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_012_N19
(845 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|Q9UTN3|CID14_SCHPO Topoisomerase 1-related protein cid14... 50 1e-05
sp|Q9UT49|CID13_SCHPO Poly(A) polymerase cid13 (PAP) (Polyn... 49 1e-05
sp|P53632|TRF4_YEAST Topoisomerase 1-related protein TRF4 47 5e-05
sp|Q5BLK4|ZCHC6_MOUSE Zinc finger CCHC domain containing pr... 42 0.002
sp|Q5VYS8|ZCHC6_HUMAN Zinc finger CCHC domain containing pr... 42 0.003
sp|Q06461|SECA_ANTSP Preprotein translocase secA subunit 34 0.45
sp|O13833|CID1_SCHPO Caffeine-induced death protein 1 33 0.76
sp|Q24142|HR78_DROME Nuclear hormone receptor HR78 (dHR78) ... 32 1.7
sp|P23097|MMP13_RAT Collagenase 3 precursor (Matrix metallo... 31 3.8
sp|Q7P207|HEM3_CHRVO Porphobilinogen deaminase (PBG) (Hydro... 30 8.4
>sp|Q9UTN3|CID14_SCHPO Topoisomerase 1-related protein cid14 (Caffeine-induced death
protein 14)
Length = 684
Score = 49.7 bits (117), Expect = 1e-05
Identities = 43/176 (24%), Positives = 83/176 (47%), Gaps = 3/176 (1%)
Frame = +3
Query: 150 FYNFYRISEEDLELRKCYANYVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINNS 329
F ++ + E+ +RK + +N + ++P++ L + GS + L SDLD+ II+
Sbjct: 248 FIDYITPTPEEHAVRKTLVSRINQAVLQKWPDVSLYVFGSFETKLYLPTSDLDLVIISPE 307
Query: 330 D---SGKLDILRSVKNALEFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDISICNDKMVS 500
K D+ + + L V+ + + PI + DPL ++VDIS ++
Sbjct: 308 HHYRGTKKDMFVLAHHLKKLKLASEVQV-ITTANVPIIKFVDPLTKVHVDISF--NQPGG 364
Query: 501 LQMNRILRHICECCDFFAPLCMFIKQIYLSKSVIHEHPSPSFTGFKIVSLIISFLQ 668
L+ ++ + PL + IK +L+ ++E + + IV L++SFLQ
Sbjct: 365 LKTCLVVNGFMKKYPALRPLVIIIKH-FLNMRALNEVFLGGLSSYAIVCLVVSFLQ 419
>sp|Q9UT49|CID13_SCHPO Poly(A) polymerase cid13 (PAP) (Polynucleotide adenylyltransferase)
Length = 578
Score = 49.3 bits (116), Expect = 1e-05
Identities = 50/197 (25%), Positives = 85/197 (43%), Gaps = 4/197 (2%)
Frame = +3
Query: 114 LNASSLSEGMTLFYNFYRISEEDLELRKCYANYVNSILQWRYP--NLRLEIMGSTTSGLG 287
++ +S + Y+ +++ LE R + + IL+ +P N++ + GST S L
Sbjct: 46 IDTDLISSQLYELYDSIILNDSGLERRYAFVQKLEQILKKEFPYKNIKTSLFGSTQSLLA 105
Query: 288 KINSDLDMGIINNSDSGKLDILRSVKNALEFNLLYRVKPRVLNCSHPICNYFDPLLNLNV 467
SD+D+ II + V A N L +V + PI +D L L+
Sbjct: 106 SNASDIDLCIITDPPQ-CAPTTCEVSAAFARNGLKKV-VCISTAKVPIVKVWDSELQLSC 163
Query: 468 DISICNDKMVSLQMNRILRHICECCDFFAPLCMFIKQIYLSKSVIHEHPSPSFTGFKIVS 647
D +I +K +S R++R C PL + IK + + + T + I
Sbjct: 164 DCNI--NKTISTLNTRLMRSYVLCDPRVRPLIVMIKYWAKRRCLNDAAEGGTLTSYTISC 221
Query: 648 LIISFLQHRG--FLPGL 692
++I+FLQ R LP L
Sbjct: 222 MVINFLQKRDPPILPSL 238
>sp|P53632|TRF4_YEAST Topoisomerase 1-related protein TRF4
Length = 584
Score = 47.4 bits (111), Expect = 5e-05
Identities = 44/209 (21%), Positives = 95/209 (45%), Gaps = 4/209 (1%)
Frame = +3
Query: 150 FYNFYRISEEDLELRKCYANYVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINNS 329
F + S E++E+R + + ++ +P+ L + GS ++ L SD+D ++ +
Sbjct: 186 FVAYISPSREEIEIRNQTISTIREAVKQLWPDADLHVFGSYSTDLYLPGSDIDC-VVTSE 244
