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= 025962
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NM2|A Chain A, "malonyl-Coa:acp Transacylase"
Length = 317
Score = 27.7 bits (60), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 37/86 (43%), Gaps = 3/86 (3%)
Query: 3 RSTPVRKPHTSTADLLVWSETPPSDSPAQASS---TRSSVRGQPSDGISKVVFGGQVTDE 59
R T V +P A +L + S A A+ T +V G I+ VF G + D
Sbjct: 55 RDTSVAQPLLVAAGILSAAALGTQTSVADATGPGFTPGAVAGHSVGEITAAVFAGVLDDT 114
Query: 60 EVESLNRRKPCSGYKMKEMTGSGIFA 85
SL RR+ + + +T +G+ A
Sbjct: 115 AALSLVRRRGLAMAEAAAVTETGMSA 140
>pdb|4DN5|A Chain A, Crystal Structure Of Nf-kb-inducing Kinase (nik)
pdb|4DN5|B Chain B, Crystal Structure Of Nf-kb-inducing Kinase (nik)
Length = 356
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 22 ETPPSDSPAQASSTRSSVRGQPSDGISKVVFGGQVT 57
E PPS +P A + + +R +P +S GG+V
Sbjct: 293 EIPPSCAPLTAQAIQEGLRKEPIHRVSAAELGGKVN 328
>pdb|4G3D|A Chain A, Crystal Structure Of Human Nf-kappab Inducing Kinase (nik)
pdb|4G3D|B Chain B, Crystal Structure Of Human Nf-kappab Inducing Kinase (nik)
pdb|4G3D|D Chain D, Crystal Structure Of Human Nf-kappab Inducing Kinase (nik)
pdb|4G3D|E Chain E, Crystal Structure Of Human Nf-kappab Inducing Kinase (nik)
Length = 371
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 22 ETPPSDSPAQASSTRSSVRGQPSDGISKVVFGGQVT 57
E PPS +P A + + +R +P +S GG+V
Sbjct: 312 EIPPSCAPLTAQAIQEGLRKEPIHRVSAAELGGKVN 347
>pdb|1Q12|A Chain A, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|B Chain B, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|C Chain C, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|D Chain D, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q1E|A Chain A, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|1Q1E|B Chain B, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|2AWN|A Chain A, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|B Chain B, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|C Chain C, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|D Chain D, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWO|A Chain A, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|B Chain B, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|C Chain C, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|D Chain D, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|3FH6|A Chain A, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|B Chain B, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|C Chain C, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|D Chain D, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3PUY|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUY|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PUZ|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PV0|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PV0|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PUV|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUV|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUW|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3PUX|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|A Chain A, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
pdb|3RLF|B Chain B, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 381
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 99 NPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKL 158
N TP + G+ M Q+ A H+S E S K EV QR + +E
Sbjct: 68 NDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAKKEVINQR-----VNQVAEVLQ 122
Query: 159 KKQISDAKSKELSG 172
+ D K K LSG
Sbjct: 123 LAHLLDRKPKALSG 136
>pdb|2R6G|A Chain A, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|2R6G|B Chain B, The Crystal Structure Of The E. Coli Maltose Transporter
Length = 381
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 99 NPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKL 158
N TP + G+ M Q+ A H+S E S K EV QR + +E
Sbjct: 68 NDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAKKEVINQR-----VNQVAEVLQ 122
Query: 159 KKQISDAKSKELSG 172
+ D K K LSG
Sbjct: 123 LAHLLDRKPKALSG 136
>pdb|1Q1B|A Chain A, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|B Chain B, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|C Chain C, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|D Chain D, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
Length = 381
Score = 26.9 bits (58), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 99 NPTPNNKTGLRMYQQAIAGISHISFGEEDSISPKKPTTLPEVAKQRELSGTLESESEAKL 158
N TP + G+ M Q+ A H+S E S K EV QR + +E
Sbjct: 68 NDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAKKEVINQR-----VNQVAEVLQ 122
Query: 159 KKQISDAKSKELSG 172
+ D K K LSG
Sbjct: 123 LAHLLDRKPKALSG 136
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
0.309 0.126 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,969,537
Number of Sequences: 62578
Number of extensions: 277864
Number of successful extensions: 544
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 542
Number of HSP's gapped (non-prelim): 10
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 50 (23.9 bits)