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= psy5723
         (162 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1SFC|A Chain A, Neuronal Synaptic Fusion Complex
 pdb|1SFC|E Chain E, Neuronal Synaptic Fusion Complex
 pdb|1SFC|I Chain I, Neuronal Synaptic Fusion Complex
          Length = 96

 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 44/48 (91%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QVDEVV IMRVNV+KVLERDQKLSELD+RA+ALQ GASQFE
Sbjct: 31  RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE 78



 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 40/45 (88%)

Query: 26 IAAQKRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          + + +RLQQTQAQVDEVVDIM+ NV+KVLERDQKLSELDDRA  L
Sbjct: 26 LTSNRRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADAL 70


>pdb|2KOG|A Chain A, Lipid-Bound Synaptobrevin Solution Nmr Structure
          Length = 119

 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 44/48 (91%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QVDEVV IMRVNV+KVLERDQKLSELD+RA+ALQ GASQFE
Sbjct: 34  RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE 81



 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 35/45 (77%), Positives = 40/45 (88%)

Query: 26 IAAQKRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          + + +RLQQTQAQVDEVVDIM+ NV+KVLERDQKLSELDDRA  L
Sbjct: 29 LTSNRRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADAL 73


>pdb|3HD7|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
           Membrane, Spacegroup C 1 2 1
 pdb|3HD7|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
           Membrane, Spacegroup C 1 2 1
 pdb|3IPD|A Chain A, Helical Extension Of The Neuronal Snare Complex Into The
           Membrane, Spacegroup I 21 21 21
 pdb|3IPD|E Chain E, Helical Extension Of The Neuronal Snare Complex Into The
           Membrane, Spacegroup I 21 21 21
          Length = 91

 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 44/48 (91%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QVDEVV IMRVNV+KVLERDQKLSELD+RA+ALQ GASQFE
Sbjct: 6   RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE 53



 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 35/41 (85%), Positives = 38/41 (92%)

Query: 30 KRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          +RLQQTQAQVDEVVDIM+ NV+KVLERDQKLSELDDRA  L
Sbjct: 5  RRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADAL 45


>pdb|1KIL|A Chain A, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
          Length = 66

 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 44/48 (91%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QVDEVV IMRVNV+KVLERDQKLSELD+RA+ALQ GASQFE
Sbjct: 5   RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE 52



 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 35/41 (85%), Positives = 38/41 (92%)

Query: 30 KRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          +RLQQTQAQVDEVVDIM+ NV+KVLERDQKLSELDDRA  L
Sbjct: 4  RRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADAL 44


>pdb|1N7S|A Chain A, High Resolution Structure Of A Truncated Neuronal Snare
           Complex
          Length = 63

 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/48 (79%), Positives = 44/48 (91%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QVDEVV IMRVNV+KVLERDQKLSELD+RA+ALQ GASQFE
Sbjct: 5   RLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE 52



 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 35/41 (85%), Positives = 38/41 (92%)

Query: 30 KRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          +RLQQTQAQVDEVVDIM+ NV+KVLERDQKLSELDDRA  L
Sbjct: 4  RRLQQTQAQVDEVVDIMRVNVDKVLERDQKLSELDDRADAL 44


>pdb|1L4A|A Chain A, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
           From The Squid Loligo Pealei
          Length = 80

 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 35/48 (72%), Positives = 43/48 (89%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +L ++Q QV+EVV IMRVNV+KVLERD K+SELD+RA+ALQ GASQFE
Sbjct: 16  RLQQTQAQVEEVVDIMRVNVDKVLERDSKISELDDRADALQAGASQFE 63



 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/41 (80%), Positives = 37/41 (90%)

Query: 30 KRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
          KRLQQTQAQV+EVVDIM+ NV+KVLERD K+SELDDRA  L
Sbjct: 15 KRLQQTQAQVEEVVDIMRVNVDKVLERDSKISELDDRADAL 55