Query: 330 DSGK--LDILRSVKNALEFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDISICNDKMVSL 503
GK + L S+ + L+ L V PI + +P +++D+S ++ +
Sbjct: 245 LGGKESRNNLYSLASHLKKKNLATEVEVVAKARVPIIKFVEPHSGIHIDVSF--ERTNGI 302
Query: 504 QMNRILRHICECCDFFAPLCMFIKQIYLSKSVIHEHPSPSFTGFKIVSLIISFLQHRGFL 683
+ +++R + L + +KQ ++ + + H + GF I+ L+ SFL
Sbjct: 303 EAAKLIREWLDDTPGLRELVLIVKQFLHARRLNNVH-TGGLGGFSIICLVFSFL------ 355
Query: 684 PGLDNIHVNLVKTADQPK--LETLLMDFY 764
++H ++ PK L LL++F+
Sbjct: 356 ----HMHPRIITNEIDPKDNLGVLLIEFF 380
>sp|Q5BLK4|ZCHC6_MOUSE Zinc finger CCHC domain containing protein 6
Length = 1491
Score = 42.0 bits (97), Expect = 0.002
Identities = 42/172 (24%), Positives = 76/172 (44%), Gaps = 8/172 (4%)
Frame = +3
Query: 213 VNSILQWRYPNLRLEIMGSTTSGLGKINSDLD--MGIINNSDSGKLDILRSVKNAL---- 374
+ S ++ +P +L + GS+ +G G SDLD M I + + LD +R+++
Sbjct: 1025 LESFIKQDFPGTKLSLFGSSKNGFGFKQSDLDVCMTINGHETAEGLDCVRTIEELARVLR 1084
Query: 375 EFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDISICNDKMVSLQMNRILRHICECCDFFA 554
+ + L + P + PI +F L VDIS+ N ++L R+L
Sbjct: 1085 KHSGLRNILP-ITTAKVPIVKFFHLRSGLEVDISLYN--TLALHNTRLLSAYSAIDPRVK 1141
Query: 555 PLCMFIKQIYLSKSVIHEHPSPSFTGFKIVSLIISFLQHRG--FLPGLDNIH 704
LC +K ++ I + S + + +++ FLQ R +P L I+
Sbjct: 1142 YLCYTMK-VFTKMCDIGDASRGSLSSYAYTLMVLYFLQQRSPPVIPVLQEIY 1192
>sp|Q5VYS8|ZCHC6_HUMAN Zinc finger CCHC domain containing protein 6
Length = 1495
Score = 41.6 bits (96), Expect = 0.003
Identities = 42/172 (24%), Positives = 79/172 (45%), Gaps = 8/172 (4%)
Frame = +3
Query: 213 VNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGI-INNSDSGK-LDILRSVKNAL---- 374
+ S ++ +P +L + GS+ +G G SDLD+ + IN ++ + LD +R+++
Sbjct: 1029 LESFIRQDFPGTKLSLFGSSKNGFGFKQSDLDVCMTINGLETAEGLDCVRTIEELARVLR 1088
Query: 375 EFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDISICNDKMVSLQMNRILRHICECCDFFA 554
+ + L + P + PI +F L VDIS+ N ++L R+L
Sbjct: 1089 KHSGLRNILP-ITTAKVPIVKFFHLRSGLEVDISLYN--TLALHNTRLLSAYSAIDPRVK 1145
Query: 555 PLCMFIKQIYLSKSVIHEHPSPSFTGFKIVSLIISFLQHRG--FLPGLDNIH 704
LC +K ++ I + S + + +++ FLQ R +P L I+
Sbjct: 1146 YLCYTMK-VFTKMCDIGDASRGSLSSYAYTLMVLYFLQQRNPPVIPVLQEIY 1196
Score = 33.5 bits (75), Expect = 0.76
Identities = 20/72 (27%), Positives = 38/72 (52%)
Frame = +3
Query: 162 YRISEEDLELRKCYANYVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINNSDSGK 341
+ + E+LE R + ++ Q + P+ L + GS+ S LG NSD+++ I + +
Sbjct: 306 FGLHNENLEQRLEIKRIMENVFQHKLPDCSLRLYGSSCSRLGFKNSDVNIDIQFPAIMSQ 365
Query: 342 LDILRSVKNALE 377
D+L V+ L+
Sbjct: 366 PDVLLLVQECLK 377
>sp|Q06461|SECA_ANTSP Preprotein translocase secA subunit
Length = 878
Score = 34.3 bits (77), Expect = 0.45
Identities = 25/83 (30%), Positives = 38/83 (45%)
Frame = +3
Query: 210 YVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINNSDSGKLDILRSVKNALEFNLL 389
++N IL N +I T L IN+ L +INN D DI +S+ N + N++
Sbjct: 505 HINKILNLTQYNTNYKIENEITYILNSINNTL---LINNIDINSQDISQSINNIINNNMI 561
