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_017_M20
(526 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O54853|KCNH6_RAT Potassium voltage-gated channel subfami... 38 0.013
sp|O74502|MSH6_SCHPO DNA mismatch repair protein msh6 38 0.017
sp|P23253|TCNA_TRYCR Sialidase (Neuraminidase) (NA) (Major ... 35 0.084
sp|Q6FSW2|RAD52_CANGA DNA repair and recombination protein ... 34 0.25
sp|Q9WTW1|GRIP2_RAT Glutamate receptor interacting protein ... 32 0.71
sp|P08775|RPB1_MOUSE DNA-directed RNA polymerase II largest... 32 0.93
sp|P24928|RPB1_HUMAN DNA-directed RNA polymerase II largest... 32 0.93
sp|P11414|RPB1_CRIGR DNA-directed RNA polymerase II largest... 32 0.93
sp|Q9BYJ9|YTHD1_HUMAN YTH domain protein 1 (Dermatomyositis... 32 0.93
sp|Q9VXE5|PAKM_DROME Serine/threonine-protein kinase PAK mb... 32 1.2
>sp|O54853|KCNH6_RAT Potassium voltage-gated channel subfamily H member 6 (Voltage-gated
potassium channel subunit Kv11.2) (Ether-a-go-go related
gene potassium channel 2) (Ether-a-go-go related protein
2) (Eag related protein 2)
Length = 950
Score = 38.1 bits (87), Expect = 0.013
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Frame = +2
Query: 20 PESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIE---PDKKTRPIG 190
P + T S D+I+ P N+SP +PH + +MD +++P+ E P P+
Sbjct: 854 PSAQTLSYGDLDDHIQT-----PRNFSPRTPHVAMAMD--KTLVPSSEQEQPGGLLSPLA 906
Query: 191 APPRPISTHGHGAQR 235
+P RP+ G G R
Sbjct: 907 SPLRPLEVPGLGGSR 921
>sp|O74502|MSH6_SCHPO DNA mismatch repair protein msh6
Length = 1254
Score = 37.7 bits (86), Expect = 0.017
Identities = 31/108 (28%), Positives = 48/108 (44%), Gaps = 4/108 (3%)
Frame = +2
Query: 11 NSSPESSTYSQEKTPDNIKNTYK--AAPLNYSPGSP--HASKSMDNISSMIPAIEPDKKT 178
+SS S + DN N K ++P P SP HA+ +D+ SSM+P D +
Sbjct: 46 SSSNHDSNHDTPADVDNSSNVNKNSSSPERELPTSPSHHANTEIDSSSSMLPPPSSDPFS 105
Query: 179 RPIGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPSTIRKI 322
P+ + S H +RPH + G +P R S +P + +I
Sbjct: 106 SPLSS-----SLHRSSPKRPHDSLG-EESPGKLLRTSVKQEPDSEEEI 147
>sp|P23253|TCNA_TRYCR Sialidase (Neuraminidase) (NA) (Major surface antigen)
Length = 1162
Score = 35.4 bits (80), Expect = 0.084
Identities = 24/98 (24%), Positives = 42/98 (42%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKS--MDNISSMIPAIEPDKKTRPIGAP 196
+SS + TP + ++ + P + S H++ S +D+ + P+ D G P
Sbjct: 869 DSSAHGTPSTP--VDSSAHSTPSTPADSSAHSTPSTPVDSSAHSTPSTPADSSAH--GTP 924
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P+ + HG A S H P++ +S PST
Sbjct: 925 STPVDSSAHGTPSTPADSSAHSTPSTPADSSAHSTPST 962
Score = 34.7 bits (78), Expect = 0.14
Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 1/103 (0%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTP-DNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTR 181
+ +SS +SS +S TP D+ ++ + P++ S S ++ + D+ + P+ D
