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= 029410
         (194 letters)

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

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



>pdb|2L5O|A Chain A, Solution Structure Of A Putative Thioredoxin From
          Neisseria Meningitidis
          Length = 153

 Score = 28.1 bits (61), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 19/42 (45%)

Query: 1  MWLMKCPALVSRSLKIPSSDNDDDDSARPVAKVILSIDPLQS 42
           W   CP  VS   KI  + ND  +    V  V   IDP++S
Sbjct: 35 FWFPSCPGCVSEMPKIIKTANDYKNKNFQVLAVAQPIDPIES 76


>pdb|3IFV|A Chain A, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3IFV|B Chain B, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3IFV|C Chain C, Crystal Structure Of The Haloferax Volcanii Proliferating
           Cell Nuclear Antigen
 pdb|3HI8|A Chain A, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|B Chain B, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|C Chain C, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|D Chain D, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|E Chain E, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
 pdb|3HI8|F Chain F, Crystal Structure Of Proliferating Cell Nuclear Antigen
           (Pcna) From Haloferax Volcanii
          Length = 247

 Score = 28.1 bits (61), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 12/65 (18%)

Query: 60  ELISTESGNAPKRYSMDMSKDL---IPMSVFAESSNGKISVEGKIKNKFDMRPHHENMEN 116
           +LIS E+G A   +S+D  KD+   IP       ++ +++VE  +  +F ++ H++  E 
Sbjct: 182 DLISIEAGAADSLFSLDYLKDMNKAIP-------TDAEVTVE--LGEEFPVKLHYQIAEG 232

Query: 117 YGKLC 121
            G + 
Sbjct: 233 MGTIT 237


>pdb|1F3U|A Chain A, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
           Human Tfiif
 pdb|1F3U|C Chain C, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
           Human Tfiif
 pdb|1F3U|E Chain E, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
           Human Tfiif
 pdb|1F3U|G Chain G, Crystal Structure Of The Rap3074 INTERACTION DOMAINS OF
           Human Tfiif
          Length = 118

 Score = 26.9 bits (58), Expect = 6.8,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 19/26 (73%)

Query: 84  MSVFAESSNGKISVEGKIKNKFDMRP 109
           ++VF ESS+ K+S+EG +  + + RP
Sbjct: 92  LTVFTESSSDKLSLEGIVVQRAECRP 117


  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
   0.320    0.133    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,350,349
Number of Sequences: 62578
Number of extensions: 181258
Number of successful extensions: 378
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 376
Number of HSP's gapped (non-prelim): 3
length of query: 194
length of database: 14,973,337
effective HSP length: 94
effective length of query: 100
effective length of database: 9,091,005
effective search space: 909100500
effective search space used: 909100500
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)