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= 003096
         (848 letters)

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

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



>pdb|2RNO|A Chain A, Solution Structure Of The N-Terminal Sap Domain Of Sumo E3
           Ligases From Oryza Sativa
          Length = 110

 Score = 85.1 bits (209), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 47/93 (50%), Positives = 56/93 (60%), Gaps = 17/93 (18%)

Query: 11  KLVNFRMKELKDVLTKLGLPKQGKKQDLVDRIFHQLSD-----------------EGVAR 53
           KL  FR+KELKD+L +LGLPKQGKKQDL+DR+   L+D                 E VA+
Sbjct: 16  KLAYFRIKELKDILNQLGLPKQGKKQDLIDRVLALLTDEQGQRHHGWGRKNSLTKEAVAK 75

Query: 54  IIDDTYRKMQISEAADLAIMGQSGLDICNVKVE 86
           I+DDTYRKMQI  A DLA    SG D     +E
Sbjct: 76  IVDDTYRKMQIQCAPDLATRSHSGSDFSFRPIE 108


>pdb|2RSD|A Chain A, Solution Structure Of The Plant Homeodomain (Phd) Of The
           E3 Sumo Ligase Siz1 From Rice
          Length = 68

 Score = 70.1 bits (170), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 32/67 (47%), Positives = 46/67 (68%), Gaps = 1/67 (1%)

Query: 91  DSLNLGGKIFCPCGTSLPSESKIQCVDPRCLVQQHISCVIIPEKPMEEIRLLPPLFFCET 150
           DS     K+ C C +++ ++S IQC D RC V QH++CV+IP+KP E    +PP+F+CE 
Sbjct: 3   DSFQPEAKVRCICSSTMVNDSMIQCEDQRCQVWQHLNCVLIPDKPGESAE-VPPVFYCEL 61

Query: 151 CRIKRAD 157
           CR+ RAD
Sbjct: 62  CRLSRAD 68


>pdb|1WEW|A Chain A, Solution Structure Of Phd Domain In Dna-Binding Family
           Protein Aam98074
          Length = 78

 Score = 69.7 bits (169), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 33/65 (50%), Positives = 42/65 (64%)

Query: 89  AEDSLNLGGKIFCPCGTSLPSESKIQCVDPRCLVQQHISCVIIPEKPMEEIRLLPPLFFC 148
            ED      K+ C CG SL ++S IQC DPRC V QH+ CVI+P+KPM+    LP  F+C
Sbjct: 7   GEDPFQPEIKVRCVCGNSLETDSMIQCEDPRCHVWQHVGCVILPDKPMDGNPPLPESFYC 66

Query: 149 ETCRI 153
           E CR+
Sbjct: 67  EICRL 71


>pdb|4FO9|A Chain A, Crystal Structure Of The E3 Sumo Ligase Pias2
          Length = 360

 Score = 39.3 bits (90), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 69/286 (24%), Positives = 105/286 (36%), Gaps = 84/286 (29%)

Query: 188 AEAAFHLTKAHSDLLQNTEYDVQAWCILLNDKVSFRMQWPLHAELQVNGLLVRTVNRPGT 247
            +    L  A +   Q   Y   + CI +N K+      P +A    NG+      RPG 
Sbjct: 79  VQVQLRLCLAETSCPQEDNYP-NSLCIKVNGKL---FPLPGYAPPPKNGI---EQKRPGR 131

Query: 248 QL-LGSNGRDDGALITLYIGEGVNQISLS-GCDI-RNFCFGVRLVKRQTVAQVLS-LVPK 303
            L + S  R   A+         NQIS+S   +I +N+   V LV++ T A +L  L  K
Sbjct: 132 PLNITSLVRLSSAV--------PNQISISWASEIGKNYSMSVYLVRQLTSAMLLQRLKMK 183

Query: 304 ETAGEVFEDALTRVRRCFGGVATGNEDGDSDLEIIADSIIVNLRCPKVFSEENSDVLLFG 363
                    AL + +             D D EI   S+ V+L CP              
Sbjct: 184 GIRNPDHSRALIKEKL----------TADPDSEIATTSLRVSLMCP-------------- 219

Query: 364 IPFDCTFHWLFLTCNWQMSGSRIRVAGRFKPCVHTGCFDLETFVELNQRT---------R 414
                            +   R+ +  R   C H  CFD   ++++N++          +
Sbjct: 220 -----------------LGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDK 262

Query: 415 KASY-SFIL--LFLSMFRIFKLIKVGKMRNFADDLTEIEVKHDGSW 457
           KA+Y S IL  LF+ +             N   D+ EI+ + DGSW
Sbjct: 263 KAAYESLILDGLFMEIL------------NDCSDVDEIKFQEDGSW 296


>pdb|3SKY|A Chain A, 2.1a Crystal Structure Of The Phosphate Bound Atp Binding
           Domain Of Archaeoglobus Fulgidus Copb
          Length = 274

 Score = 33.5 bits (75), Expect = 0.47,   Method: Composition-based stats.
 Identities = 17/42 (40%), Positives = 25/42 (59%)

Query: 580 TGNQTDGLIGDTDIIVLSDSEEDNDHLAPSTSYQSYHPIDSA 621
           TG  T+G  G TDI+  + SE++   +A S   +S HPI +A
Sbjct: 21  TGTLTEGRFGVTDIVGFNHSEDELLQIAASLEARSEHPIAAA 62


>pdb|3SKX|A Chain A, Crystal Structure Of The Atp Binding Domain Of
           Archaeoglobus Fulgidus Copb
          Length = 280

 Score = 33.5 bits (75), Expect = 0.47,   Method: Composition-based stats.
 Identities = 17/42 (40%), Positives = 25/42 (59%)

Query: 580 TGNQTDGLIGDTDIIVLSDSEEDNDHLAPSTSYQSYHPIDSA 621
           TG  T+G  G TDI+  + SE++   +A S   +S HPI +A
Sbjct: 21  TGTLTEGRFGVTDIVGFNHSEDELLQIAASLEARSEHPIAAA 62


  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
   0.318    0.134    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,253,049
Number of Sequences: 62578
Number of extensions: 1067681
Number of successful extensions: 1966
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1957
Number of HSP's gapped (non-prelim): 11
length of query: 848
length of database: 14,973,337
effective HSP length: 107
effective length of query: 741
effective length of database: 8,277,491
effective search space: 6133620831
effective search space used: 6133620831
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)