>pdb|3RK2|A Chain A, Truncated Snare Complex
 pdb|3RK2|E Chain E, Truncated Snare Complex
 pdb|3RK3|A Chain A, Truncated Snare Complex With Complexin
 pdb|3RL0|A Chain A, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|E Chain E, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|I Chain I, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|M Chain M, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|Q Chain Q, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|U Chain U, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|Y Chain Y, Truncated Snare Complex With Complexin (P1)
 pdb|3RL0|CC Chain c, Truncated Snare Complex With Complexin (P1)
          Length = 37

 Score = 57.0 bits (136), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 27/35 (77%), Positives = 32/35 (91%)

Query: 26 IAAQKRLQQTQAQVDEVVDIMKTNVEKVLERDQKL 60
          + + +RLQQTQAQVDEVVDIM+ NV+KVLERDQKL
Sbjct: 3  LGSNRRLQQTQAQVDEVVDIMRVNVDKVLERDQKL 37



 Score = 47.4 bits (111), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/30 (76%), Positives = 27/30 (90%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKL 122
           +L ++Q QVDEVV IMRVNV+KVLERDQKL
Sbjct: 8   RLQQTQAQVDEVVDIMRVNVDKVLERDQKL 37


>pdb|3FIE|C Chain C, Crystal Structure Of Clostridium Botulinum Neurotoxin
          Serotype F Catalytic Domain With An Inhibitor (Inh1)
 pdb|3FIE|D Chain D, Crystal Structure Of Clostridium Botulinum Neurotoxin
          Serotype F Catalytic Domain With An Inhibitor (Inh1)
          Length = 38

 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/35 (71%), Positives = 30/35 (85%)

Query: 23 PQQIAAQKRLQQTQAQVDEVVDIMKTNVEKVLERD 57
          P  + + +RLQQTQAQVDEVVDIM+ NV+KVLERD
Sbjct: 2  PPNLTSNRRLQQTQAQVDEVVDIMRVNVDKVLERD 36



 Score = 43.1 bits (100), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/27 (74%), Positives = 24/27 (88%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERD 119
           +L ++Q QVDEVV IMRVNV+KVLERD
Sbjct: 10  RLQQTQAQVDEVVDIMRVNVDKVLERD 36


>pdb|3FII|B Chain B, Crystal Structure Of Clostridium Botulinum Neurotoxin
          Serotype F Catalytic Domain With An Inhibitor (Inh2)
          Length = 33

 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 24/31 (77%), Positives = 28/31 (90%)

Query: 27 AAQKRLQQTQAQVDEVVDIMKTNVEKVLERD 57
           + +RLQQTQAQVDEVVDIM+ NV+KVLERD
Sbjct: 1  TSNRRLQQTQAQVDEVVDIMRVNVDKVLERD 31



 Score = 42.7 bits (99), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 20/27 (74%), Positives = 24/27 (88%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERD 119
           +L ++Q QVDEVV IMRVNV+KVLERD
Sbjct: 5   RLQQTQAQVDEVVDIMRVNVDKVLERD 31


>pdb|2NPS|A Chain A, Crystal Structure Of The Early Endosomal Snare Complex
          Length = 74

 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 34/51 (66%)

Query: 31 RLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNLGKMDGGFAGNS 81
          +++  Q QVDEV+D+M+ N+ KV+ER ++L EL D++ +L      F+  S
Sbjct: 9  KIKHVQNQVDEVIDVMQENITKVIERGERLDELQDKSESLSDNATAFSNRS 59



 Score = 42.7 bits (99), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 32/47 (68%)

Query: 93  KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQF 139
           K+   Q QVDEV+ +M+ N+ KV+ER ++L EL +++ +L   A+ F
Sbjct: 9   KIKHVQNQVDEVIDVMQENITKVIERGERLDELQDKSESLSDNATAF 55


