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= 011569
         (483 letters)

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

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



>pdb|2P14|A Chain A, Crystal Structure Of Small Subunit (r.bspd6i2) Of The
           Heterodimeric Restriction Endonuclease R.bspd6i
          Length = 192

 Score = 30.8 bits (68), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 11/65 (16%)

Query: 88  TLYADDSVVLSHEKKISTKTGF-KSSQPV------EFRKVPTGMSSKGLWNNPNQLSEEM 140
           TL+   S+ LS  + I    GF K S+PV      +F+K+ T +   G   NPN+L E +
Sbjct: 106 TLFLGKSIDLSFARHI----GFNKESEPVIPLTVDQFKKLVTQLKGDGEHFNPNKLKEIL 161

Query: 141 VRCMK 145
           ++ ++
Sbjct: 162 IKLLR 166


>pdb|2IJX|A Chain A, Crystal Structure Of Pcna3 Monomer From Sulfolobus
           Solfataricus.
 pdb|2IJX|B Chain B, Crystal Structure Of Pcna3 Monomer From Sulfolobus
           Solfataricus.
 pdb|2IJX|C Chain C, Crystal Structure Of Pcna3 Monomer From Sulfolobus
           Solfataricus.
 pdb|2IJX|D Chain D, Crystal Structure Of Pcna3 Monomer From Sulfolobus
           Solfataricus.
 pdb|2NTI|F Chain F, Crystal Structure Of Pcna123 Heterotrimer.
 pdb|2NTI|C Chain C, Crystal Structure Of Pcna123 Heterotrimer.
 pdb|2NTI|I Chain I, Crystal Structure Of Pcna123 Heterotrimer
          Length = 244

 Score = 28.9 bits (63), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 59  ERNERRLAEYRLRHSSSPTLS--GCFPDITETLYADDSVVL-SHEKKISTKTGFKSSQPV 115
           E +E+ + E  L+   S T+S  G    I+E     D+VV+  HE +I  K   +S   V
Sbjct: 115 EVSEQEIPEINLQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEVEV 174

Query: 116 EFRKVPTGM 124
           EF K   G+
Sbjct: 175 EFSKDTGGL 183


>pdb|2IX2|C Chain C, Crystal Structure Of The Heterotrimeric Pcna From
           Sulfolobus Solfataricus
          Length = 259

 Score = 28.9 bits (63), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 59  ERNERRLAEYRLRHSSSPTLS--GCFPDITETLYADDSVVL-SHEKKISTKTGFKSSQPV 115
           E +E+ + E  L+   S T+S  G    I+E     D+VV+  HE +I  K   +S   V
Sbjct: 130 EVSEQEIPEINLQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEVEV 189

Query: 116 EFRKVPTGM 124
           EF K   G+
Sbjct: 190 EFSKDTGGL 198


>pdb|2HII|C Chain C, Heterotrimeric Pcna Sliding Clamp
 pdb|2HII|Z Chain Z, Heterotrimeric Pcna Sliding Clamp
 pdb|2HIK|C Chain C, Heterotrimeric Pcna Sliding Clamp
 pdb|2HIK|N Chain N, Heterotrimeric Pcna Sliding Clamp
 pdb|2HIK|Z Chain Z, Heterotrimeric Pcna Sliding Clamp
          Length = 252

 Score = 28.5 bits (62), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 59  ERNERRLAEYRLRHSSSPTLS--GCFPDITETLYADDSVVL-SHEKKISTKTGFKSSQPV 115
           E +E+ + E  L+   S T+S  G    I+E     D+VV+  HE +I  K   +S   V
Sbjct: 115 EVSEQEIPEINLQFDISATISSDGFKSAISEVSTVTDNVVVEGHEDRILIKAEGESEVEV 174

Query: 116 EFRKVPTGM 124
           EF K   G+
Sbjct: 175 EFSKDTGGL 183


>pdb|1EZ3|A Chain A, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
 pdb|1EZ3|B Chain B, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
 pdb|1EZ3|C Chain C, Crystal Structure Of The Neuronal T-Snare Syntaxin-1a
          Length = 127

 Score = 28.5 bits (62), Expect = 8.6,   Method: Composition-based stats.
 Identities = 22/90 (24%), Positives = 45/90 (50%), Gaps = 1/90 (1%)

Query: 6   SLENAIKKNTMKLSSPSCFSHEAQELLSNIALLETTVSKLEQEMVSLHFQLSQERN-ERR 64
           ++E   +K++  L+SP+      +EL   ++ ++ T +K+  ++ S+   + QE    R 
Sbjct: 27  NVEEVKRKHSAILASPNPDEKTKEELEELMSDIKKTANKVRSKLKSIEQSIEQEEGLNRS 86

Query: 65  LAEYRLRHSSSPTLSGCFPDITETLYADDS 94
            A+ R+R +   TLS  F ++     A  S
Sbjct: 87  SADLRIRKTQHSTLSRKFVEVMSEYNATQS 116


  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    0.131    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,390,128
Number of Sequences: 62578
Number of extensions: 447193
Number of successful extensions: 895
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 895
Number of HSP's gapped (non-prelim): 8
length of query: 483
length of database: 14,973,337
effective HSP length: 103
effective length of query: 380
effective length of database: 8,527,803
effective search space: 3240565140
effective search space used: 3240565140
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)