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= 043029
(109 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
46 Structures
Length = 70
Score = 95.9 bits (237), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 46/66 (69%), Positives = 54/66 (81%), Gaps = 1/66 (1%)
Query: 28 KSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKIHGQKAKLNF 87
K +RGVR+RPWGKFAAEIRD K GARVWLGT++T EDAALAYDRAAF++ G +A LNF
Sbjct: 4 KHYRGVRQRPWGKFAAEIRD-PAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 62
Query: 88 PHLIGS 93
P + S
Sbjct: 63 PLRVNS 68
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 94.7 bits (234), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 45/61 (73%), Positives = 52/61 (85%), Gaps = 1/61 (1%)
Query: 28 KSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAYDRAAFKIHGQKAKLNF 87
K +RGVR+RPWGKFAAEIRD K GARVWLGT++T EDAALAYDRAAF++ G +A LNF
Sbjct: 1 KHYRGVRQRPWGKFAAEIRD-PAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNF 59
Query: 88 P 88
P
Sbjct: 60 P 60
>pdb|2POZ|A Chain A, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|B Chain B, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|C Chain C, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|D Chain D, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|E Chain E, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|F Chain F, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|G Chain G, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|H Chain H, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
Length = 392
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 41 FAAEIRDGKKKTGARVWLGTYDTPEDAALAYDR 73
F +IRD + + A W G DTP++ A A +R
Sbjct: 116 FGGKIRD-RVRAYANGWYGAADTPDEFARAVER 147
>pdb|2XZM|B Chain B, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|B Chain B, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 241
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 49 KKKTGARVWLGTYDTPEDAALAYDRAAFKIHGQKAKLNFPHLIGSKSSNTECW 101
K K ARV + PED + R I+GQ+A + F KS+++ W
Sbjct: 52 KIKLAARV-IAAVQHPEDVMVVCSR----IYGQRAAIKFAGYTHCKSTSSSRW 99
>pdb|3SUM|A Chain A, Crystal Structure Of Cerato-Platanin 5 From M. Perniciosa
(Mpcp5)
pdb|3SUM|B Chain B, Crystal Structure Of Cerato-Platanin 5 From M. Perniciosa
(Mpcp5)
pdb|3SUM|C Chain C, Crystal Structure Of Cerato-Platanin 5 From M. Perniciosa
(Mpcp5)
pdb|3SUM|D Chain D, Crystal Structure Of Cerato-Platanin 5 From M. Perniciosa
(Mpcp5)
Length = 136
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 8/16 (50%), Positives = 11/16 (68%)
Query: 85 LNFPHLIGSKSSNTEC 100
LNFPH + + + TEC
Sbjct: 45 LNFPHFVAAPEAQTEC 60
>pdb|4G3C|A Chain A, Crystal Structure Of Apo Murine Nf-kappab Inducing Kinase
(nik)
pdb|4G3C|B Chain B, Crystal Structure Of Apo Murine Nf-kappab Inducing Kinase
(nik)
pdb|4G3E|A Chain A, Crystal Structure Of Murine Nf-kappab Inducing Kinase
(nik) Bound To A 6-alkynylindoline (cmp1)
pdb|4G3E|B Chain B, Crystal Structure Of Murine Nf-kappab Inducing Kinase
(nik) Bound To A 6-alkynylindoline (cmp1)
Length = 352
Score = 25.4 bits (54), Expect = 8.8, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 16 VACFNMQLRRLQKSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAY 71
VAC + R+ + VR+ PW E+ +G +G PED AL Y
Sbjct: 118 VACAGLSSPRIVPLYGAVREGPWVNIFMELLEGGSLGQLIKQMGCL--PEDRALYY 171
>pdb|4G3G|A Chain A, Crystal Structure Of Murine Nf-kappab Inducing Kinase
(nik) V408l Bound To A 2-(aminothiazolyl)phenol (cmp3)
Length = 350
Score = 25.4 bits (54), Expect = 9.4, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 16 VACFNMQLRRLQKSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAY 71
VAC + R+ + VR+ PW E+ +G +G PED AL Y
Sbjct: 116 VACAGLSSPRIVPLYGAVREGPWVNIFMELLEGGSLGQLIKQMGCL--PEDRALYY 169
>pdb|4G3F|A Chain A, Crystal Structure Of Murine Nf-kappab Inducing Kinase
(nik) Bound To A 2-(aminothiazoly)phenol (cmp2)
Length = 336
Score = 25.0 bits (53), Expect = 9.9, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 16 VACFNMQLRRLQKSFRGVRKRPWGKFAAEIRDGKKKTGARVWLGTYDTPEDAALAY 71
VAC + R+ + VR+ PW E+ +G +G PED AL Y
Sbjct: 102 VACAGLSSPRIVPLYGAVREGPWVNIFMELLEGGSLGQLIKQMGCL--PEDRALYY 155
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
0.315 0.129 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,219,014
Number of Sequences: 62578
Number of extensions: 113878
Number of successful extensions: 178
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 173
Number of HSP's gapped (non-prelim): 9
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)