Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= DrC_03047
(510 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|P32337|IMB3_YEAST Importin beta-3 subunit (Karyopherin b... 32 1.1
sp|Q9W252|RAD50_DROME DNA repair protein RAD50 30 2.5
sp|P36954|RPB9_HUMAN DNA-directed RNA polymerase II 14.5 kD... 30 4.3
sp|P43246|MSH2_HUMAN DNA mismatch repair protein Msh2 (MutS... 28 9.6
sp|Q9ER63|TNR23_MOUSE Tumor necrosis factor receptor superf... 28 9.6
>sp|P32337|IMB3_YEAST Importin beta-3 subunit (Karyopherin beta-3 subunit) (Protein
secretion enhancer 1)
Length = 1089
Score = 31.6 bits (70), Expect = 1.1
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Frame = +1
Query: 211 LLQKACEQCPPSQFTAIMLKNVTHRVAEIEAQ--SKRLQTMMTNRTDWNENKIT 366
L +K + PPS IM KN+TH E+ AQ S L+ ++ R D +K++
Sbjct: 70 LFRKLALKAPPSSKLMIMSKNITHIRKEVLAQIRSSLLKGFLSERADSIRHKLS 123
>sp|Q9W252|RAD50_DROME DNA repair protein RAD50
Length = 1318
Score = 30.4 bits (67), Expect = 2.5
Identities = 15/67 (22%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Frame = +1
Query: 187 KKGDKQCNLLQKACEQCP----PSQFTAIMLKNVTHRVAEIEAQSKRLQTMMTNRTDWNE 354
+K ++C+ ++ C +C P + + ++NV + + +AQ + T N D
Sbjct: 235 QKAQRKCDAIKAQCSECEEEMKPIEARLVEIRNVEFEIGKYQAQKVEMDTKHKNCKDQIS 294
Query: 355 NKITKIK 375
KIK
Sbjct: 295 TLTLKIK 301
>sp|P36954|RPB9_HUMAN DNA-directed RNA polymerase II 14.5 kDa polypeptide (RPB9)
(RPB14.5)
sp|P60899|RPB9_PIG DNA-directed RNA polymerase II 14.5 kDa polypeptide (RPB9)
(RPB14.5)
sp|P60898|RPB9_MOUSE DNA-directed RNA polymerase II 14.5 kDa polypeptide (RPB9)
(RPB14.5)
Length = 125
Score = 29.6 bits (65), Expect = 4.3
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Frame = +1
Query: 160 CDSFQSVCYKKGDKQCNLLQKACEQCPPSQ---FTAIMLKNVTHRVAEI 297
C ++ Y K DK+ +L AC C Q + I + +TH V E+
Sbjct: 17 CQECNNMLYPKEDKENRILLYACRNCDYQQEADNSCIYVNKITHEVDEL 65
>sp|P43246|MSH2_HUMAN DNA mismatch repair protein Msh2 (MutS protein homolog 2)
Length = 934
Score = 28.5 bits (62), Expect = 9.6
Identities = 14/72 (19%), Positives = 36/72 (50%), Gaps = 3/72 (4%)
Frame = +1
Query: 100 CEKPRSLCTPDFPFLAPDLGCDSFQSV---CYKKGDKQCNLLQKACEQCPPSQFTAIMLK 270
C K ++L +F ++ G D + CY + ++ ++Q+ + FT + +
Sbjct: 843 CAKQKALELEEFQYIGESQGYDIMEPAAKKCYLEREQGEKIIQEFLSKVKQMPFTEMSEE 902
Query: 271 NVTHRVAEIEAQ 306
N+T ++ +++A+
Sbjct: 903 NITIKLKQLKAE 914
>sp|Q9ER63|TNR23_MOUSE Tumor necrosis factor receptor superfamily member 23 precursor
(Tumor necrosis factor receptor p60 homolog 1) (TNF
receptor family member SOB) (Decoy TRAIL receptor 1)
(TNF receptor homolog 1)
Length = 176
Score = 28.5 bits (62), Expect = 9.6
Identities = 19/68 (27%), Positives = 31/68 (45%)
Frame = +1
Query: 52 MLVFTVFLYFLIDFANCEKPRSLCTPDFPFLAPDLGCDSFQSVCYKKGDKQCNLLQKACE 231
+L+ + L+ + FA E C PD + + D+ C + S + K + Q CE
Sbjct: 15 LLLLLLNLFLPVIFAMPESYSFNC-PDGEYQSNDVCCKTCPSGTFVKAPCKIPHTQGQCE 73
Query: 232 QCPPSQFT 255
+C P FT
Sbjct: 74 KCHPGTFT 81
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,225,369
Number of Sequences: 369166
Number of extensions: 907163
Number of successful extensions: 2414
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 2362
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 2414
length of database: 68,354,980
effective HSP length: 103
effective length of database: 49,327,275
effective search space used: 3255600150
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)