Sbjct: 587 HMDSSSDSSAHSTPSTPADSSAHSTPSTPVDSSAHSTPSTPA-DSSAHGTPSTPVDSSAH 645
Query: 182 PIGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
G P P + HG S H P++ +S PST
Sbjct: 646 --GTPSTPADSSAHGTPSTPVDSSAHSTPSTPVDSSAHSTPST 686
Score = 33.9 bits (76), Expect = 0.25
Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 1/97 (1%)
Frame = +2
Query: 23 ESSTYSQEKTP-DNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRPIGAPP 199
+SS + TP D+ ++ + P++ S S S +D+ + P+ D G P
Sbjct: 653 DSSAHGTPSTPVDSSAHSTPSTPVDSSAHST-PSTPVDSSAHGAPSTPADSSAH--GTPS 709
Query: 200 RPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P+ + HG A S H P++ +S PST
Sbjct: 710 TPVDSSAHGTPSTPADSSAHSTPSTPADSSAHSTPST 746
Score = 31.6 bits (70), Expect = 1.2
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTP-DNIKNTYKAAPLNYSP-GSPHASKSMDNISSMIPAIEPDKKTRPIGAP 196
+SS + TP D+ ++ + P++ S G+P S +D+ + P+ D G P
Sbjct: 785 DSSAHGTPSTPVDSSAHSTPSTPVDSSAHGTP--STPVDSSAHSTPSTPVDSSAH--GTP 840
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P+ + H A S H P++ +S PST
Sbjct: 841 STPVDSSAHSTPSTPADSSAHSTPSTPADSSAHGTPST 878
Score = 31.2 bits (69), Expect = 1.6
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSM--DNISSMIPAIEPDKKTRPIGAP 196
+SS + TP + ++ P + S H++ S D+ + P+ D P
Sbjct: 701 DSSAHGTPSTP--VDSSAHGTPSTPADSSAHSTPSTPADSSAHSTPSTPADSSAH--STP 756
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P+ + HG A S H P++ +S PST
Sbjct: 757 STPVDSSAHGTPSTPADSSAHSTPSTPADSSAHGTPST 794
Score = 31.2 bits (69), Expect = 1.6
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKS--MDNISSMIPAIEPDKKTRPIGAP 196
+SS +S TP + ++ P + S H++ S +D+ + P+ D G P
Sbjct: 1025 DSSAHSTPSTPAD--SSAHGTPSTPADSSAHSTPSTPVDSSAHSTPSTPADSSAH--GTP 1080
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P + H A S H P++ +S PST
Sbjct: 1081 STPADSSAHSTPSTPADSSAHGTPSTPADSSAHSTPST 1118
Score = 30.4 bits (67), Expect = 2.7
Identities = 24/97 (24%), Positives = 42/97 (43%), Gaps = 1/97 (1%)
Frame = +2
Query: 23 ESSTYSQEKTP-DNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRPIGAPP 199
+SS +S TP D+ ++ + P++ S S ++ + D+ + P+ D G P
Sbjct: 881 DSSAHSTPSTPADSSAHSTPSTPVDSSAHSTPSTPA-DSSAHGTPSTPVDSSAH--GTPS 937
Query: 200 RPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P + H A S H P++ +S PST
Sbjct: 938 TPADSSAHSTPSTPADSSAHSTPSTPADSSAHSTPST 974
Score = 30.4 bits (67), Expect = 2.7
Identities = 24/98 (24%), Positives = 40/98 (40%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSM--DNISSMIPAIEPDKKTRPIGAP 196
+SS +S TP + ++ + P + S H++ S D+ + P+ D P
Sbjct: 977 DSSAHSTPSTPAD--SSAHSTPSTPADSSAHSTPSTPADSSAHSTPSTPVDSSAH--STP 1032
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P + HG A S H P++ +S PST
Sbjct: 1033 STPADSSAHGTPSTPADSSAHSTPSTPVDSSAHSTPST 1070
Score = 29.6 bits (65), Expect = 4.6
Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 2/98 (2%)
Frame = +2
