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= 029594
         (191 letters)

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

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



>pdb|4FDV|A Chain A, Cobh From Rhodobacter Capsulatus (Sb1003) In Complex With
           Hba
          Length = 209

 Score = 34.3 bits (77), Expect = 0.038,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 6/76 (7%)

Query: 73  NTSTNGFGIINMIDNPLTAGPEMSSKMVGRAQGFYALASQEEVDLLMA--MNFAFIEGKY 130
           N  T  F ++NM+++P    P   + ++G   GF   A++ +  L +A  + +  +EG+ 
Sbjct: 136 NAPTALFHLLNMLEDPACPRP---AAIIGCPVGFIG-AAESKAALAVANPVPWVIVEGRL 191

Query: 131 NGSSITVLGRNPVFSK 146
            GS+ITV   N +  +
Sbjct: 192 GGSAITVAAVNALACR 207


>pdb|4AU1|A Chain A, Crystal Structure Of Cobh (Precorrin-8x Methyl Mutase)
           Complexed With C5 Desmethyl-Hba
          Length = 229

 Score = 34.3 bits (77), Expect = 0.043,   Method: Compositional matrix adjust.
 Identities = 21/76 (27%), Positives = 40/76 (52%), Gaps = 6/76 (7%)

Query: 73  NTSTNGFGIINMIDNPLTAGPEMSSKMVGRAQGFYALASQEEVDLLMA--MNFAFIEGKY 130
           N  T  F ++NM+++P    P   + ++G   GF   A++ +  L +A  + +  +EG+ 
Sbjct: 156 NAPTALFHLLNMLEDPACPRP---AAIIGCPVGFIG-AAESKAALAVANPVPWVIVEGRL 211

Query: 131 NGSSITVLGRNPVFSK 146
            GS+ITV   N +  +
Sbjct: 212 GGSAITVAAVNALACR 227


>pdb|2J7Q|C Chain C, Crystal Structure Of The Ubiquitin-Specific Protease
           Encoded By Murine Cytomegalovirus Tegument Protein M48
           In Complex With A Ubquitin-Based Suicide Substrate
          Length = 232

 Score = 28.1 bits (61), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 144 FSKMREMPVIGGSGLFRFARGYVQAR--THNFDPKTGDATVQYNVYVM 189
           +++ + +PV     +  F RG + AR  T+ FDP T D + +  VYV 
Sbjct: 124 YARGKPLPVYIIVTVGVFTRGVIVARGATYVFDPHTTDLSAEAAVYVC 171


>pdb|1ZK7|A Chain A, Crystal Structure Of Tn501 Mera
 pdb|1ZX9|A Chain A, Crystal Structure Of Tn501 Mera
          Length = 467

 Score = 27.3 bits (59), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 7/40 (17%)

Query: 115 VDLLMAMNFAFIEGKYNGSSITVLGRNPVFSKMREMPVIG 154
           V L +A  FA +     GS +TVL RN +F   RE P IG
Sbjct: 187 VALELAQAFARL-----GSKVTVLARNTLF--FREDPAIG 219


>pdb|3MP2|A Chain A, Crystal Structure Of Transmissible Gastroenteritis Virus
           Papain-Like Protease 1
          Length = 211

 Score = 27.3 bits (59), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 25/42 (59%), Gaps = 5/42 (11%)

Query: 51  IYWHDIQSGQNPTSISVVRPP-----TNTSTNGFGIINMIDN 87
           ++ HDI S Q P ++ VV+P      T T+ NG  +++ I++
Sbjct: 141 VFVHDILSKQTPEAMFVVKPVMHAVYTGTTQNGHYMVDDIEH 182


  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
   0.321    0.135    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,404,967
Number of Sequences: 62578
Number of extensions: 211605
Number of successful extensions: 425
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 425
Number of HSP's gapped (non-prelim): 6
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
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: 48 (23.1 bits)