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= 013768
         (437 letters)

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

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



>pdb|2I4K|A Chain A, Solution Structure Of The Px Domain Of Sorting Nexin 1
          Length = 128

 Score = 40.8 bits (94), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 49/106 (46%), Gaps = 12/106 (11%)

Query: 68  VFYRVQVGLQSPEGITTTRGVLRRFNNFLKLFTDLKKAFPKKN--IPPAPPKGLLRM--- 122
           V Y+V      P   +    V RRF++FL L+  L +   +    +PP P K L+ M   
Sbjct: 22  VAYKVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQNGFIVPPPPEKSLIGMTKV 81

Query: 123 -------KSRALLEERRCSLEEWMTKLLSDIDLSRSVSVASFLELE 161
                   S   LE+RR +LE ++ ++++   + +   V  FLE E
Sbjct: 82  KVGKEDSSSAEFLEKRRAALERYLQRIVNHPTMLQDPDVREFLEKE 127


>pdb|3LUI|A Chain A, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
 pdb|3LUI|B Chain B, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
 pdb|3LUI|C Chain C, Crystal Structure Of The Snx17 Px Domain With Bound
           Sulphate
          Length = 115

 Score = 39.3 bits (90), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 39/75 (52%), Gaps = 4/75 (5%)

Query: 87  GVLR---RFNNFLKLFTDLKKAFPKKNIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLL 143
           GVL    R++  L L   L+K +    +P  PPK L  + + A +E+RR  LE++M  + 
Sbjct: 32  GVLHCRVRYSQLLGLHEQLRKEYGANVLPAFPPKKLFSL-TPAEVEQRREQLEKYMQAVR 90

Query: 144 SDIDLSRSVSVASFL 158
            D  L  S +  SFL
Sbjct: 91  QDPLLGSSETFNSFL 105


>pdb|3FOG|A Chain A, Crystal Structure Of The Px Domain Of Sorting Nexin-17
           (Snx17)
          Length = 115

 Score = 38.9 bits (89), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 39/75 (52%), Gaps = 4/75 (5%)

Query: 87  GVLR---RFNNFLKLFTDLKKAFPKKNIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLL 143
           GVL    R++  L L   L+K +    +P  PPK L  + + A +E+RR  LE++M  + 
Sbjct: 29  GVLHCRVRYSQLLGLHEQLRKEYGANVLPAFPPKKLFSL-TPAEVEQRREQLEKYMQAVR 87

Query: 144 SDIDLSRSVSVASFL 158
            D  L  S +  SFL
Sbjct: 88  QDPLLGSSETFNSFL 102


>pdb|3IQ2|A Chain A, Human Sorting Nexin 7, Phox Homology (Px) Domain
 pdb|3IQ2|B Chain B, Human Sorting Nexin 7, Phox Homology (Px) Domain
          Length = 138

 Score = 35.8 bits (81), Expect = 0.052,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 48/102 (47%), Gaps = 4/102 (3%)

Query: 70  YRVQVGLQSPEGITTTRGVLRRFNNFLKLFTDLKKAFPKKNIPPAPP----KGLLRMKSR 125
           YR+       E  ++   V RR+ +FL L   L++A P   IPP P     KG++   + 
Sbjct: 29  YRIITKTSRGEFDSSEFEVRRRYQDFLWLKGKLEEAHPTLIIPPLPEKFIVKGMVERFND 88

Query: 126 ALLEERRCSLEEWMTKLLSDIDLSRSVSVASFLELEAAARSS 167
             +E RR +L +++ ++     L+ +     FL  +A   SS
Sbjct: 89  DFIETRRKALHKFLNRIADHPTLTFNEDFKIFLTAQAWELSS 130


>pdb|2V14|A Chain A, Kinesin 16b Phox-Homology Domain (Kif16b)
          Length = 134

 Score = 35.4 bits (80), Expect = 0.068,   Method: Composition-based stats.
 Identities = 23/95 (24%), Positives = 43/95 (45%), Gaps = 7/95 (7%)

Query: 50  VTIPSWVVLPKSRDSDPVVFYRVQVGLQSPEGITTTRGVLRRFNNFLKLFTDLKKAFPKK 109
           ++IP +V+  + +D+      ++ V       +  T  V RR++ F +    LK  + + 
Sbjct: 8   ISIPRYVLCGQGKDAHFEFEVKITV-------LDETWTVFRRYSRFREXHKTLKLKYAEL 60

