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= 032956
(130 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JOZ|A Chain A, Solution Nmr Structure Of Protein Yxef, Northeast
Structural Genomics Consortium Target Sr500a
Length = 135
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 15/90 (16%)
Query: 38 SACYQNQDHGTMVTGVSDALWDGGRACGRRYKVQCVRGANTAPHPCHDGASVEVEVVDYC 97
S C Q ++ G WD GRA G G +A + VE EV++
Sbjct: 5 SGCQQQKEETPFYYGT----WDEGRAPG------PTDGVKSATVTFTEDEVVETEVME-- 52
Query: 98 RQPCNGVLNLSKDAFAVIADTVAGKVQVEY 127
G + L A+ VI+ + G ++++Y
Sbjct: 53 ---GRGEVQLPFMAYKVISQSTDGSIEIQY 79
>pdb|3D30|A Chain A, Structure Of An Expansin Like Protein From Bacillus
Subtilis At 1.9a Resolution
pdb|4FER|A Chain A, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Cellohexaose
pdb|4FER|B Chain B, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Cellohexaose
pdb|4FFT|A Chain A, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Mixed-Linkage Glucan
pdb|4FFT|B Chain B, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Mixed-Linkage Glucan
pdb|4FG2|A Chain A, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Cellotetraose
pdb|4FG2|B Chain B, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Cellotetraose
pdb|4FG4|A Chain A, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Hemithiocellodextrin
pdb|4FG4|B Chain B, Crystal Structure Of Bacillus Subtilis Expansin (Exlx1) In
Complex With Hemithiocellodextrin
Length = 208
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 91 VEVVDYCRQPCNGVLNLSKDAFAVIADTVAGKVQVEY 127
V V D + G L+LS +AF I + GK+ +++
Sbjct: 67 VYVTDLYPEGARGALDLSPNAFRKIGNMKDGKINIKW 103
>pdb|2BH0|A Chain A, Crystal Structure Of A Semet Derivative Of Expa From
Bacillus Subtilis At 2.5 Angstrom
Length = 208
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 91 VEVVDYCRQPCNGVLNLSKDAFAVIADTVAGKVQVEY 127
V V D + G L+LS +AF I + GK+ +++
Sbjct: 67 VYVTDLYPEGARGALDLSPNAFRKIGNXKDGKINIKW 103
>pdb|3MPE|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPE|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 220
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 151 SGVYYEP-----SCTQNVNHGVLVVGYGD 174
>pdb|3KWN|A Chain A, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3KWN|B Chain B, Cathepsin S In Complex With Thioether Acetamide P3
Inhibitor
pdb|3MPF|A Chain A, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
pdb|3MPF|B Chain B, Crystal Structure Of Human Cathepsin-S C25s Mutant With
Bound Drug
Length = 219
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|3IEJ|A Chain A, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
pdb|3IEJ|B Chain B, Pyrazole-Based Cathepsin S Inhibitors With Arylalkynes As
P1 Binding Elements
Length = 222
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 152 SGVYYEP-----SCTQNVNHGVLVVGYGD 175
>pdb|2FYE|A Chain A, Mutant Human Cathepsin S With Irreversible Inhibitor Cra-
14013
Length = 217
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|2G6D|A Chain A, Human Cathepsin S Mutant With Vinyl Sulfone Inhibitor Cra-
14009
Length = 217
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|1GLO|A Chain A, Crystal Structure Of Cys25ser Mutant Of Human Cathepsin S
Length = 217
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|2FQ9|A Chain A, Cathepsin S With Nitrile Inhibitor
pdb|2FQ9|B Chain B, Cathepsin S With Nitrile Inhibitor
pdb|2FRA|A Chain A, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRA|B Chain B, Human Cathepsin S With Cra-27934, A Nitrile Inhibitor
pdb|2FRQ|A Chain A, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FRQ|B Chain B, Human Cathepsin S With Inhibitor Cra-26871
pdb|2FT2|A Chain A, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FT2|B Chain B, Human Cathepsin S With Inhibitor Cra-29728
pdb|2FUD|A Chain A, Human Cathepsin S With Inhibitor Cra-27566
pdb|2FUD|B Chain B, Human Cathepsin S With Inhibitor Cra-27566
pdb|2G7Y|A Chain A, Human Cathepsin S With Inhibitor Cra-16981
pdb|2G7Y|B Chain B, Human Cathepsin S With Inhibitor Cra-16981
Length = 225
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 151 SGVYYEP-----SCTQNVNHGVLVVGYGD 174
>pdb|3OVX|A Chain A, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
pdb|3OVX|B Chain B, Cathepsin S In Complex With A Covalent Inhibitor With An
Aldehyde Warhead
Length = 218
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 151 SGVYYEP-----SCTQNVNHGVLVVGYGD 174
>pdb|3N3G|A Chain A, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N3G|B Chain B, 4-(3-Trifluoromethylphenyl)-Pyrimidine-2-Carbonitrile As
Cathepsin S Inhibitors: N3, Not N1 Is Critically
Important
pdb|3N4C|A Chain A, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
pdb|3N4C|B Chain B, 6-Phenyl-1h-Imidazo[4,5-C]pyridine-4-Carbonitrile As
Cathepsin S Inhibitors
Length = 217
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|2C0Y|A Chain A, The Crystal Structure Of A Cys25ala Mutant Of Human
Procathepsin S
Length = 315
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 248 SGVYYEP-----SCTQNVNHGVLVVGYGD 271
>pdb|2F1G|A Chain A, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2F1G|B Chain B, Cathepsin S In Complex With Non-Covalent
2-(Benzoxazol-2-Ylamino)- Acetamide
pdb|2HH5|B Chain B, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2HH5|A Chain A, Crystal Structure Of Cathepsin S In Complex With A Zinc
Mediated Non-Covalent Arylaminoethyl Amide
pdb|2H7J|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2H7J|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor.