Query: 23 ESSTYSQEKTP-DNIKNTYKAAPLNYSP-GSPHASKSMDNISSMIPAIEPDKKTRPIGAP 196
+SS + TP D+ ++ + P++ S G+P S +D+ + P+ D P
Sbjct: 809 DSSAHGTPSTPVDSSAHSTPSTPVDSSAHGTP--STPVDSSAHSTPSTPADSSAH--STP 864
Query: 197 PRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
P + HG S H P++ +S PST
Sbjct: 865 STPADSSAHGTPSTPVDSSAHSTPSTPADSSAHSTPST 902
>sp|Q6FSW2|RAD52_CANGA DNA repair and recombination protein RAD52
Length = 505
Score = 33.9 bits (76), Expect = 0.25
Identities = 26/95 (27%), Positives = 39/95 (41%)
Frame = +2
Query: 8 FNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRPI 187
F S E S YS+ T DN K LN P +K N S+ PAI +
Sbjct: 169 FRPSDEISEYSRSNTIDNDNPAVKRQKLNNQNSIPDTNKVKYNGSAPAPAITYN------ 222
Query: 188 GAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSN 292
AP +P+ ++ +A +G N+ ++ N
Sbjct: 223 NAPKKPVQ-----SEERYAPNGSRGKENAQNKSEN 252
>sp|Q9WTW1|GRIP2_RAT Glutamate receptor interacting protein 2 (GRIP2 protein) (AMPA
receptor interacting protein GRIP2)
Length = 1043
Score = 32.3 bits (72), Expect = 0.71
Identities = 21/73 (28%), Positives = 30/73 (41%)
Frame = +2
Query: 95 YSPGSPHASKSMDNISSMIPAIEPDKKTRPIGAPPRPISTHGHGAQRPHATSGRHRNPNS 274
++PG S+S+ + P + P P ST G P T+GR R
Sbjct: 380 WAPGGQDQSRSVSSTPFSSPTMNP-------AFPCANASTLPRGPMSPRTTAGRRRQRRK 432
Query: 275 HKRNSNSLKPSTI 313
R+S SL ST+
Sbjct: 433 EHRSSLSLASSTV 445
>sp|P08775|RPB1_MOUSE DNA-directed RNA polymerase II largest subunit (RPB1)
Length = 1970
Score = 32.0 bits (71), Expect = 0.93
Identities = 30/104 (28%), Positives = 44/104 (42%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S +P + +Y +YSP SP+ S + N + P+ P T P
Sbjct: 1713 YSPTSPSYSPTSPSYSPTS--PSYSPTSPSYSPTSPNYSPTSPNYTPTSPSYSP---TSP 1767
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPSTIR 316
+P P T P + S +P S+ S S PS+ R
Sbjct: 1768 SYSPTSPNYTPTSPNYSPTSPSYSPTSP-SYSPTSPSYSPSSPR 1810
Score = 31.6 bits (70), Expect = 1.2
Identities = 27/102 (26%), Positives = 44/102 (43%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S TP + +Y +YSP SP+ + + N S P+ P T P
Sbjct: 1741 YSPTSPNYSPTSPNYTPTS--PSYSPTSPSYSPTSPNYTPTSPNYSPTSPSYSP---TSP 1795
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
+P P + P + + +P S+ +S S P++
Sbjct: 1796 SYSPTSPSYSPSSPRYTPQSPTYTPSSP-SYSPSSPSYSPTS 1836
>sp|P24928|RPB1_HUMAN DNA-directed RNA polymerase II largest subunit (RPB1)
Length = 1970
Score = 32.0 bits (71), Expect = 0.93
Identities = 30/104 (28%), Positives = 44/104 (42%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S +P + +Y +YSP SP+ S + N + P+ P T P
Sbjct: 1713 YSPTSPSYSPTSPSYSPTS--PSYSPTSPSYSPTSPNYSPTSPNYTPTSPSYSP---TSP 1767
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPSTIR 316
+P P T P + S +P S+ S S PS+ R
Sbjct: 1768 SYSPTSPNYTPTSPNYSPTSPSYSPTSP-SYSPTSPSYSPSSPR 1810
Score = 31.6 bits (70), Expect = 1.2
