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= 027611
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VCS|A Chain A, Solution Structure Of Rsgi Ruh-009, An N-Terminal Domain
Of Vti1a [mus Musculus]
Length = 102
Score = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 51/89 (57%), Gaps = 2/89 (2%)
Query: 8 YERQYCELSAGLSRKCTAASALDGELKKQKLSEIKTGLDDADALIRKMDLEARSLQPNVK 67
YE+ + L+A ++ K L + KKQ ++ ++ L++A L+ +MDLE R + P +
Sbjct: 10 YEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEARELLEQMDLEVREIPPQSR 69
Query: 68 AMLLSKLREYKTDLNNLKNEVK--RVTSG 94
M +++R YK ++ L+ + K R+ SG
Sbjct: 70 GMYSNRMRSYKQEMGKLETDFKRSRIASG 98
>pdb|2NPS|C Chain C, Crystal Structure Of The Early Endosomal Snare Complex
Length = 81
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%)
Query: 120 RGRLLMSTERLNHSTDRIKESRRTMLETEELGVSILQDLHQQRQSLLHAHNTLHGVDDNI 179
R LL +TERL S+ R++ + +ETE++G +L++L R+ + A L D N+
Sbjct: 4 RAHLLDNTERLERSSRRLEAGYQIAVETEQIGQEMLENLSHDRERIQRARERLRETDANL 63
Query: 180 SKSKKILTAMSRRMSRDK 197
KS +ILT M RR+ +++
Sbjct: 64 GKSSRILTGMLRRIIQNR 81
>pdb|1GL2|C Chain C, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 40/62 (64%)
Query: 130 LNHSTDRIKESRRTMLETEELGVSILQDLHQQRQSLLHAHNTLHGVDDNISKSKKILTAM 189
+N +T I+ S R ET+++G I+++L +QR L + L ++N+SKS+KIL +M
Sbjct: 4 MNRATQSIERSHRIATETDQIGTEIIEELGEQRDQLERTKSRLVNTNENLSKSRKILRSM 63
Query: 190 SR 191
SR
Sbjct: 64 SR 65
>pdb|2V71|A Chain A, Coiled-Coil Region Of Nudel
pdb|2V71|B Chain B, Coiled-Coil Region Of Nudel
Length = 189
Score = 30.4 bits (67), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 13/100 (13%)
Query: 98 QAARDELLE--------SGMADAMMVSADQRGRLLMS-TERLNHSTDRIKESRRTMLETE 148
Q ARDEL+E +A +V A+QR R L + +RL + + +KE
Sbjct: 27 QEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQS 86
Query: 149 ELGVSILQ-DLHQQR--QSLLHAH-NTLHGVDDNISKSKK 184
VS+L+ DL Q R + LH + L +D++ ++K+
Sbjct: 87 YKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKR 126
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 140 SRRTMLETEELGVSILQDLHQQRQSLLHAHNTLHG------VDDNISKSKKILTAMSRRM 193
S R E L V L++ + + LH + +HG + D+I KS K + +S
Sbjct: 13 SERDAYWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENF 72
Query: 194 SRDKW 198
+ +W
Sbjct: 73 VKSEW 77
>pdb|1AXD|A Chain A, Structure Of Glutathione S-transferase-i Bound With The
Ligand Lactoylglutathione
pdb|1AXD|B Chain B, Structure Of Glutathione S-transferase-i Bound With The
Ligand Lactoylglutathione
Length = 209
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 175 VDDNISKSKKILTAMSRRMSRDKWIMGSIISV 206
VD+N+ K KK+L R+++ K++ G +S+
Sbjct: 131 VDENLEKLKKVLEVYEARLTKCKYLAGDFLSL 162
>pdb|1BYE|A Chain A, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|B Chain B, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|C Chain C, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
pdb|1BYE|D Chain D, Glutathione S-Transferase I From Mais In Complex With
Atrazine Glutathione Conjugate
Length = 213
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 175 VDDNISKSKKILTAMSRRMSRDKWIMGSIISV 206
VD+N+ K KK+L R+++ K++ G +S+
Sbjct: 131 VDENLEKLKKVLEVYEARLTKCKYLAGDFLSL 162
>pdb|2PKP|A Chain A, Crystal Structure Of 3-Isopropylmalate Dehydratase (Leud)
From Methhanocaldococcus Jannaschii Dsm2661 (Mj1271)
Length = 170
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 19/33 (57%)
Query: 13 CELSAGLSRKCTAASALDGELKKQKLSEIKTGL 45
CE GL R+ AA L LKK+KL + K G+
Sbjct: 136 CETPKGLEREILAAGGLVNYLKKRKLIQSKKGV 168
>pdb|3LW6|A Chain A, Crystal Structure Of Drosophila
Beta1,4-Galactosyltransferas
Length = 287
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%)
Query: 30 DGELKKQKLSEIKTGLDDADALIRKMDLEARSLQPNVKAMLLSKLREYKTDLNNLKNEVK 89
D L+ + IKTG +D + I R Q +++ R++KT L+N+K ++
Sbjct: 196 DAGLQVTRPQNIKTGTNDTFSHIHNRYHRKRDTQKCFNQKEMTRKRDHKTGLDNVKYKIL 255
Query: 90 RVTSGNVNQAA 100
+V ++Q
Sbjct: 256 KVHEMLIDQVP 266
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 28.1 bits (61), Expect = 4.2, Method: Composition-based stats.
