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= 032596
(137 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1DFQ|A Chain A, The Hc Fragment Of Tetanus Toxin Complexed With Sialic
Acid
Length = 444
Score = 28.9 bits (63), Expect = 1.0, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 214 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 264
>pdb|1D0H|A Chain A, The Hc Fragment Of Tetanus Toxin Complexed With N-Acetyl-
Galactosamine
Length = 469
Score = 28.9 bits (63), Expect = 1.0, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 239 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 289
>pdb|1DIW|A Chain A, The Hc Fragment Of Tetanus Toxin Complexed With Galactose
Length = 441
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 211 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 261
>pdb|1DLL|A Chain A, The Hc Fragement Of Tetanus Toxin Complexed With Lactose
pdb|1YXW|A Chain A, A Common Binding Site For Disialyllactose And A
Tri-Peptide In The C-Fragment Of Tetanus Neurotoxin
pdb|1YYN|A Chain A, A Common Binding Site For Disialyllactose And A
Tri-Peptide In The C-Fragment Of Tetanus Neurotoxin
Length = 441
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 211 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 261
>pdb|1FV2|A Chain A, The Hc Fragment Of Tetanus Toxin Complexed With An
Analogue Of Its Ganglioside Receptor Gt1b
pdb|1FV3|A Chain A, The Hc Fragment Of Tetanus Toxin Complexed With An
Analogue Of Its Ganglioside Receptor Gt1b
pdb|1FV3|B Chain B, The Hc Fragment Of Tetanus Toxin Complexed With An
Analogue Of Its Ganglioside Receptor Gt1b
Length = 472
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 242 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 292
>pdb|3HMY|A Chain A, Crystal Structure Of Hcr/t Complexed With Gt2
pdb|3HN1|A Chain A, Crystal Structure Of HcrT COMPLEXED WITH GT2 AND LACTOSE
Length = 450
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 220 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 270
>pdb|1A8D|A Chain A, Tetanus Toxin C Fragment
pdb|1AF9|A Chain A, Tetanus Neurotoxin C Fragment
Length = 452
Score = 28.5 bits (62), Expect = 1.2, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQK----YLSMASVRAFWNSPVGPKTTHFWGPVAN 54
SID + + L + +K YLS+ +R FW +P+ T ++ PVA+
Sbjct: 222 SIDKFRIFCKALNPKEIEKLYTSYLSITFLRDFWGNPLRYDTEYYLIPVAS 272
>pdb|2O8B|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G T MISPAIR
pdb|2O8C|B Chain B, Human Mutsalpha (msh2/msh6) Bound To Adp And An
O6-methyl-guanine T Mispair
pdb|2O8D|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO ADP AND A G DU MISPAIR
pdb|2O8E|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO A G T MISPAIR, WITH
ADP BOUND TO Msh2 Only
pdb|2O8F|B Chain B, Human Mutsalpha (Msh2MSH6) BOUND TO DNA WITH A SINGLE BASE
T INSERT
Length = 1022
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 88 MRFAWMVQPRNYLLLACHASNETVQLYHL 116
MR W ++ +N+ L+ C+ + +LYH+
Sbjct: 72 MRKWWQIKSQNFDLVICYKVGKFYELYHM 100
>pdb|1SEQ|H Chain H, Fab Mnac13
Length = 225
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 93 MVQPRNYLLLACHASNETVQLYHLSRWAR 121
+VQP L L+C AS T Y +S WAR
Sbjct: 11 LVQPGGSLKLSCAASGFTFSTYTMS-WAR 38
>pdb|1PCX|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Bet1
pdb|1PD0|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide From The Snare Protein Sed5
(Yeast Syntaxin-5)
pdb|1PD1|A Chain A, Crystal Structure Of The Copii Coat Subunit, Sec24,
Complexed With A Peptide Containing The Dxe Cargo
Sorting Signal Of Yeast Sys1 Protein
Length = 810
Score = 26.6 bits (57), Expect = 4.1, Method: Composition-based stats.
Identities = 29/127 (22%), Positives = 52/127 (40%), Gaps = 10/127 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQKYLSMASVRAFWNSPVGPKTTHFWGPVANWGFVVAGLVDLKK 67
+IDC +++ V S+ Y+ +AS+ G THF+ GF D+ K
Sbjct: 371 TIDCSKVQITVDLFLASEDYMDVASLSNLSRFTAG--QTHFYP-----GFSGKNPNDIVK 423
Query: 68 PPEMISGNMTTAMCIYSGLFMRFAWMVQPRNYLLLACHASNETVQLYHLSRWARSQGYLS 127
+ +++ C+ + + R + ++ + H N + L S R Q YL
Sbjct: 424 FSTEFAKHISMDFCMETVMRARGSTGLRMSRFY---GHFFNRSSDLCAFSTMPRDQSYLF 480
Query: 128 EKKKDEA 134
E DE+
Sbjct: 481 EVNVDES 487
>pdb|1M2V|B Chain B, Crystal Structure Of The Yeast Sec2324 HETERODIMER
Length = 926
Score = 26.6 bits (57), Expect = 4.8, Method: Composition-based stats.
Identities = 29/127 (22%), Positives = 52/127 (40%), Gaps = 10/127 (7%)
Query: 8 SIDCLNLKLQVLQSYQSQKYLSMASVRAFWNSPVGPKTTHFWGPVANWGFVVAGLVDLKK 67
+IDC +++ V S+ Y+ +AS+ G THF+ GF D+ K
Sbjct: 487 TIDCSKVQITVDLFLASEDYMDVASLSNLSRFTAG--QTHFYP-----GFSGKNPNDIVK 539
Query: 68 PPEMISGNMTTAMCIYSGLFMRFAWMVQPRNYLLLACHASNETVQLYHLSRWARSQGYLS 127
+ +++ C+ + + R + ++ + H N + L S R Q YL
Sbjct: 540 FSTEFAKHISMDFCMETVMRARGSTGLRMSRFY---GHFFNRSSDLCAFSTMPRDQSYLF 596
Query: 128 EKKKDEA 134
E DE+
Sbjct: 597 EVNVDES 603
>pdb|2NOF|A Chain A, Structure Of Q315f Human 8-oxoguanine Glycosylase Proximal
Crosslink To 8-oxoguanine Dna
Length = 325
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 38 NSPVGPKTTHFWGPVANWGFVVAGLVDLKK 67
N +G WGP A W F V DL++
Sbjct: 294 NKELGNFFRSLWGPYAGWAFAVLFSADLRQ 323
>pdb|2NOZ|A Chain A, Structure Of Q315f Human 8-Oxoguanine Glycosylase Distal
Crosslink To 8-Oxoguanine Dna
Length = 325
Score = 25.8 bits (55), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 38 NSPVGPKTTHFWGPVANWGFVVAGLVDLKK 67
N +G WGP A W F V DL++
Sbjct: 294 NKELGNFFRSLWGPYAGWAFAVLFSADLRQ 323
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
0.323 0.133 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,915,628
Number of Sequences: 62578
Number of extensions: 140871
Number of successful extensions: 445
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 435
Number of HSP's gapped (non-prelim): 13
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)