Identities = 27/102 (26%), Positives = 44/102 (43%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S TP + +Y +YSP SP+ + + N S P+ P T P
Sbjct: 1741 YSPTSPNYSPTSPNYTPTS--PSYSPTSPSYSPTSPNYTPTSPNYSPTSPSYSP---TSP 1795
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
+P P + P + + +P S+ +S S P++
Sbjct: 1796 SYSPTSPSYSPSSPRYTPQSPTYTPSSP-SYSPSSPSYSPTS 1836
>sp|P11414|RPB1_CRIGR DNA-directed RNA polymerase II largest subunit (RPB1)
Length = 467
Score = 32.0 bits (71), Expect = 0.93
Identities = 30/104 (28%), Positives = 44/104 (42%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S +P + +Y +YSP SP+ S + N + P+ P T P
Sbjct: 210 YSPTSPSYSPTSPSYSPTS--PSYSPTSPSYSPTSPNYSPTSPNYTPTSPSYSP---TSP 264
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPSTIR 316
+P P T P + S +P S+ S S PS+ R
Sbjct: 265 SYSPTSPNYTPTSPNYSPTSPSYSPTSP-SYSPTSPSYSPSSPR 307
Score = 31.6 bits (70), Expect = 1.2
Identities = 27/102 (26%), Positives = 44/102 (43%)
Frame = +2
Query: 5 YFNSSPESSTYSQEKTPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRP 184
Y +SP S S TP + +Y +YSP SP+ + + N S P+ P T P
Sbjct: 238 YSPTSPNYSPTSPNYTPTS--PSYSPTSPSYSPTSPNYTPTSPNYSPTSPSYSP---TSP 292
Query: 185 IGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPST 310
+P P + P + + +P S+ +S S P++
Sbjct: 293 SYSPTSPSYSPSSPRYTPQSPTYTPSSP-SYSPSSPSYSPTS 333
>sp|Q9BYJ9|YTHD1_HUMAN YTH domain protein 1 (Dermatomyositis associated with cancer
putative autoantigen 1) (DACA-1)
Length = 559
Score = 32.0 bits (71), Expect = 0.93
Identities = 27/127 (21%), Positives = 54/127 (42%)
Frame = +2
Query: 50 TPDNIKNTYKAAPLNYSPGSPHASKSMDNISSMIPAIEPDKKTRPIGAPPRPISTHGHGA 229
T DN K AP+ SP A+ ++ +PA P +P +P T
Sbjct: 273 TWDN-KGPVPKAPVPQQAPSPQAAPQPQQVAQPLPAQPPALAQPQYQSPQQPPQTRWVAP 331
Query: 230 QRPHATSGRHRNPNSHKRNSNSLKPSTIRKIR*NFTLKFILDFYS*YFKMFLTSLKAVKM 409
+ +A G+ S + +++P++ + + L+ + +S K F +LK+ ++
Sbjct: 332 RNRNAAFGQSGGAGSDSNSPGNVQPNSAPSVESHPVLEKLKAAHSYNPKEFEWNLKSGRV 391
Query: 410 FYLFCYT 430
F + Y+
Sbjct: 392 FIIKSYS 398
>sp|Q9VXE5|PAKM_DROME Serine/threonine-protein kinase PAK mbt (p21-activated kinase
related protein) (Mushroom bodies tiny protein)
Length = 639
Score = 31.6 bits (70), Expect = 1.2
Identities = 16/48 (33%), Positives = 23/48 (47%)
Frame = +2
Query: 182 PIGAPPRPISTHGHGAQRPHATSGRHRNPNSHKRNSNSLKPSTIRKIR 325
P+ P+ +HG G P T G SH SNSL+ S+ ++R
Sbjct: 106 PMAPGAHPMMSHGPGMMMPPETGGIVLPKTSHVARSNSLRSSSPPRVR 153
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: 57,194,152
Number of Sequences: 369166
Number of extensions: 1102886
Number of successful extensions: 3605
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 3390
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): 3570
length of database: 68,354,980
effective HSP length: 103
effective length of database: 49,327,275
effective search space used: 3502236525
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)