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= Dr_sW_001_J14
(930 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q99LI9|CLP1_MOUSE Pre-mRNA cleavage complex II protein Clp1 172 2e-42
sp|Q92989|CLP1_HUMAN Pre-mRNA cleavage complex II protein Clp1 171 2e-42
sp|P52874|YMI4_CAEEL Hypothetical protein F59A2.4 in chromo... 157 3e-38
sp|Q10299|YD45_SCHPO Hypothetical protein C22H10.05c in chr... 114 5e-25
sp|Q9UU96|GRC3_SCHPO Protein grc3 42 0.002
sp|Q5SY16|NOL9_HUMAN Nucleolar protein 9 42 0.002
sp|Q4IR18|GRC3_GIBZE Protein GRC3 35 0.30
sp|Q92II6|HSLU_RICCN ATP-dependent hsl protease ATP-binding... 34 0.51
sp|Q68X52|HSLU_RICTY ATP-dependent hsl protease ATP-binding... 34 0.67
sp|Q9ZDK8|HSLU_RICPR ATP-dependent hsl protease ATP-binding... 34 0.67
>sp|Q99LI9|CLP1_MOUSE Pre-mRNA cleavage complex II protein Clp1
Length = 425
Score = 172 bits (435), Expect = 2e-42
Identities = 96/271 (35%), Positives = 158/271 (58%), Gaps = 2/271 (0%)
Frame = +3
Query: 21 ECTSLTTIKLVEGSAELFGTELSTKGALTLQQGFLGTILTFFGCTLKYTQNTIIQFIVGF 200
E + ++L+ G AE+FGTEL+ T G + T+ GC+L+ + T + ++
Sbjct: 28 EASQSVQLELLAGMAEIFGTELTRNKKFTFDAGAKVAVFTWHGCSLQLSGRTEVAYV--- 84
Query: 201 NEDQELPNV-YINFHAALEKIRSNANNDI-RGPRLMVCGNESVGKTTLCRILSNYAARKY 374
++ P + Y+N H ALE++R A + RGPR+MV G VGK+T+CR+L NYA R
Sbjct: 85 --SKDTPMLLYLNTHTALEQMRRQAEKEEERGPRVMVVGPTDVGKSTVCRLLLNYAVRLG 142
Query: 375 RKVILIDANVAMNDICIPGSIGALIVTKPYEVVEGWDIFEDPLIYSFGHLSPVENLKLFS 554
R+ ++ +V + IPG++GAL + +P +V EG+ I + PL+Y FG +P N+KL++
Sbjct: 143 RRPTYVELDVGQGSVSIPGTMGALYIERPADVEEGFSI-QAPLVYHFGSTTPGTNIKLYN 201
Query: 555 LQLNNLAELVNIRSENDPDVFAGGCIINMSGVSKSDDCGESQKKGIEAIRAAISAFEVNV 734
+ LA++ N R E + GC+IN CG + G +A+ A SAFEV+V
Sbjct: 202 KITSRLADVFNQRCEVNRRASVSGCVIN--------TCGWVKGYGYQALVHAASAFEVDV 253
Query: 735 LIIIEDGFLESLLRKDLPEYVSVIRIPKSSG 827
+++++ L + L++DLP +V + +PKS G
Sbjct: 254 VVVLDQERLYNELKRDLPHFVRTVLLPKSGG 284
>sp|Q92989|CLP1_HUMAN Pre-mRNA cleavage complex II protein Clp1
Length = 425
Score = 171 bits (434), Expect = 2e-42
Identities = 95/271 (35%), Positives = 158/271 (58%), Gaps = 2/271 (0%)
Frame = +3
Query: 21 ECTSLTTIKLVEGSAELFGTELSTKGALTLQQGFLGTILTFFGCTLKYTQNTIIQFIVGF 200
E + ++L+ G AE+FGTEL+ T G + T+ GC+++ + T + ++
Sbjct: 28 EASQSVQLELLTGMAEIFGTELTRNKKFTFDAGAKVAVFTWHGCSVQLSGRTEVAYV--- 84
Query: 201 NEDQELPNV-YINFHAALEKIRSNANNDI-RGPRLMVCGNESVGKTTLCRILSNYAARKY 374
++ P + Y+N H ALE++R A + RGPR+MV G VGK+T+CR+L NYA R
Sbjct: 85 --SKDTPMLLYLNTHTALEQMRRQAEKEEERGPRVMVVGPTDVGKSTVCRLLLNYAVRLG 142
Query: 375 RKVILIDANVAMNDICIPGSIGALIVTKPYEVVEGWDIFEDPLIYSFGHLSPVENLKLFS 554
R+ ++ +V + IPG++GAL + +P +V EG+ I + PL+Y FG +P N+KL++
Sbjct: 143 RRPTYVELDVGQGSVSIPGTMGALYIERPADVEEGFSI-QAPLVYHFGSTTPGTNIKLYN 201
Query: 555 LQLNNLAELVNIRSENDPDVFAGGCIINMSGVSKSDDCGESQKKGIEAIRAAISAFEVNV 734