pdb|2HXZ|A Chain A, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|B Chain B, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HXZ|C Chain C, Crystal Structure Of Cathepsin S In Complex With A
Nonpeptidic Inhibitor (hexagonal Spacegroup)
pdb|2HHN|A Chain A, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2HHN|B Chain B, Cathepsin S In Complex With Non Covalent Arylaminoethyl
Amide.
pdb|2OP3|A Chain A, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
pdb|2OP3|B Chain B, The Structure Of Cathepsin S With A Novel 2-
Arylphenoxyacetaldehyde Inhibitor Derived By The
Substrate Activity Screening (Sas) Method
Length = 220
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 153 SGVYYEP-----SCTQNVNHGVLVVGYGD 176
>pdb|1NPZ|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NPZ|B Chain B, Crystal Structures Of Cathepsin S Inhibitor Complexes
pdb|1NQC|A Chain A, Crystal Structures Of Cathepsin S Inhibitor Complexes
Length = 217
Score = 26.6 bits (57), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|1MS6|A Chain A, Dipeptide Nitrile Inhibitor Bound To Cathepsin S.
pdb|2R9M|A Chain A, Cathepsin S Complexed With Compound 15
pdb|2R9M|B Chain B, Cathepsin S Complexed With Compound 15
pdb|2R9N|A Chain A, Cathepsin S Complexed With Compound 26
pdb|2R9N|B Chain B, Cathepsin S Complexed With Compound 26
pdb|2R9O|A Chain A, Cathepsin S Complexed With Compound 8
pdb|2R9O|B Chain B, Cathepsin S Complexed With Compound 8
Length = 222
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 27 NAVYYDPPYTKSACYQNQDHGTMVTGVSD 55
+ VYY+P +C QN +HG +V G D
Sbjct: 150 SGVYYEP-----SCTQNVNHGVLVVGYGD 173
>pdb|1ZPU|A Chain A, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
pdb|1ZPU|B Chain B, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
pdb|1ZPU|C Chain C, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
pdb|1ZPU|D Chain D, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
pdb|1ZPU|E Chain E, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
pdb|1ZPU|F Chain F, Crystal Structure Of Fet3p, A Multicopper Oxidase That
Functions In Iron Import
Length = 534
Score = 25.8 bits (55), Expect = 6.4, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 30 YYDPPYTKSACYQNQDHGTMVTGVSDALWDG 60
+Y PY K A Y DH V V D L +G
Sbjct: 300 FYLQPYEKEAIYGEPDHVITVDVVMDNLKNG 330
>pdb|1N10|A Chain A, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
pdb|1N10|B Chain B, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
Length = 241
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 7/61 (11%)
Query: 57 LWDGGRACGRRYKVQCVRGANTAPHPCHDGASVEVEVVDYCRQPCNGV-LNLSKDAFAVI 115
++ GR CG ++++C T P C G V V + D +P +LS AF +
Sbjct: 63 IFKSGRGCGSCFEIKC-----TKPEACS-GEPVVVHITDDNEEPIAPYHFDLSGHAFGAM 116
Query: 116 A 116
A
Sbjct: 117 A 117
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
0.322 0.135 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,907,013
Number of Sequences: 62578
Number of extensions: 141474
Number of successful extensions: 208
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 191
Number of HSP's gapped (non-prelim): 20
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)