RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 046825
(1208 letters)
>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus
[TaxId: 274]}
Length = 1504
Score = 437 bits (1125), Expect = e-132
Identities = 190/930 (20%), Positives = 323/930 (34%), Gaps = 177/930 (19%)
Query: 282 FFLGVVLVPPIKFRLPSK-GGDSVMEHPQTVLLSKVLQANIYLANAYVNQPDNAKVIVAR 340
L V V P R + G L +++ N L + Q +I
Sbjct: 511 MILEAVPVLPPDLRPMVQVDGGRFATSDLNDLYRRLINRNNRLKK-LLAQGAPEIIIRNE 569
Query: 341 WMNLQQSVNVLFD----GKNAAGQRD--MASGICQLLEKKEGLFRQKLMGKRVNYACRSV 394
LQ++V+ L D G + +L K+G FRQ L+GKRV+Y+ RSV
Sbjct: 570 KRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSV 629
Query: 395 ISPDPYLAVNEIGIPPYFALRLTYPERVTPWNVVKLRDSIINGAEIHPGATHYLDKLSTM 454
I P L +++ G+P AL L P + + ++ +
Sbjct: 630 IVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAPNVKAARRML------------- 676
Query: 455 RLPPNKKMRISIGRKLDTSRGAIVQPGKDSDNEFEGKMVYRHLQDGDVVLVNRQPTLHKP 514
+ D + E + G VVL+NR PTLH+
Sbjct: 677 --------------------------ERQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRL 710
Query: 515 SIMAHVVRVLKGEKTLRMHYANCSTYNADFDGDEMNVHFPQDEVSRAEAYNIVNANNQYV 574
I A +++G +++++H C +NADFDGD+M VH P ++AEA + + + +
Sbjct: 711 GIQAFQPVLVEG-QSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLL 769
Query: 575 RPSNGDPLRSLIQDHIVSAALLTKKDTFLNRDEFCQLLYSSGVSSSGLGSFTGKPGQRVL 634
P++G+PL +D I+ +T+ + L +++ + L
Sbjct: 770 SPASGEPLAKPSRDIILGLYYITQVRKE---KKGAGLEFAT--------------PEEAL 812
Query: 635 ISRSEQEVLPLLPAIWKPEPLWTGKQVITAVLNHITRGRPPFVVERGGKLPQDFFKTRFN 694
+ EV P G+ V G QD R+
Sbjct: 813 AAHERGEVALNAPIKVAGRETSVGRLKY----VFANPDEALLAVAHGIVDLQDVVTVRY- 867
Query: 695 ADKQSDRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELSEEKLLI 754
GK +T+ + E VE + + + + +EK
Sbjct: 868 -----------MGKRLETSPGRILFARIVAEAVEDEKVAWELIQLDVPQEK--------- 907
Query: 755 YKNDLVRGVIDKAQFADYGLVHTVQELYGSNTAGTLLSALSRLFTVFLQMHGFTCGVDDL 814
+ LV+ G LL AL F G T G+DD
Sbjct: 908 --------------NSLKDLVYQAFLRLGMEKTARLLDALKYYGFTFSTTSGITIGIDDA 953
Query: 815 LILKDKERERKNHLHGSEEIGKRVHLEALELEDGAEIDPIKLKSEIEKAMRGGGDAAVAY 874
+I ++K++ + + +IE+A G
Sbjct: 954 VIPEEKKQYLEEA--------------------------DRKLLQIEQAYEMGFLTDRER 987
Query: 875 FDMKMTSQLNKHTSSSVINELLSEGLLKPTGKNWISLMTTSGAKGSKVNFQQISSHLGQQ 934
+D + QL T+ V + + + N + +M SGA+G+ +Q+ G +
Sbjct: 988 YDQIL--QLWTETTEKVTQAVF-KNFEENYPFNPLYVMAQSGARGNPQQIRQL---CGLR 1041
Query: 935 ELEGKRVPRMVSGKTLPSFHPWDWAPRAGGFIIDRFLTGLRPQEYYFHCMAGREGLVDTA 994