+ LA++ N R E + GC+IN CG + G +A+ A SAFEV+V
Sbjct: 202 KITSRLADVFNQRCEVNRRASVSGCVIN--------TCGWVKGSGYQALVHAASAFEVDV 253
Query: 735 LIIIEDGFLESLLRKDLPEYVSVIRIPKSSG 827
+++++ L + L++DLP +V + +PKS G
Sbjct: 254 VVVLDQERLYNELKRDLPHFVRTVLLPKSGG 284
>sp|P52874|YMI4_CAEEL Hypothetical protein F59A2.4 in chromosome III
Length = 428
Score = 157 bits (398), Expect = 3e-38
Identities = 92/270 (34%), Positives = 149/270 (55%), Gaps = 8/270 (2%)
Frame = +3
Query: 42 IKLVEGSAELFGTELSTKGALTLQQGFLGTILTFFGCTLKYTQNTIIQFIVGFNEDQELP 221
++LV+G AE+FGTEL T T+ G T++ T ++ + P
Sbjct: 29 LELVKGYAEIFGTELLLNKKYTFPAKSRVAAFTWKGATIELVGTTESAYVA-----ESTP 83
Query: 222 NV-YINFHAALEKIRSNA-------NNDIRGPRLMVCGNESVGKTTLCRILSNYAARKYR 377
V Y+N HAA+E++R +N +GPRL++ G VGKTT+ RIL NY+ R+ R
Sbjct: 84 MVIYLNIHAAMEEVRKKREEQAAGNSNKAKGPRLLLVGPTDVGKTTVSRILCNYSVRQGR 143
Query: 378 KVILIDANVAMNDICIPGSIGALIVTKPYEVVEGWDIFEDPLIYSFGHLSPVENLKLFSL 557
I ++ +V N + +PG++ A++V K +V++G++ P++++FGH SP NL L+
Sbjct: 144 TPIFVELDVGQNSVSVPGTVAAVLVQKTADVIDGFE-RNQPIVFNFGHTSPSANLSLYEA 202
Query: 558 QLNNLAELVNIRSENDPDVFAGGCIINMSGVSKSDDCGESQKKGIEAIRAAISAFEVNVL 737
+A +N + + + + GG IIN CG +G + I A SAFEV+V+
Sbjct: 203 LFKEMATTLNAQIQENDEAKIGGMIIN--------TCGWVDGEGYKCIVKAASAFEVDVV 254
Query: 738 IIIEDGFLESLLRKDLPEYVSVIRIPKSSG 827
I+++ L S L K+LPE+V + +PKS G
Sbjct: 255 IVLDHERLYSDLSKELPEFVRLTHVPKSGG 284
>sp|Q10299|YD45_SCHPO Hypothetical protein C22H10.05c in chromosome I
Length = 456
Score = 114 bits (284), Expect = 5e-25
Identities = 83/288 (28%), Positives = 143/288 (49%), Gaps = 26/288 (9%)
Frame = +3
Query: 42 IKLVEGSAELFGTELSTKGALTLQQGFLGTILTFFGCTLKYTQNTIIQFIVGFNEDQELP 221
I+LV G+AE FGTEL+ + G I T+ GCTL+ ++++ +E P
Sbjct: 23 IRLVSGNAEYFGTELALGPPYHFTR-VKGAIYTWQGCTLEVEGEPSVEYVA-----EETP 76
Query: 222 -NVYINFHAALEKIRSNANNDIR------GPRLMVCGNESVGKTTLCRILSNYAARKYRK 380
+ Y+N H ALE +R A N GP + + G S GKT++ +IL +YA ++ R
Sbjct: 77 MSTYLNLHFALEGLRLQAENAAANDESSYGPCVCLIGPRSCGKTSVLKILESYALKQSRH 136
Query: 381 VILIDANVAMNDICIPGSI-----------------GALIVTKPYEVVEGWDIFEDPLIY 509
I ++ + + +PGSI GA T P V+ + PL+Y
Sbjct: 137 PICVNLDPTQPMLALPGSISAFHNATILDIQDADGFGASTSTGPTHVLA-----KVPLVY 191
Query: 510 SFGHLSPVENLKLFSLQLNNLAELVNIRSENDPDVFAGGCIINMSGVSKSDDCGESQKKG 689
+FG SP++N KL+ L L+ LA V+ R D GC+++ S + E+ +K
Sbjct: 192 NFGLDSPLDNPKLYKLSLSRLALAVHSRMSQSKDARVSGCLVDTSSIQ------ENAEKY 245
Query: 690 IEAIRAAISAFEVNVLIIIEDGFLESLLRKDLPE--YVSVIRIPKSSG 827
+ + + I+ F +N++I++ L S +++ + ++SV+++ S G
Sbjct: 246 QDILHSIITDFRINIIIVLGSERLYSSMKRKYADATWLSVVKVSSSGG 293
>sp|Q9UU96|GRC3_SCHPO Protein grc3
Length = 736
Score = 42.4 bits (98), Expect = 0.002
Identities = 19/68 (27%), Positives = 35/68 (51%)
Frame = +3
Query: 264 SNANNDIRGPRLMVCGNESVGKTTLCRILSNYAARKYRKVILIDANVAMNDICIPGSIGA 443
S + +D PRLMVCG + GK++ R ++N ++YR + +D + ++ G I
