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= 039206
         (645 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P58302|RAD50_THEVO DNA double-strand break repair Rad50 ATPase OS=Thermoplasma
           volcanium (strain ATCC 51530 / DSM 4299 / JCM 9571 /
           NBRC 15438 / GSS1) GN=rad50 PE=3 SV=1
          Length = 895

 Score = 37.0 bits (84), Expect = 0.46,   Method: Compositional matrix adjust.
 Identities = 51/191 (26%), Positives = 96/191 (50%), Gaps = 19/191 (9%)

Query: 83  KIRLLDERAKEIENKESELVLVEKKIKDCNFELACKEKELGFVRKRIGVCNSELQS-KED 141
           KI  +D   K+IE  ES+L L+E +IK    E+  KE +   + + +   N++L++ K+ 
Sbjct: 195 KINEIDNNNKQIEELESKLRLIEPEIKALEEEINIKENKKDHLNEELHRLNAQLETIKKY 254

Query: 142 ELNLVKNSAEKWPKRLNLKK-----EKQKRLESLDGEVRESE-KELVLMKEQKASIRAMI 195
           E+ L ++ + K    + + K     E+ KRLE+    V+ +E  E + +K+   S+  +I
Sbjct: 255 EMELAESQSRKASIEMEVVKLPSIEEELKRLENNAAVVKRNEIIEYINLKKDLGSLSEII 314

Query: 196 EACTEKLEAIEESYDAVKAKLESEKRELELTQTFMKDLLVKLRLYEDNLQSLQSTVRLRE 255
           E     L   +E++           R+LE  Q+F  + L K +  ED L  L+S+++  E
Sbjct: 315 EGLKSDLSKYDEAH-----------RKLEDLQSFRSEFLEKKKRKED-LDKLRSSLKEDE 362

Query: 256 NELECKEKELE 266
           +  +   + +E
Sbjct: 363 DNYQSAVRNIE 373


>sp|Q3V6T2|GRDN_HUMAN Girdin OS=Homo sapiens GN=CCDC88A PE=1 SV=2
          Length = 1871

 Score = 33.9 bits (76), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 71/261 (27%), Positives = 130/261 (49%), Gaps = 34/261 (13%)

Query: 102 VLVEKKIKDCNFELACKEKELGFVRKRIGVCNSELQSKEDELNLVKNSAEKWPKRLNLKK 161
           +  E ++KD        EKE   + + I   +S+L   E E   +K   E +       K
Sbjct: 576 ISAEARVKDI-------EKENKILHESIKETSSKLSKIEFEKRQIKKELEHY-------K 621

Query: 162 EKQKRLESLDGEVRESEKELVLMKEQKASIRAMIEACTEKLEAIEESYDAVKAKLESEKR 221
           EK +R E L+ E+   EKE  L++++  +++     C EK+EA+E+      ++LE E R
Sbjct: 622 EKGERAEELENELHHLEKENELLQKKITNLKI---TC-EKIEALEQE----NSELERENR 673

Query: 222 ELELTQTFMKDLLVKLR-LYEDNLQSLQSTVRLREN--ELEC---KEKELELKEREFCRI 275
           +L+ T    K+L  +L  L ++N Q  +  + LR N   L+C   K  +L+L+ +E    
Sbjct: 674 KLKKTLDSFKNLTFQLESLEKENSQLDEENLELRRNVESLKCASMKMAQLQLENKELESE 733

Query: 276 QERIEESSQELLLKENQLKSVLACIEDCSKEDQVKEKELISVGKSIRQFEERVREFELRE 335
           +E++++  + L     + + +    +    E+Q  +K L +  K I+Q E  +++ E+  
Sbjct: 734 KEQLKKGLELLKASFKKTERLEVSYQGLDIENQRLQKTLENSNKKIQQLESELQDLEM-- 791

Query: 336 REFDSLRKAVED---SSKNLE 353
            E  +L+K +E+   SSK LE
Sbjct: 792 -ENQTLQKNLEELKISSKRLE 811


>sp|Q8TXI4|RAD50_METKA DNA double-strand break repair Rad50 ATPase OS=Methanopyrus
           kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC
           100938) GN=rad50 PE=3 SV=1
          Length = 876

 Score = 33.9 bits (76), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 46/161 (28%), Positives = 86/161 (53%), Gaps = 14/161 (8%)

Query: 151 EKWPKRLNLKKEKQKRLESLDGEVRESEKELVLMKEQKASIRAMIEACTEKLEAIEESYD 210
           E+  +RLN  +E ++  E L+GE+R  E ++  +K ++  +R ++E   E    ++   D
Sbjct: 223 EELKERLNELREAKREFERLEGELRLLENKIESLKGRRDDLRKLVEEGKEAERELQRLGD 282

Query: 211 AVKAKLESEKRELELTQTFMKDLLVKLRLYEDNLQSLQSTVRLRENELECKEKEL-ELKE 269
                + S+ RELE  +  ++  + +LR   D+L+SL++ +   E ELE  ++EL ELK+
Sbjct: 283 -----VPSKVRELENEEAELRRRIEELRNLLDDLRSLRNRLESAEEELEGVKRELEELKD 337

Query: 270 ------REFCRIQERIEESSQEL--LLKENQLKSVLACIED 302
                       +++I E+S+ L  L +E +LK  L  + D
Sbjct: 338 EAGVDPERLVEFKDKIVEASERLRDLRREEELKRKLEKVSD 378


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.317    0.133    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 215,743,234
Number of Sequences: 539616
Number of extensions: 8872985
Number of successful extensions: 66924
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 619
Number of HSP's successfully gapped in prelim test: 2870
Number of HSP's that attempted gapping in prelim test: 47397
Number of HSP's gapped (non-prelim): 11173
length of query: 645
length of database: 191,569,459
effective HSP length: 124
effective length of query: 521
effective length of database: 124,657,075
effective search space: 64946336075
effective search space used: 64946336075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 65 (29.6 bits)