHRQLMNYEKRLREGGVTVY 104
>pdb|3K5L|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Datp Lt(0,
3) Ternary Complex
pdb|3K5M|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna-Ddgtp Lt(-2,
2) Ternary Complex
pdb|3K5N|A Chain A, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5N|B Chain B, Crystal Structure Of E.Coli Pol Ii-Abasic Dna Binary
Complex
pdb|3K5O|A Chain A, Crystal Structure Of E.Coli Pol Ii
pdb|3K5O|B Chain B, Crystal Structure Of E.Coli Pol Ii
pdb|3K57|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Datp Ternary
Complex
pdb|3K58|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dttp Ternary
Complex
pdb|3K59|A Chain A, Crystal Structure Of E.Coli Pol Ii-Normal Dna-Dctp Ternary
Complex
pdb|3MAQ|A Chain A, Crystal Structure Of E.coli Pol Ii-normal Dna-dgtp Ternary
Complex
Length = 786
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 10/92 (10%)
Query: 43 TKPNKEKSEWWIVDGEMHEIGDHVPPRERFV-IPRDNIPNKRRKQLREQFMRRTRLVLKD 101
T E S W D ++ + P+E IP D +P + EQ R T L LKD
Sbjct: 18 TPQGTEVSFWLATDNGPLQV--TLAPQESVAFIPADQVPRAQHILQGEQGFRLTPLALKD 75
Query: 102 ----SEHEVFCKRYMELY---QELRENWERLY 126
+ ++C+ + +L + LRE +Y
Sbjct: 76 FHRQPVYGLYCRAHRQLMNYEKRLREGGVTVY 107
>pdb|1KQF|A Chain A, Formate Dehydrogenase N From E. Coli
pdb|1KQG|A Chain A, Formate Dehydrogenase N From E. Coli
Length = 1015
Score = 27.7 bits (60), Expect = 5.9, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 110 RYMELYQELRENWERLYWDEGYSK--KLAKDHANYDSAEEDDQ 150
RY E + W+R+ W+E +S+ KL K + + E+++Q
Sbjct: 109 RYPEYRAPGSDKWQRISWEEAFSRIAKLMKADRDANFIEKNEQ 151
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
0.321 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,201,298
Number of Sequences: 62578
Number of extensions: 314310
Number of successful extensions: 545
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 538
Number of HSP's gapped (non-prelim): 14
length of query: 230
length of database: 14,973,337
effective HSP length: 96
effective length of query: 134
effective length of database: 8,965,849
effective search space: 1201423766
effective search space used: 1201423766
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)