>pdb|3B5N|A Chain A, Structure Of The Yeast Plasma Membrane Snare Complex
 pdb|3B5N|E Chain E, Structure Of The Yeast Plasma Membrane Snare Complex
 pdb|3B5N|I Chain I, Structure Of The Yeast Plasma Membrane Snare Complex
          Length = 61

 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/47 (40%), Positives = 31/47 (65%)

Query: 31 RLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNLGKMDGGF 77
          R  + QA++D+ V IM+ N+ KV ER ++L+ ++D+A NL     GF
Sbjct: 3  RTAELQAEIDDTVGIMRDNINKVAERGERLTSIEDKADNLAVSAQGF 49



 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 34/50 (68%)

Query: 92  SKLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFEH 141
           S+ +E Q ++D+ VGIMR N+ KV ER ++L+ ++++A+ L   A  F+ 
Sbjct: 2   SRTAELQAEIDDTVGIMRDNINKVAERGERLTSIEDKADNLAVSAQGFKR 51


>pdb|2NUP|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
           Complexed With The Snare Protein Sec22b
 pdb|2NUT|C Chain C, Crystal Structure Of The Human Sec23a24A HETERODIMER,
           Complexed With The Snare Protein Sec22b
          Length = 196

 Score = 35.4 bits (80), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 29/50 (58%)

Query: 28  AQKRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNLGKMDGGF 77
           A++ L     ++ +V  IM  N+E+VL+R + LS LD +A NL  +   +
Sbjct: 132 ARRNLGSINTELQDVQRIMVANIEEVLQRGEALSALDSKANNLSSLSKKY 181



 Score = 32.0 bits (71), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 15/40 (37%), Positives = 27/40 (67%)

Query: 100 QVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQF 139
           ++ +V  IM  N+E+VL+R + LS LD++AN L   + ++
Sbjct: 142 ELQDVQRIMVANIEEVLQRGEALSALDSKANNLSSLSKKY 181


>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
           Repeat Domain Of Varp
          Length = 189

 Score = 34.3 bits (77), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 17/40 (42%), Positives = 27/40 (67%)

Query: 31  RLQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNL 70
           ++ +TQAQVDE+  IM  N++ V +R ++L  L D+  NL
Sbjct: 126 KVMETQAQVDELKGIMVRNIDLVAQRGERLELLIDKTENL 165



 Score = 32.0 bits (71), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 20/58 (34%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 85  QQKSDPKS--KLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFE 140
           +  S+ KS  K+ E+Q QVDE+ GIM  N++ V +R ++L  L ++   L   +  F+
Sbjct: 116 KHHSENKSLDKVMETQAQVDELKGIMVRNIDLVAQRGERLELLIDKTENLVDSSVTFK 173


>pdb|3KYQ|A Chain A, Lipid-Induced Conformational Switch Controls Fusion
           Activity Of Longin Domain Snare Ykt6
          Length = 199

 Score = 32.0 bits (71), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 2/57 (3%)

Query: 32  LQQTQAQVDEVVDIMKTNVEKVLERDQKLSELDDRAGNLGKMDGGFAGNSSGRQQKS 88
           + + QA++DE   I+   +E +LER +KL +L  ++  LG     F    + R+Q S
Sbjct: 140 MSKVQAELDETKIILHNTMESLLERGEKLDDLVSKSEVLGTQSKAF--YKTARKQNS 194



 Score = 31.6 bits (70), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 51/98 (52%), Gaps = 11/98 (11%)

Query: 48  TNVEKVL-ERDQKLSELDDRAG-----NLGKMDGGFAGNSSGRQQKSDPKSKLSESQKQV 101
           T +EKVL E  +++  +D   G     +   +DG  +   + R+  +DP SK+   Q ++
Sbjct: 93  TLLEKVLDEFSKQVDRIDWPVGSPATIHYTALDGHLSRYQNPRE--ADPMSKV---QAEL 147

