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= psy3908
         (170 letters)

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

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



>pdb|3EIW|A Chain A, Crystal Structure Of Staphylococcus Aureus Lipoprotein,
           Htsa
 pdb|3LHS|A Chain A, Open Conformation Of Htsa Complexed With Staphyloferrin A
 pdb|3LI2|A Chain A, Closed Conformation Of Htsa Complexed With Staphyloferrin
           A
 pdb|3LI2|B Chain B, Closed Conformation Of Htsa Complexed With Staphyloferrin
           A
          Length = 296

 Score = 28.5 bits (62), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 27/93 (29%), Positives = 42/93 (45%), Gaps = 11/93 (11%)

Query: 8   LLATAKWSDEGQYLREFVSKNSLPTVV-----KIIKGQYGNLGVPTLPSPGLQSTVLLVS 62
           LLA   +S  GQ+L E   KN+L   V     K +KG Y  L    L     +  +++  
Sbjct: 175 LLAHPNYSYVGQFLNELGFKNALSDDVTKGLSKYLKGPYLQLDTEHLADLNPERMIIMTD 234

Query: 63  AGKRQKIIAQAVKLKEG---RRFVGV-GSRIDI 91
             K+    A+  KL+E    ++   V  +R+DI
Sbjct: 235 HAKKDS--AEFKKLQEDATWKKLNAVKNNRVDI 265


>pdb|2KON|A Chain A, Nmr Solution Structure Of Cv_2116 From Chromobacterium
           Violaceum. Northeast Structural Genomics Consortium
           Target Cvt4(1-82)
          Length = 82

 Score = 28.1 bits (61), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 13/38 (34%), Positives = 23/38 (60%), Gaps = 1/38 (2%)

Query: 81  RFVGVGSRIDIPENYPGYFELLSE-EGKSMRCCETVLE 117
           R VGV  R  IP  YP +++L ++ E  S+ C + +++
Sbjct: 31  RKVGVPDRTPIPTTYPEFYDLEADAERVSIACAKIIID 68


>pdb|3EIX|A Chain A, Crystal Structure Of Selenomethionine Labelled
           Staphylococcus Aureus Lipoprotein, Htsa
          Length = 296

 Score = 26.9 bits (58), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 27/93 (29%), Positives = 41/93 (44%), Gaps = 11/93 (11%)

Query: 8   LLATAKWSDEGQYLREFVSKNSLPTVV-----KIIKGQYGNLGVPTLPSPGLQSTVLLVS 62
           LLA   +S  GQ+L E   KN+L   V     K +KG Y  L    L     +  ++   
Sbjct: 175 LLAHPNYSYVGQFLNELGFKNALSDDVTKGLSKYLKGPYLQLDTEHLADLNPERXIIXTD 234

Query: 63  AGKRQKIIAQAVKLKEG---RRFVGV-GSRIDI 91
             K+    A+  KL+E    ++   V  +R+DI
Sbjct: 235 HAKKDS--AEFKKLQEDATWKKLNAVKNNRVDI 265


>pdb|1EKM|A Chain A, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
           Copper Amine Oxidase Of Hansenula Polymorpha Expressed
           In Escherichia Coli
 pdb|1EKM|B Chain B, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
           Copper Amine Oxidase Of Hansenula Polymorpha Expressed
           In Escherichia Coli
 pdb|1EKM|C Chain C, Crystal Structure At 2.5 A Resolution Of Zinc-Substituted
           Copper Amine Oxidase Of Hansenula Polymorpha Expressed
           In Escherichia Coli
          Length = 656

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 221 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 278

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 279 RI-SLSEMIVP 288


>pdb|3NBJ|A Chain A, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
 pdb|3NBJ|B Chain B, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
 pdb|3NBJ|C Chain C, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
 pdb|3NBJ|D Chain D, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
 pdb|3NBJ|E Chain E, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
 pdb|3NBJ|F Chain F, Crystal Structure Of Y305f Mutant Of The Copper Amine
           Oxidase From Hansenula Polymorpha Expressed In Yeast
          Length = 657

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 220 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 277

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 278 RI-SLSEMIVP 287


>pdb|3NBB|A Chain A, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
 pdb|3NBB|B Chain B, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
 pdb|3NBB|C Chain C, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
 pdb|3NBB|D Chain D, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
 pdb|3NBB|E Chain E, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
 pdb|3NBB|F Chain F, Crystal Structure Of Mutant Y305f Expressed In E. Coli In
           The Copper Amine Oxidase From Hansenula Polymorpha
          Length = 663