L K PS ++ + F GL EY+ R+G DTA
Sbjct: 1042 GLMQK-----------PSGETFE------VPVRSSFREGLTVLEYFISSHGARKGGADTA 1084
Query: 995 VKTSRSGYLQRCLIKNLECLKISYDYSVRDADGSIVQFCYGEDGVDVHQTSFISKFDALA 1054
++T+ SGYL R L+ + + S+ F E +
Sbjct: 1085 LRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQPDEVTRSL------------- 1131
Query: 1055 ARERGRGRGRNKFCDKGSHTFVMGRNQEMIYKKC--SGQLDASNAYIMELPDALKDNAEK 1112
R R R + V+ R E++ + L + +++ + E
Sbjct: 1132 -RLRKRADIEAGLYGR-----VLAREVEVLGVRLEEGRYLSMDDVHLLIKAAEAGEIQEV 1185
Query: 1113 FADKFLSNEMAKQDFLKLVKHKFVL-SLAQPGEPVGLLASQSVGEPSTQMTLNTFHLAG- 1170
L+ + K + + GE VG++A+QS+GEP TQ+T+ TFH G
Sbjct: 1186 PVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTMRTFHTGGV 1245
Query: 1171 RGEMNVTLGIPRLQEILTIASKDIKTPVIT 1200
G ++T G+PR+ E+ A + VI+
Sbjct: 1246 AGAADITQGLPRVIELFE-ARRPKAKAVIS 1274
>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 1449
Score = 319 bits (819), Expect = 5e-91
Identities = 171/701 (24%), Positives = 253/701 (36%), Gaps = 170/701 (24%)
Query: 1 CKTCGQRQFLCPGHFGHIDLVVPVYNPLLFNLLYTLLKRICFFCHHFKASRREVEKCVRK 60
C+TC + CPGHFGHIDL PV++ + + + +C C
Sbjct: 66 CQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKL------------- 112
Query: 61 LELIIKGDIIAAKSLDLDLPSESSNPEDSDVSNKSSCSMVTPRGNYDNVRNLKPQEWTSL 120
L+ + + + ++L + + + K C P +
Sbjct: 113 --LLDEHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPT------------ 158
Query: 121 QFAEAKLALLQFLKIETTKCGNCKAKNPRISKPTFGWIHMNGMPHADIRANLIRGCNLGE 180
+ G C P I K +
Sbjct: 159 ---------------QLVSRGGCGNTQPTIRKDGLKLVG--------------------- 182
Query: 181 TFSGGEEEKDLGASSDVDAPETHSFNGTFPGTQDTAARRHQKGSGAVPSGFKKQKDLFSG 240
K A+ D D PE
Sbjct: 183 ------SWKKDRATGDADEPELR------------------------------------- 199
Query: 241 PLLPSDVKDIIEKLWENEFELCSFISDMQQQGFGKKAGHSIFFLGVVLVPPIKFRLPSKG 300
L ++ +I + + +F F + L + VPP R
Sbjct: 200 VLSTEEILNIFKHISVKDFTSLGFNE--------VFSRPEWMILTCLPVPPPPVRPSISF 251
Query: 301 GDSVM-EHPQTVLLSKVLQANIYLANAYVNQPDNAKVIVARWMNLQQSVNVLFD----GK 355
+S E T L+ +L+ANI L N + I LQ V D G+
Sbjct: 252 NESQRGEDDLTFKLADILKANISLETLEHNGAPH-HAIEEAESLLQFHVATYMDNDIAGQ 310
Query: 356 NAAGQRDMAS--GICQLLEKKEGLFRQKLMGKRVNYACRSVISPDPYLAVNEIGIPPYFA 413
A Q+ I L+ KEG R LMGKRV+++ R+VIS DP L ++++G+P A
Sbjct: 311 PQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKSIA 370
Query: 414 LRLTYPERVTPWNVVKLRDSIINGAEIHPGATHYLDKLSTMRLPPNKKMRISIGRKLDTS 473
LTYPE VTP+N+ +L + NG HPGA + + RI +