Query: 102 DEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQF 139
           DE   I+   +E +LER +KL +L +++  L   +  F
Sbjct: 148 DETKIILHNTMESLLERGEKLDDLVSKSEVLGTQSKAF 185


>pdb|1YW5|A Chain A, Peptidyl-Prolyl Isomerase Ess1 From Candida Albicans
          Length = 177

 Score = 31.2 bits (69), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 12/65 (18%)

Query: 21  RTPQQIAAQKRLQQTQAQVDEVVDIMKTNVEKVLERDQKLSEL---------DDRAGNLG 71
           R P+   +   + +T+   DE + I+K ++E++L  + KLSEL          DR G+LG
Sbjct: 81  RKPKSWKSPDGISRTR---DESIQILKKHLERILSGEVKLSELANTESDCSSHDRGGDLG 137

Query: 72  KMDGG 76
               G
Sbjct: 138 FFSKG 142


>pdb|2H6C|A Chain A, Crystal Structure Of Reduced Cprk In Absence Of Any Ligand
 pdb|2H6C|B Chain B, Crystal Structure Of Reduced Cprk In Absence Of Any Ligand
          Length = 232

 Score = 29.3 bits (64), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 23/94 (24%), Positives = 44/94 (46%), Gaps = 1/94 (1%)

Query: 40  DEVVDIMKTNVEKVLERDQKLSELDDRAGNLGKMDGGFAGNSS-GRQQKSDPKSKLSESQ 98
           D + +I K  + KV    ++++E++     +  +   +   SS G++     +  +  SQ
Sbjct: 121 DMIFEIFKNYLTKVAYYARQVAEINTYNPTIRILRLFYELCSSQGKRVGDTYEITMPLSQ 180

Query: 99  KQVDEVVGIMRVNVEKVLERDQKLSELDNRANAL 132
           K + E+ G   V V KVL   +K + LD + N  
Sbjct: 181 KSIGEITGAHHVTVSKVLACLKKENILDKKKNKF 214


>pdb|3LHO|A Chain A, Crystal Structure Of Putative Hydrolase (Yp_751971.1) From
           Shewanella Frigidimarina Ncimb 400 At 1.80 A Resolution
          Length = 267

 Score = 26.6 bits (57), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 17/31 (54%)

Query: 75  GGFAGNSSGRQQKSDPKSKLSESQKQVDEVV 105
            GF  NSSG + K  P+  L +S    D+VV
Sbjct: 189 AGFVLNSSGGEVKGSPEVLLEQSSTXADKVV 219


>pdb|1YFM|A Chain A, Recombinant Yeast Fumarase
          Length = 488

 Score = 26.2 bits (56), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)

Query: 90  PKSKLSESQKQVDEVVGIMRVNVEKVLERDQKLSELDNRANALQQGASQFEHV 142
           P +  ++SQ   D    +M +     ++ ++ + EL N  NAL+  + +F+H+
Sbjct: 155 PNNHCNQSQSSNDTFPTVMHIAASLQIQ-NELIPELTNLKNALEAKSKEFDHI 206


>pdb|2QR4|A Chain A, Crystal Structure Of Oligoendopeptidase-F From
           Enterococcus Faecium
 pdb|2QR4|B Chain B, Crystal Structure Of Oligoendopeptidase-F From
           Enterococcus Faecium
          Length = 587

 Score = 26.2 bits (56), Expect = 9.4,   Method: Composition-based stats.
 Identities = 12/27 (44%), Positives = 16/27 (59%)

Query: 113 EKVLERDQKLSELDNRANALQQGASQF 139
           EK LE  ++L + +     L QGASQF
Sbjct: 10  EKYLELSEELKQSEKHKGTLDQGASQF 36


  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
   0.309    0.126    0.334 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,837,450
Number of Sequences: 62578
Number of extensions: 127864
Number of successful extensions: 406
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 373
Number of HSP's gapped (non-prelim): 43
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 47 (22.7 bits)