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= 048063
         (484 letters)

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

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



>pdb|2OIV|A Chain A, Structural Analysis Of Xanthomonas Xopd Provides Insights
           Into Substrate Specificity Of Ubiquitin-Like Protein
           Proteases
          Length = 186

 Score = 33.5 bits (75), Expect = 0.27,   Method: Compositional matrix adjust.
 Identities = 12/41 (29%), Positives = 25/41 (60%)

Query: 214 SETHINPLQVKANGFPCGDCIKTNVERRLHQLMLSVRDFDG 254
            +TH  P+ ++++G+ CGD + T +E   H+++    D+ G
Sbjct: 120 QQTHEMPIAIQSDGYSCGDHVLTGIEVLAHRVLDGTFDYAG 160


>pdb|1U8S|A Chain A, Crystal Structure Of Putative Glycine Cleavage System
           Transcriptional Repressor
 pdb|1U8S|B Chain B, Crystal Structure Of Putative Glycine Cleavage System
           Transcriptional Repressor
          Length = 192

 Score = 32.0 bits (71), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 131 SEHTAIEMTGTDRPGLFSEISAALADLHCNIVEA 164
           ++H  I   GTDRPG+ +E+   +    CNI+++
Sbjct: 4   TQHLVITAVGTDRPGICNEVVRLVTQAGCNIIDS 37


>pdb|2OIX|A Chain A, Xanthomonas Xopd C470a Mutant
          Length = 186

 Score = 30.4 bits (67), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 11/41 (26%), Positives = 24/41 (58%)

Query: 214 SETHINPLQVKANGFPCGDCIKTNVERRLHQLMLSVRDFDG 254
            +TH  P+ ++++G+  GD + T +E   H+++    D+ G
Sbjct: 120 QQTHEMPIAIQSDGYSAGDHVLTGIEVLAHRVLDGTFDYAG 160


>pdb|4HJC|A Chain A, Crystal Structure Of Glycoprotein C From Rift Valley Fever
           Virus (non- Glycosylated)
          Length = 428

 Score = 30.0 bits (66), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 9/74 (12%)

Query: 242 LHQLMLSVRDFDGQC-----GPNMSRSTPSSAVGFG-DEEGM--RRTAVYIESCEEKGYS 293
           +H+L L + DFDG       G + SR T   +V    D EG+    +  +IES   KGY+
Sbjct: 166 VHKLTLEITDFDGSVSTIDLGASSSRFTNWGSVSLSLDAEGISGSNSFSFIES-PGKGYA 224

Query: 294 IVSVDCKDRPRLMF 307
           IV     + PR  F
Sbjct: 225 IVDEPFSEIPRQGF 238


>pdb|4HJ1|A Chain A, Crystal Structure Of Glycoprotein C From Rift Valley Fever
           Virus (glycosylated)
 pdb|4HJ1|B Chain B, Crystal Structure Of Glycoprotein C From Rift Valley Fever
           Virus (glycosylated)
 pdb|4HJ1|C Chain C, Crystal Structure Of Glycoprotein C From Rift Valley Fever
           Virus (glycosylated)
 pdb|4HJ1|D Chain D, Crystal Structure Of Glycoprotein C From Rift Valley Fever
           Virus (glycosylated)
          Length = 432

 Score = 30.0 bits (66), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 9/74 (12%)

Query: 242 LHQLMLSVRDFDGQC-----GPNMSRSTPSSAVGFG-DEEGM--RRTAVYIESCEEKGYS 293
           +H+L L + DFDG       G + SR T   +V    D EG+    +  +IES   KGY+
Sbjct: 169 VHKLTLEITDFDGSVSTIDLGASSSRFTNWGSVSLSLDAEGISGSNSFSFIES-PGKGYA 227

Query: 294 IVSVDCKDRPRLMF 307
           IV     + PR  F
Sbjct: 228 IVDEPFSEIPRQGF 241


>pdb|4G35|A Chain A, Mcl-1 In Complex With A Biphenyl Cross-Linked Noxa Peptide
          Length = 165

 Score = 30.0 bits (66), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 12/50 (24%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 42  VDSVSKQGLLLEMVQVLTDMNLTISKSYISSDAGW--FMDVFHVKDEHGN 89
           + SV+++  +  + + +TD+ +   + ++    GW  F++ FHV+D  G 
Sbjct: 116 LKSVNQESFIEPLAETITDVLVRTKRDWLVKQRGWDGFVEFFHVQDLEGG 165


>pdb|1WSX|A Chain A, Solution Structure Of Mcl-1
 pdb|2JM6|B Chain B, Solution Structure Of Mcl-1 Complexed With Noxab
 pdb|2ROC|A Chain A, Solution Structure Of Mcl-1 Complexed With Puma
 pdb|2ROD|A Chain A, Solution Structure Of Mcl-1 Complexed With Noxaa
          Length = 162

 Score = 29.6 bits (65), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 12/50 (24%), Positives = 28/50 (56%), Gaps = 2/50 (4%)

Query: 42  VDSVSKQGLLLEMVQVLTDMNLTISKSYISSDAGW--FMDVFHVKDEHGN 89
           + SV+++  +  + + +TD+ +   + ++    GW  F++ FHV+D  G 
Sbjct: 113 LKSVNQESFIEPLAETITDVLVRTKRDWLVKQRGWDGFVEFFHVQDLEGG 162


  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    0.135    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,718,788
Number of Sequences: 62578
Number of extensions: 547650
Number of successful extensions: 1284
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1279
Number of HSP's gapped (non-prelim): 10
length of query: 484
length of database: 14,973,337
effective HSP length: 103
effective length of query: 381
effective length of database: 8,527,803
effective search space: 3249092943
effective search space used: 3249092943
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: 53 (25.0 bits)