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 223 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 280

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 281 RI-SLSEMIVP 290


>pdb|3N9H|A Chain A, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
 pdb|3N9H|B Chain B, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
 pdb|3N9H|C Chain C, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
 pdb|3N9H|D Chain D, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
 pdb|3N9H|E Chain E, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
 pdb|3N9H|F Chain F, Crystal Structural Of Mutant Y305a In The Copper Amine
           Oxidase From Hansenula Polymorpha
          Length = 692

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 237 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 294

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 295 RI-SLSEMIVP 304


>pdb|2OOV|A Chain A, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OOV|B Chain B, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OQE|A Chain A, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
 pdb|2OQE|B Chain B, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
          Length = 660

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 225 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 282

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 283 RI-SLSEMIVP 292


>pdb|2OOV|C Chain C, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OOV|D Chain D, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OOV|E Chain E, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OOV|F Chain F, Crystal Structure Of Hansenula Polymorpha Amine Oxidase To
           1.7 Angstroms
 pdb|2OQE|C Chain C, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
 pdb|2OQE|D Chain D, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
 pdb|2OQE|E Chain E, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
 pdb|2OQE|F Chain F, Crystal Structure Of Hansenula Polymorpha Amine Oxidase In
           Complex With Xe To 1.6 Angstroms
          Length = 660

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 225 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 282

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 283 RI-SLSEMIVP 292


>pdb|1A2V|A Chain A, Copper Amine Oxidase From Hansenula Polymorpha
 pdb|1A2V|B Chain B, Copper Amine Oxidase From Hansenula Polymorpha
 pdb|1A2V|C Chain C, Copper Amine Oxidase From Hansenula Polymorpha
 pdb|1A2V|D Chain D, Copper Amine Oxidase From Hansenula Polymorpha
 pdb|1A2V|E Chain E, Copper Amine Oxidase From Hansenula Polymorpha
 pdb|1A2V|F Chain F, Copper Amine Oxidase From Hansenula Polymorpha
          Length = 655

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 220 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 277

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 278 RI-SLSEMIVP 287


>pdb|3SX1|A Chain A, Hansenula Polymorpha Copper Amine Oxidase-1 In Its Apo
           Form
 pdb|3SX1|B Chain B, Hansenula Polymorpha Copper Amine Oxidase-1 In Its Apo
           Form
 pdb|3SX1|C Chain C, Hansenula Polymorpha Copper Amine Oxidase-1 In Its Apo
           Form
 pdb|3SXX|A Chain A, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3SXX|B Chain B, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3SXX|C Chain C, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3SXX|D Chain D, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3SXX|E Chain E, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3SXX|F Chain F, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Co(ii)
 pdb|3T0U|A Chain A, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Cu(i)
 pdb|3T0U|B Chain B, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Cu(i)
 pdb|3T0U|C Chain C, Hansenula Polymorpha Copper Amine Oxidase-1 In Complex
           With Cu(i)
          Length = 692

 Score = 26.9 bits (58), Expect = 5.8,   Method: Composition-based stats.
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 92  PENYPGYFELLSEEGKSMRCCETVLEISRRKIEAGCLIREAIKGIVAKYDEEGNLQSDGA 151
           PE  P    +   EG S +    V+E S  K   G   RE I      Y++ GN++    
Sbjct: 237 PEAPP--INVTQPEGVSFKMTGNVMEWSNFKFHIGFNYREGIVLSDVSYNDHGNVRPIFH 294

Query: 152 RIVNIGEVLLP 162
           RI ++ E+++P
Sbjct: 295 RI-SLSEMIVP 304


>pdb|2D6F|C Chain C, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
           Complex With Trna(Gln)
 pdb|2D6F|D Chain D, Crystal Structure Of Glu-Trna(Gln) Amidotransferase In The
           Complex With Trna(Gln)
          Length = 619

 Score = 26.6 bits (57), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)

Query: 123 IEAGCLIREAIKGIVAKYDEEGNLQSDGARIVNIGEVLLPKSEV 166
           +E G + ++A++ IVA   +EG    D AR +N+  +LL + E+
Sbjct: 523 LEVGKISKDALRDIVACMADEGLAAEDAARKLNL--LLLAEDEI 564


  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
   0.316    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: 4,944,644
Number of Sequences: 62578
Number of extensions: 187946
Number of successful extensions: 406
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 19
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
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: 48 (23.1 bits)