Query: 390 YRVKPRVLNCSHPICNYFDPLLN 458
K S+ I N + +LN
Sbjct: 562 QDAK------SYKISNIYKIVLN 578
>sp|O13833|CID1_SCHPO Caffeine-induced death protein 1
Length = 405
Score = 33.5 bits (75), Expect = 0.76
Identities = 46/244 (18%), Positives = 97/244 (39%), Gaps = 27/244 (11%)
Frame = +3
Query: 153 YNFYRISEEDLELRKCYANYVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINN-- 326
YN +IS+++ + ++ + + L+ P+ L GS SGL NSD+D+ ++ +
Sbjct: 52 YNEIKISDKEFKEKRAALDTLRLCLKRISPDAELVAFGSLESGLALKNSDMDLCVLMDSR 111
Query: 327 --SDSGKLDILRS-VKNALEFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDISICNDKMV 497
SD+ L + E L R + ++ + N F + DI N +
Sbjct: 112 VQSDTIALQFYEELIAEGFEGKFLQRARIPIIKLTSDTKNGFG--ASFQCDIGFNN--RL 167
Query: 498 SLQMNRILRHICECCDFFAPLCMFIKQIYLSKSVIHEHPSPSFTGFKIVSLIISFLQH-- 671
++ +L + P+ + +K + + I+ + + + V +++ +L H
Sbjct: 168 AIHNTLLLSSYTKLDARLKPMVLLVKH-WAKRKQINSPYFGTLSSYGYVLMVLYYLIHVI 226
Query: 672 -------------------RGFLPGLDNIHVNLVKTADQPKLETLLMDFYRF-IIDFKPN 791
GF G D+ ++ + + L +LL F+RF F+P
Sbjct: 227 KPPVFPNLLLSPLKQEKIVDGFDVGFDDKLEDIPPSQNYSSLGSLLHGFFRFYAYKFEPR 286
Query: 792 AYII 803
++
Sbjct: 287 EKVV 290
>sp|Q24142|HR78_DROME Nuclear hormone receptor HR78 (dHR78) (Nuclear receptor XR78E/F)
Length = 601
Score = 32.3 bits (72), Expect = 1.7
Identities = 20/45 (44%), Positives = 26/45 (57%)
Frame = +3
Query: 270 TTSGLGKINSDLDMGIINNSDSGKLDILRSVKNALEFNLLYRVKP 404
TTS +G I S LDM +I+ L IL+ ++N LE N VKP
Sbjct: 283 TTSTMGLIQSSLDMRVIHKG----LQILQPIQNQLERNGNLSVKP 323
>sp|P23097|MMP13_RAT Collagenase 3 precursor (Matrix metalloproteinase-13) (MMP-13)
(UMRCASE)
Length = 466
Score = 31.2 bits (69), Expect = 3.8
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 1/104 (0%)
Frame = +3
Query: 168 ISEEDLELRKCYA-NYVNSILQWRYPNLRLEIMGSTTSGLGKINSDLDMGIINNSDSGKL 344
+SEEDLE + Y +Y + + L+ + ST L ++ S + + D L
Sbjct: 26 LSEEDLEFAEHYLKSYYHPVTLAGI--LKKSTVTSTVDRLREMQSFFGLDVTGKLDDPTL 83
Query: 345 DILRSVKNALEFNLLYRVKPRVLNCSHPICNYFDPLLNLNVDIS 476
DI+R + + +Y V PR L S Y ++N DIS
Sbjct: 84 DIMRKPRCGVPDVGVYNVFPRTLKWSQTNLTY--RIVNYTPDIS 125
>sp|Q7P207|HEM3_CHRVO Porphobilinogen deaminase (PBG) (Hydroxymethylbilane synthase)
(HMBS) (Pre-uroporphyrinogen synthase)
Length = 309
Score = 30.0 bits (66), Expect = 8.4
Identities = 14/38 (36%), Positives = 22/38 (57%)
Frame = +3
Query: 168 ISEEDLELRKCYANYVNSILQWRYPNLRLEIMGSTTSG 281
I+ + L A ++ + LQ YP+L +EI+G TT G
Sbjct: 6 IASRESRLAMWQAEHIQARLQALYPHLTVEILGMTTQG 43
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: 94,868,214
Number of Sequences: 369166
Number of extensions: 1929266
Number of successful extensions: 3988
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3895
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): 3988
length of database: 68,354,980
effective HSP length: 109
effective length of database: 48,218,865
effective search space used: 8293644780
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)