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= psy5970
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CK7|A Chain A, Gelatinase A (Full-Length)
pdb|1GXD|A Chain A, Prommp-2TIMP-2 Complex
pdb|1GXD|B Chain B, Prommp-2TIMP-2 Complex
Length = 631
Score = 42.7 bits (99), Expect = 9e-05, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 6/63 (9%)
Query: 36 RFGNIPVTGIVDDATLALMKKPRCGLPDTPPLDRRRTKRFTLDGRKWDHTDLTWRVLSRV 95
+F +P TG +D T+ M+KPRCG PD + F KWD +T+R++
Sbjct: 50 KFFGLPQTGDLDQNTIETMRKPRCGNPDVANYN------FFPRKPKWDKNQITYRIIGYT 103
Query: 96 DSL 98
L
Sbjct: 104 PDL 106
>pdb|1SLM|A Chain A, Crystal Structure Of Fibroblast Stromelysin-1: The
C-Truncated Human Proenzyme
Length = 255
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 22/114 (19%)
Query: 4 ILQSYLANFGYLEASSNSEIANLRTKEQVTEAR----FGNIPVTGIVDDATLALMKKPRC 59
++Q YL N+ L+ + + V + R F + VTG +D TL +M+KPRC
Sbjct: 16 LVQKYLENYYDLKKDVKQFVRRKDSGPVVKKIREMQKFLGLEVTGKLDSDTLEVMRKPRC 75
Query: 60 GLPDTPPLDRRRTKRF-TLDG-RKWDHTDLTWRVLS--------RVDSLIMKLL 103
G+PD F T G KW T LT+R+++ VDS + K L
Sbjct: 76 GVPD--------VGHFRTFPGIPKWRKTHLTYRIVNYTPDLPKDAVDSAVEKAL 121
>pdb|1SU3|A Chain A, X-Ray Structure Of Human Prommp-1: New Insights Into
Collagenase Action
pdb|1SU3|B Chain B, X-Ray Structure Of Human Prommp-1: New Insights Into
Collagenase Action
Length = 450
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 42/93 (45%), Gaps = 12/93 (12%)
Query: 4 ILQSYLANFGYLEASSNSEIANLRTKEQVTEA-----RFGNIPVTGIVDDATLALMKKPR 58
++Q YL + Y + ++ R V E F + VTG D TL +MK+PR
Sbjct: 14 LVQKYLEKY-YNLKNDGRQVEKRRNSGPVVEKLKQMQEFFGLKVTGKPDAETLKVMKQPR 72
Query: 59 CGLPDTPPLDRRRTKRFTLDGRKWDHTDLTWRV 91
CG+PD T +W+ T LT+R+
Sbjct: 73 CGVPDVAQF------VLTEGNPRWEQTHLTYRI 99
>pdb|1L6J|A Chain A, Crystal Structure Of Human Matrix Metalloproteinase Mmp9
(gelatinase B)
Length = 425
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 47/97 (48%), Gaps = 6/97 (6%)
Query: 2 KTILQSYLANFGYLEASSNSEIANLRTKEQVTEARFGNIPVTGIVDDATLALMKKPRCGL 61
+ + + YL +GY + + + + ++P TG +D ATL M+ PRCG+
Sbjct: 23 RQLAEEYLYRYGYTRVAEMRGESKSLGPALLLLQKQLSLPETGELDSATLKAMRTPRCGV 82
Query: 62 PDTPPLDRRRTKRFTLDGRKWDHTDLTWRVLSRVDSL 98
PD L R +T L KW H ++T+ + + + L
Sbjct: 83 PD---LGRFQTFEGDL---KWHHHNITYWIQNYSEDL 113
>pdb|1EAK|A Chain A, Catalytic Domain Of Prommp-2 E404q Mutant
pdb|1EAK|B Chain B, Catalytic Domain Of Prommp-2 E404q Mutant
pdb|1EAK|C Chain C, Catalytic Domain Of Prommp-2 E404q Mutant
pdb|1EAK|D Chain D, Catalytic Domain Of Prommp-2 E404q Mutant
Length = 421
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 36 RFGNIPVTGIVDDATLALMKKPRCGLPDTPPLDRRRTKRFTLDGRKWDHTDLTWRVLSRV 95
+F +P TG +D T+ M+KPRCG PD F KWD +T+R++
Sbjct: 48 KFFGLPQTGDLDQNTIETMRKPRCGNPDV------ANYNFFPRKPKWDKNQITYRIIGYT 101
Query: 96 DSL 98
L
Sbjct: 102 PDL 104
>pdb|2PWJ|A Chain A, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
pdb|2PWJ|B Chain B, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
pdb|2PWJ|C Chain C, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
pdb|2PWJ|D Chain D, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
pdb|2PWJ|E Chain E, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
pdb|2PWJ|F Chain F, Structure Of A Mitochondrial Type Ii Peroxiredoxin From
Pisum Sativum
Length = 171
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 6/70 (8%)
Query: 15 LEASSNSEIANLRTKEQVTEARFGNIPVTGIVDDATLALMKKPR-----CGLPDTPPLDR 69
L A+SN + RT ++ E++F PV I D + + P C PP +
Sbjct: 10 LSAASNVSLQKARTWDEGVESKFSTTPVNDIFKDKKVVIFGLPGAYTGVCSSKHVPPY-K 68
Query: 70 RRTKRFTLDG 79
+F G
Sbjct: 69 HNIDKFKAKG 78
>pdb|1HV5|A Chain A, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
pdb|1HV5|B Chain B, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
pdb|1HV5|C Chain C, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
pdb|1HV5|D Chain D, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
pdb|1HV5|E Chain E, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
pdb|1HV5|F Chain F, Crystal Structure Of The Stromelysin-3 (Mmp-11)
Catalytic Domain Complexed With A Phosphinic Inhibitor
Length = 165
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 75 FTLDGRKWDHTDLTWRVL 92
F L G +W+ TDLT+R+L
Sbjct: 2 FVLSGGRWEKTDLTYRIL 19
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
0.321 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,870,370
Number of Sequences: 62578
Number of extensions: 116950
Number of successful extensions: 156
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 147
Number of HSP's gapped (non-prelim): 7
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)