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= psy6854
(148 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NA5|A Chain A, Integrin Alpha M I Domain
Length = 197
Score = 30.4 bits (67), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 76 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 127
>pdb|1IDO|A Chain A, I-Domain From Integrin Cr3, Mg2+ Bound
Length = 189
Score = 30.0 bits (66), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 77 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 128
>pdb|1JLM|A Chain A, I-Domain From Integrin Cr3, Mn2+ Bound
Length = 192
Score = 30.0 bits (66), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 77 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 128
>pdb|1MF7|A Chain A, Integrin Alpha M I Domain
Length = 194
Score = 30.0 bits (66), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 76 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 127
>pdb|1M1U|A Chain A, An Isoleucine-Based Allosteric Switch Controls Affinity
And Shape Shifting In Integrin Cd11b A-Domain
Length = 195
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 83 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 134
>pdb|3QA3|G Chain G, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|E Chain E, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|I Chain I, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|L Chain L, Crystal Structure Of A-Domain In Complex With Antibody
Length = 190
Score = 30.0 bits (66), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 72 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 123
>pdb|1N9Z|A Chain A, Integrin Alpha M I Domain Mutant
Length = 192
Score = 30.0 bits (66), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 76 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 127
>pdb|3Q3G|G Chain G, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|E Chain E, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|I Chain I, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|L Chain L, Crystal Structure Of A-Domain In Complex With Antibody
Length = 190
Score = 30.0 bits (66), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 72 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 123
>pdb|1IDN|1 Chain 1, Mac-1 I Domain Metal Free
pdb|1IDN|2 Chain 2, Mac-1 I Domain Metal Free
pdb|1BHO|1 Chain 1, Mac-1 I Domain Magnesium Complex
pdb|1BHO|2 Chain 2, Mac-1 I Domain Magnesium Complex
Length = 190
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 72 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 123
>pdb|1BHQ|1 Chain 1, Mac-1 I Domain Cadmium Complex
pdb|1BHQ|2 Chain 2, Mac-1 I Domain Cadmium Complex
Length = 189
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 12 SQFLYETSTSTSIQQLLEEILNIYNG-RLKVYRVMAEMEELAKHGTFLPPDMLGLTD 67
+Q L T T+T I++++ E+ NI NG R ++++ + + K G D LG D
Sbjct: 71 TQLLGRTHTATGIRKVVRELFNITNGARKNAFKILVVITDGEKFG-----DPLGYED 122
>pdb|1S4B|P Chain P, Crystal Structure Of Human Thimet Oligopeptidase
Length = 674
Score = 29.3 bits (64), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 82 RCKPSGYIENKDPIGRRNGYQPPIKMQDLIKTTIEEVKNKISKTLVERNQCLTE 135
R + + Y+E +GRRNG P + Q+ IK +K K+S ++ N+ L E
Sbjct: 120 RPEAARYLERLIKLGRRNGLHLPRETQENIK----RIKKKLSLLCIDFNKNLNE 169
>pdb|2O36|A Chain A, Crystal Structure Of Engineered Thimet Oligopeptidase With
Neurolysin Specificity In Neurotensin Cleavage Site
Length = 674
Score = 29.3 bits (64), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 82 RCKPSGYIENKDPIGRRNGYQPPIKMQDLIKTTIEEVKNKISKTLVERNQCLTE 135
R + + Y+E +GRRNG P + Q+ IK +K K+S ++ N+ L E
Sbjct: 120 RPEAARYLERLIKLGRRNGLHLPRETQENIK----RIKKKLSLLCIDFNKNLNE 169
>pdb|1YK5|A Chain A, Pyrococcus Abyssi Rubredoxin
pdb|1YK5|B Chain B, Pyrococcus Abyssi Rubredoxin
pdb|1YK5|C Chain C, Pyrococcus Abyssi Rubredoxin
pdb|1YK5|D Chain D, Pyrococcus Abyssi Rubredoxin
Length = 53
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%)
Query: 82 RCKPSGYIENKDPIGRRNGYQPPIKMQDL 110
RCK GYI ++D NG P K +DL
Sbjct: 5 RCKICGYIYDEDEGDPDNGISPGTKFEDL 33
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
0.315 0.136 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,432,664
Number of Sequences: 62578
Number of extensions: 173993
Number of successful extensions: 380
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 364
Number of HSP's gapped (non-prelim): 20
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)