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= 013775
         (436 letters)

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

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



>pdb|1IBY|A Chain A, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBY|B Chain B, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBY|C Chain C, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBY|D Chain D, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBZ|A Chain A, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBZ|B Chain B, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBZ|C Chain C, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IBZ|D Chain D, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|A Chain A, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|B Chain B, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|C Chain C, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|D Chain D, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|E Chain E, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
 pdb|1IC0|F Chain F, Red Copper Protein Nitrosocyanin From Nitrosomonas
           Europaea
          Length = 112

 Score = 31.2 bits (69), Expect = 1.2,   Method: Composition-based stats.
 Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 301 EGNPAAVTMKNISRGFAVLSIPLTMTFPKAIFCYWITSNFFSLVYGLVLKVPGVKKMLGV 360
           E N   VT+KNI R F VL+ P T+   K      +  N   +  G  +   GV++++  
Sbjct: 17  ELNVEGVTVKNI-RAFNVLNEPETLVVKKGDAVKVVVENKSPISEGFSIDAFGVQEVIKA 75

Query: 361 PEIPVVQQTTDPKPSFSLF 379
            E   +  T D   +F+++
Sbjct: 76  GETKTISFTADKAGAFTIW 94


>pdb|3U0T|D Chain D, Fab-Antibody Complex
 pdb|3U0T|B Chain B, Fab-Antibody Complex
          Length = 217

 Score = 29.3 bits (64), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 30/110 (27%), Positives = 44/110 (40%), Gaps = 10/110 (9%)

Query: 276 SFYILPILTGLSFLITVECNMQEGLEGNPAAVTMKNISRGFAVLSIPLTMTFPKAIFCYW 335
           S Y LP+  G    +TV     +G    P A   ++ S   A L   +   FP+ +   W
Sbjct: 98  SLYSLPVYWGQGTTVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSW 157

Query: 336 ITSNFFSLVYGL--VLKVPGVKKMLGVPEIPV----VQQT----TDPKPS 375
            +    S V+    VL+  G+  +  V  +P      QQT     D KPS
Sbjct: 158 NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSNFGTQQTYTCNVDHKPS 207


>pdb|2HX1|A Chain A, Crystal Structure Of Possible Sugar Phosphatase, Had
           Superfamily (Zp_00311070.1) From Cytophaga Hutchinsonii
           Atcc 33406 At 2.10 A Resolution
 pdb|2HX1|B Chain B, Crystal Structure Of Possible Sugar Phosphatase, Had
           Superfamily (Zp_00311070.1) From Cytophaga Hutchinsonii
           Atcc 33406 At 2.10 A Resolution
 pdb|2HX1|C Chain C, Crystal Structure Of Possible Sugar Phosphatase, Had
           Superfamily (Zp_00311070.1) From Cytophaga Hutchinsonii
           Atcc 33406 At 2.10 A Resolution
 pdb|2HX1|D Chain D, Crystal Structure Of Possible Sugar Phosphatase, Had
           Superfamily (Zp_00311070.1) From Cytophaga Hutchinsonii
           Atcc 33406 At 2.10 A Resolution
          Length = 284

 Score = 28.1 bits (61), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 155 GFNWWASIIVTTLLIRTATVPLLINQLKSTSKLT 188
           GFNW+  +  T  L+R  T+P ++    +T  LT
Sbjct: 143 GFNWFHDLNKTVNLLRKRTIPAIVANTDNTYPLT 176


  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
   0.322    0.135    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,234,474
Number of Sequences: 62578
Number of extensions: 362449
Number of successful extensions: 969
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 968
Number of HSP's gapped (non-prelim): 14
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)