Sbjct: 323 STSKSDYVVPRLMVCGPKGSGKSSFSRYITNRLLQQYRHIAYLDLDPGQPEVVPSGHISL 382
Query: 444 LIVTKPYE 467
+ P +
Sbjct: 383 YYINSPLQ 390
>sp|Q5SY16|NOL9_HUMAN Nucleolar protein 9
Length = 702
Score = 42.0 bits (97), Expect = 0.002
Identities = 22/74 (29%), Positives = 42/74 (56%), Gaps = 1/74 (1%)
Frame = +3
Query: 243 AALEKIRSNANNDIRG-PRLMVCGNESVGKTTLCRILSNYAARKYRKVILIDANVAMNDI 419
+ALE++ + + ++ G P ++VCG++ VGK+T R L N+ V ++ ++ +
Sbjct: 283 SALEELVNVSCEEVDGCPVILVCGSQDVGKSTFNRYLINHLLNSLPCVDYLECDLGQTEF 342
Query: 420 CIPGSIGALIVTKP 461
PG I L +T+P
Sbjct: 343 TPPGCISLLNITEP 356
>sp|Q4IR18|GRC3_GIBZE Protein GRC3
Length = 796
Score = 35.0 bits (79), Expect = 0.30
Identities = 17/60 (28%), Positives = 31/60 (51%), Gaps = 6/60 (10%)
Frame = +3
Query: 300 MVCGNESVGKTTLCRILSN------YAARKYRKVILIDANVAMNDICIPGSIGALIVTKP 461
++CG +S GK+T R+ N + R V+++D + + PG++ + VTKP
Sbjct: 282 LICGPKSAGKSTFSRLFLNGLLTDRSQKQGARSVVILDLDPGQPEYAPPGTLSLVFVTKP 341
>sp|Q92II6|HSLU_RICCN ATP-dependent hsl protease ATP-binding subunit hslU
Length = 450
Score = 34.3 bits (77), Expect = 0.51
Identities = 18/79 (22%), Positives = 37/79 (46%)
Frame = +3
Query: 147 GCTLKYTQNTIIQFIVGFNEDQELPNVYINFHAALEKIRSNANNDIRGPRLMVCGNESVG 326
G T N + +FIVG + ++ + + +++ N N+I +++ G+ VG
Sbjct: 14 GLTPSQIVNELNRFIVGQEKAKKAVAIALRNRCRRKRVEGNLRNEIVPKNILMIGSTGVG 73
Query: 327 KTTLCRILSNYAARKYRKV 383
KT + R L+ + K+
Sbjct: 74 KTEIARRLAKLTNSPFYKI 92
>sp|Q68X52|HSLU_RICTY ATP-dependent hsl protease ATP-binding subunit hslU
Length = 450
Score = 33.9 bits (76), Expect = 0.67
Identities = 18/79 (22%), Positives = 38/79 (48%)
Frame = +3
Query: 147 GCTLKYTQNTIIQFIVGFNEDQELPNVYINFHAALEKIRSNANNDIRGPRLMVCGNESVG 326
G T N + +FIVG ++ ++ + + +++ N N+I +++ G+ VG
Sbjct: 14 GLTPSQIVNELNRFIVGQDKAKKAVAIALRNRYRRKRVEGNLRNEIVPKNILMIGSTGVG 73
Query: 327 KTTLCRILSNYAARKYRKV 383
KT + R L+ + K+
Sbjct: 74 KTEIARRLAKLTNSPFYKI 92
>sp|Q9ZDK8|HSLU_RICPR ATP-dependent hsl protease ATP-binding subunit hslU
Length = 450
Score = 33.9 bits (76), Expect = 0.67
Identities = 18/79 (22%), Positives = 38/79 (48%)
Frame = +3
Query: 147 GCTLKYTQNTIIQFIVGFNEDQELPNVYINFHAALEKIRSNANNDIRGPRLMVCGNESVG 326
G T N + +FIVG ++ ++ + + +++ N N+I +++ G+ VG
Sbjct: 14 GLTPSQIVNELNRFIVGQDKAKKAVAIALRNRYRRKRVEGNLRNEIVPKNILMIGSTGVG 73
Query: 327 KTTLCRILSNYAARKYRKV 383
KT + R L+ + K+
Sbjct: 74 KTEIARRLAKLTNSPFYKI 92
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: 100,177,330
Number of Sequences: 369166
Number of extensions: 1948400
Number of successful extensions: 6292
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 6034
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): 6277
length of database: 68,354,980
effective HSP length: 110
effective length of database: 48,034,130
effective search space used: 9558791870
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)