Query: 110 NIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLLS 144
                PPK L   K   ++ ERR  LE+++    S
Sbjct: 61  AALEFPPKKLFGNKDERVIAERRSHLEKYLRDFFS 95


>pdb|1XTE|A Chain A, Crystal Structure Of Cisk-Px Domain
          Length = 154

 Score = 35.0 bits (79), Expect = 0.075,   Method: Compositional matrix adjust.
 Identities = 21/80 (26%), Positives = 37/80 (46%)

Query: 88  VLRRFNNFLKLFTDLKKAFPKKNIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLLSDID 147
           V RR+  F KL+  LKK FP   +     +          +++RR  L E++  L+   +
Sbjct: 41  VFRRYAEFDKLYNSLKKQFPAMALKIPAKRIFGDNFDPDFIKQRRAGLNEFIQNLVRYPE 100

Query: 148 LSRSVSVASFLELEAAARSS 167
           L     V +FL++++    S
Sbjct: 101 LYNHPDVRAFLQMDSPRHQS 120


>pdb|1XTN|A Chain A, Crystal Structure Of Cisk-Px Domain With Sulfates
 pdb|1XTN|B Chain B, Crystal Structure Of Cisk-Px Domain With Sulfates
          Length = 120

 Score = 34.3 bits (77), Expect = 0.13,   Method: Composition-based stats.
 Identities = 21/80 (26%), Positives = 37/80 (46%)

Query: 88  VLRRFNNFLKLFTDLKKAFPKKNIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLLSDID 147
           V RR+  F KL+  LKK FP   +     +          +++RR  L E++  L+   +
Sbjct: 41  VFRRYAEFDKLYNSLKKQFPAMALKIPAKRIFGDNFDPDFIKQRRAGLNEFIQNLVRYPE 100

Query: 148 LSRSVSVASFLELEAAARSS 167
           L     V +FL++++    S
Sbjct: 101 LYNHPDVRAFLQMDSPRHQS 120


>pdb|3P0C|A Chain A, Nischarin Px-Domain
 pdb|3P0C|B Chain B, Nischarin Px-Domain
          Length = 130

 Score = 30.8 bits (68), Expect = 1.6,   Method: Composition-based stats.
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 115 PPKGLLRMKSRALLEERRCSLEEWMTKLLS 144
           PPK ++   SR+L+E+R   LE ++ KLL+
Sbjct: 78  PPKKIIGKNSRSLVEKREKDLEVYLQKLLA 107


>pdb|4AKV|A Chain A, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
 pdb|4AKV|B Chain B, Crystal Structure Of Human Sorting Nexin 33 (Snx33)
          Length = 386

 Score = 30.0 bits (66), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 30/71 (42%)

Query: 88  VLRRFNNFLKLFTDLKKAFPKKNIPPAPPKGLLRMKSRALLEERRCSLEEWMTKLLSDID 147
           V RR+ +F  L+  L   F   ++P  P K          +E+R+  L  WM  + S   
Sbjct: 75  VYRRYKHFDWLYNRLLHKFTVISVPHLPEKQATGRFEEDFIEKRKRRLILWMDHMTSHPV 134

Query: 148 LSRSVSVASFL 158
           LS+      FL
Sbjct: 135 LSQYEGFQHFL 145


>pdb|1HN0|A Chain A, Crystal Structure Of Chondroitin Abc Lyase I From Proteus
           Vulgaris At 1.9 Angstroms Resolution
          Length = 1021

 Score = 28.5 bits (62), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 8/66 (12%)

Query: 337 DASSIRGSEISNFGIPNSSADGSPGLHRCAEVSSSREILGNSDL--------QFSGDAEL 388
           D  ++  SEI +F   N  AD S   +    +S  R I+GN  L         F+   +L
Sbjct: 32  DPKNLMQSEIYHFAQNNPLADFSSDKNSILTLSDKRSIMGNQSLLWKWKGGSSFTLHKKL 91

Query: 389 VIPLDQ 394
           ++P D+
Sbjct: 92  IVPTDK 97


  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    0.131    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,554,050
Number of Sequences: 62578
Number of extensions: 512946
Number of successful extensions: 878
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 866
Number of HSP's gapped (non-prelim): 19
length of query: 437
length of database: 14,973,337
effective HSP length: 102
effective length of query: 335
effective length of database: 8,590,381
effective search space: 2877777635
effective search space used: 2877777635
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: 53 (25.0 bits)