Identities = 16/68 (23%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 161 QRQSLLHAHNTLHGVDDNISKSKKILTAMSRRMSRDKWIM-------GSIISVLVFAILL 213
+ + + N + + D I S+KI+ +SR RD W + G +S L A+++
Sbjct: 708 EERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLRDGWCLEAFSYAQGRCLSDLNSALIM 767
Query: 214 ILYFKLTR 221
++ L++
Sbjct: 768 VVVGSLSQ 775
>pdb|3E0D|A Chain A, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase
Iii Alpha-Subunit
pdb|3E0D|B Chain B, Insights Into The Replisome From The Crystral Structure Of
The Ternary Complex Of The Eubacterial Dna Polymerase
Iii Alpha-Subunit
Length = 1220
Score = 27.7 bits (60), Expect = 4.7, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 75 REYKTDLNNLKNEVKRVTSGNVNQAARDELLESGMADAMMVSADQRGRLLMSTERLNHST 134
RE +L + +KR+ VN+ A + L+++G DA R RLL S E L
Sbjct: 909 RERGGPFKSLGDFLKRLPEQVVNKRALESLVKAGALDAF----GDRARLLASLEPLLRWA 964
Query: 135 DRIKESRRTML 145
+E R+ L
Sbjct: 965 AETRERGRSGL 975
>pdb|2HPI|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-Ray Structure Of Dna Polymerase Iii
pdb|2HPM|A Chain A, Eubacterial And Eukaryotic Replicative Dna Polymerases Are
Not Homologous: X-ray Structure Of Dna Polymerase Iii
Length = 1220
Score = 27.7 bits (60), Expect = 4.7, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 75 REYKTDLNNLKNEVKRVTSGNVNQAARDELLESGMADAMMVSADQRGRLLMSTERLNHST 134
RE +L + +KR+ VN+ A + L+++G DA R RLL S E L
Sbjct: 909 RERGGPFKSLGDFLKRLPEQVVNKRALESLVKAGALDAF----GDRARLLASLEPLLRWA 964
Query: 135 DRIKESRRTML 145
+E R+ L
Sbjct: 965 AETRERGRSGL 975
>pdb|2V8S|V Chain V, Vti1b Habc Domain - Epsinr Enth Domain Complex
Length = 96
Score = 26.9 bits (58), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%)
Query: 32 ELKKQKLSEIKTGLDDADALIRKMDLEARSLQPNVKAMLLSKLREYKTDLNNLKNEVK 89
E KK+ + + +A+ + +M+ E R + ++SKLR Y+ DL L EV+
Sbjct: 39 EEKKKLVRDFDEKQQEANETLAEMEEELRYAPLTFRNPMMSKLRNYRKDLAKLHREVR 96
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 0.130 0.346
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,128,802
Number of Sequences: 62578
Number of extensions: 168658
Number of successful extensions: 558
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 546
Number of HSP's gapped (non-prelim): 29
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
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: 49 (23.5 bits)