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= 046724
         (197 letters)

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

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



>pdb|1W63|B Chain B, Ap1 Clathrin Adaptor Core
 pdb|1W63|D Chain D, Ap1 Clathrin Adaptor Core
 pdb|1W63|F Chain F, Ap1 Clathrin Adaptor Core
 pdb|1W63|H Chain H, Ap1 Clathrin Adaptor Core
 pdb|1W63|J Chain J, Ap1 Clathrin Adaptor Core
 pdb|1W63|L Chain L, Ap1 Clathrin Adaptor Core
          Length = 584

 Score = 31.6 bits (70), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 4/84 (4%)

Query: 26  FTTRPKDLTENYHNCAYGVTNNAEIESFLRSKFMVSRALSTDAAASASIGEVHRAAAGPL 85
           F  +P +  E         T +++        ++  R LSTD  A+  +      A  PL
Sbjct: 492 FLKKPTETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVAAKEVV----LAEKPL 547

Query: 86  VEYERRIIAGELLDGDVCQLGTLG 109
           +  E  +I   LLD  +C +GTL 
Sbjct: 548 ISEETDLIEPTLLDELICYIGTLA 571


>pdb|3QQR|A Chain A, Crystal Structure Of Parasponia Hemoglobin; Differential
           Heme Coordination Is Linked To Quaternary Structure
 pdb|3QQR|B Chain B, Crystal Structure Of Parasponia Hemoglobin; Differential
           Heme Coordination Is Linked To Quaternary Structure
          Length = 162

 Score = 28.9 bits (63), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 138 DSPVSLQESVAVVTFTATIFILTCQRIVPL 167
           DSPV L+++  +     T+F++TC+  V L
Sbjct: 56  DSPVPLEQNPKLKPHATTVFVMTCESAVQL 85


>pdb|3QQQ|A Chain A, Crystal Structure Of Non-Symbiotic Plant Hemoglobin From
           Trema Tomentosa
 pdb|3QQQ|B Chain B, Crystal Structure Of Non-Symbiotic Plant Hemoglobin From
           Trema Tomentosa
          Length = 168

 Score = 28.5 bits (62), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 138 DSPVSLQESVAVVTFTATIFILTCQRIVPL 167
           DSP+ L+++  +     T+F++TC+  V L
Sbjct: 62  DSPIPLEQNPKLKPHAMTVFVMTCESAVQL 91


>pdb|2VGL|B Chain B, Ap2 Clathrin Adaptor Core
 pdb|2JKR|B Chain B, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
           Phosphos)qikrllse
 pdb|2JKR|E Chain E, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
           Phosphos)qikrllse
 pdb|2JKT|B Chain B, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
           Phosphos)eikrllse  Q To E Mutant
 pdb|2JKT|E Chain E, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
           Phosphos)eikrllse  Q To E Mutant
          Length = 591

 Score = 28.5 bits (62), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 4/84 (4%)

Query: 26  FTTRPKDLTENYHNCAYGVTNNAEIESFLRSKFMVSRALSTDAAASASIGEVHRAAAGPL 85
           F  +P +  E         T +++        ++  R LSTD   +  +      +  PL
Sbjct: 492 FLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVV----LSEKPL 547

Query: 86  VEYERRIIAGELLDGDVCQLGTLG 109
           +  E  +I   LLD  +C +G+L 
Sbjct: 548 ISEETDLIEPTLLDELICHIGSLA 571


>pdb|2XA7|B Chain B, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
           Peptides
          Length = 592

 Score = 28.5 bits (62), Expect = 2.8,   Method: Composition-based stats.
 Identities = 19/86 (22%), Positives = 35/86 (40%), Gaps = 4/86 (4%)

Query: 26  FTTRPKDLTENYHNCAYGVTNNAEIESFLRSKFMVSRALSTDAAASASIGEVHRAAAGPL 85
           F  +P +  E         T +++        ++  R LSTD   +  +      +  PL
Sbjct: 492 FLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEV----VLSEKPL 547

Query: 86  VEYERRIIAGELLDGDVCQLGTLGEL 111
           +  E  +I   LLD  +C +G+L  +
Sbjct: 548 ISEETDLIEPTLLDELICHIGSLASV 573


  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
   0.319    0.133    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,633,964
Number of Sequences: 62578
Number of extensions: 197709
Number of successful extensions: 440
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 436
Number of HSP's gapped (non-prelim): 7
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)