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= 037247
(196 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SP4|A Chain A, Crystal Structure Of Ns-134 In Complex With Bovine
Cathepsin B: A Two Headed Epoxysuccinyl Inhibitor
Extends Along The Whole Active Site Cleft
Length = 48
Score = 28.5 bits (62), Expect = 2.2, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 11/53 (20%)
Query: 98 EAFSTAAKNWAQCPPIQHKGDGESCGGQEEEKRAWNFEA----TDRVHVQGNG 146
E+F A + W CP I+ D SCG W F A +DR+ + NG
Sbjct: 3 ESFD-AREQWPNCPTIKEIRDQGSCGS------CWAFGAVEAISDRICIHSNG 48
>pdb|3TMM|A Chain A, Tfam Imposes A U-Turn On Mitochondrial Dna
Length = 238
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 74 SAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111
S+Y RF KE++ K +NP+ E A+ W + P
Sbjct: 47 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 84
>pdb|3SMV|A Chain A, X-Ray Crystal Structure Of L-Azetidine-2-Carboxylate
Hydrolase
Length = 240
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 3/52 (5%)
Query: 63 NKPPEKRQRAPSAYNRFIKEEIRRLKTE---NPNMAHKEAFSTAAKNWAQCP 111
N+ P++ + + Y ++ R+ E P+ A +E F T+ KNW P
Sbjct: 51 NESPQQTETPGALYQDILRAVYDRIAKEWGLEPDAAEREEFGTSVKNWPAFP 102
>pdb|3TQ6|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
pdb|3TQ6|B Chain B, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
Length = 214
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 74 SAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNWAQCP 111
S+Y RF KE++ K +NP+ E A+ W + P
Sbjct: 15 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 52
>pdb|1HUC|A Chain A, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1HUC|C Chain C, The Refined 2.15 Angstroms X-Ray Crystal Structure Of
Human Liver Cathepsin B: The Structural Basis For Its
Specificity
pdb|1CSB|A Chain A, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|1CSB|D Chain D, Crystal Structure Of Cathepsin B Inhibited With Ca030 At
2.1 Angstroms Resolution: A Basis For The Design Of
Specific Epoxysuccinyl Inhibitors
pdb|2IPP|A Chain A, Crystal Structure Of The Tetragonal Form Of Human Liver
Cathepsin B
Length = 47
Score = 28.1 bits (61), Expect = 3.1, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 21/47 (44%), Gaps = 10/47 (21%)
Query: 103 AAKNWAQCPPIQHKGDGESCGGQEEEKRAWNFEA----TDRVHVQGN 145
A + W QCP I+ D SCG W F A +DR+ + N
Sbjct: 7 AREQWPQCPTIKEIRDQGSCGS------CWAFGAVEAISDRICIHTN 47
>pdb|2CO9|A Chain A, Solution Structure Of The Hmg_box Domain Of Thymus High
Mobility Group Box Protein Tox From Mouse
Length = 102
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 66 PEKRQRAPSAYNRFIKEEIRRLKTENPNMAHKEAFSTAAKNW 107
P + Q+ SAY F ++ +K +NPN E A W
Sbjct: 15 PNEPQKPVSAYALFFRDTQAAIKGQNPNATFGEVSKIVASMW 56
>pdb|2R7E|B Chain B, Crystal Structure Analysis Of Coagulation Factor Viii
Length = 770
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 15 HSSKMPKEEFRKEEVQADQKAFNKFSPSILTSSDNEEEDTGSVINHVVNKP 65
+ +++PKEE++ +E ++ AF K +IL+ + E + IN NKP
Sbjct: 9 YGTQIPKEEWKSQEKSPEKTAFKK-KDTILSLNACESNHAIAAINEGQNKP 58
>pdb|1MIR|A Chain A, Rat Procathepsin B
pdb|1MIR|B Chain B, Rat Procathepsin B
Length = 322
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 41/105 (39%), Gaps = 22/105 (20%)
Query: 57 VINHVVNKPPEKRQRAPSAYNRFIKEEIRRLKT--ENPNMAHKEAFS---------TAAK 105
+IN++ NK Q + YN I + T P + + FS A +
Sbjct: 13 MINYI-NKQNTTWQAGRNFYNVDISYLKKLCGTVLGGPKLPERVGFSEDINLPESFDARE 71
Query: 106 NWAQCPPIQHKGDGESCGGQEEEKRAWNFEA----TDRVHVQGNG 146
W+ CP I D SCG +W F A +DR+ + NG
Sbjct: 72 QWSNCPTIAQIRDQGSCG------SSWAFGAVEAMSDRICIHTNG 110
>pdb|3G5C|A Chain A, Structural And Biochemical Studies On The Ectodomain Of
Human Adam22
pdb|3G5C|B Chain B, Structural And Biochemical Studies On The Ectodomain Of
Human Adam22
Length = 510
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 102 TAAKNWAQCPPIQHKGDGESCGG 124
T + N +QC P HK DG SC G
Sbjct: 283 TCSGNSSQCAPNIHKMDGYSCDG 305
>pdb|3CBJ|A Chain A, Chagasin-cathepsin B Complex
pdb|3CBK|A Chain A, Chagasin-Cathepsin B
Length = 266
Score = 26.9 bits (58), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 10/47 (21%)
Query: 103 AAKNWAQCPPIQHKGDGESCGGQEEEKRAWNFEA----TDRVHVQGN 145
A + W QCP I+ D SCG AW F A +DR+ + N
Sbjct: 13 AREQWPQCPTIKEIRDQGSCG------SAWAFGAVEAISDRICIHTN 53
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
0.314 0.128 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,995,620
Number of Sequences: 62578
Number of extensions: 245862
Number of successful extensions: 352
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 338
Number of HSP's gapped (non-prelim): 34
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)