Sbjct: 371 KTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRD---------SGDRIDL------- 414
Query: 474 RGAIVQPGKDSDNEFEGKMVYRHLQDGDVVLVNRQPTLHKPSIMAHVVRVLKGEKTLRMH 533
G V RH+ D D VL NRQP+LHK S+MAH V+V+ T R++
Sbjct: 415 ---RYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPY-STFRLN 470
Query: 534 YANCSTYNADFDGDEMNVHFPQDEVSRAEAYNIVNANNQYVRPSNGDPLRSLIQDHIVSA 593
+ S YNADFDGDEMN+H PQ E +RAE + Q V P + P ++QD +
Sbjct: 471 LSVTSPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGI 530
Query: 594 ALLTKKDTFLNRDEFCQLLYSSGVSSSGLGSFTGKPGQRVLISRSEQEVLPLLPAIWKPE 653
LT +DTF+ D+ +LY + + + PAI KP+
Sbjct: 531 RKLTLRDTFIELDQVLNMLYWV----------------------PDWDGVIPTPAIIKPK 568
Query: 654 PLWTGKQVITAVL------NHITRGRPPFVVERGGKLPQDF 688
PLW+GKQ+++ + G + G L D
Sbjct: 569 PLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIIDG 609
Score = 148 bits (374), Expect = 1e-36
Identities = 93/329 (28%), Positives = 158/329 (48%), Gaps = 23/329 (6%)
Query: 715 MHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELSEEKLLIYKNDLVRGVIDKAQ--FADY 772
SGK+ V G + + + +LI ++ GV++K ++
Sbjct: 567 PKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNG 626
Query: 773 GLVHTVQELYGSNTAGTLLSALSRLFTVFLQMHGFTCGVDDLLILKDKERERKNHLHGSE 832
GL+H V G L + ++ +L +GF+ G+ D + RE + ++
Sbjct: 627 GLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAK 686
Query: 833 EIGKRVHLEALELEDGAEIDPIKLKSEIEKAMRGGGDAAVAYFDMKMTSQLNKHTSSSVI 892
+ +D K + G ++ D + LN+
Sbjct: 687 KK---------------VLDVTKEAQANLLTAKHGMTLRESFED-NVVRFLNE-----AR 725
Query: 893 NELLSEGLLKPTGKNWISLMTTSGAKGSKVNFQQISSHLGQQELEGKRVPRMVSGKTLPS 952
++ + N + M +G+KGS +N Q+S+ +GQQ +EGKR+ +TLP
Sbjct: 726 DKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPH 785
Query: 953 FHPWDWAPRAGGFIIDRFLTGLRPQEYYFHCMAGREGLVDTAVKTSRSGYLQRCLIKNLE 1012
F D++P + GF+ + +L GL PQE++FH M GREGL+DTAVKT+ +GY+QR L+K LE
Sbjct: 786 FSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALE 845
Query: 1013 CLKISYDYSVRDADGSIVQFCYGEDGVDV 1041
+ + YD + R++ G+++QF YGEDG+D
Sbjct: 846 DIMVHYDNTTRNSLGNVIQFIYGEDGMDA 874
Score = 63.7 bits (154), Expect = 1e-10
Identities = 43/84 (51%), Positives = 59/84 (70%), Gaps = 1/84 (1%)
Query: 1120 NEMAKQDFLKLVKHKFVLSLAQPGEPVGLLASQSVGEPSTQMTLNTFHLAGRGEMNVTLG 1179
+ A L ++ +F+ S+ PGE VG+LA+QS+GEP+TQMTLNTFH AG VT G
Sbjct: 1037 TKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSG 1096
Query: 1180 IPRLQEILTIASKDIKTPVITCPL 1203
+PRL+EIL +A K++KTP +T L
Sbjct: 1097 VPRLKEILNVA-KNMKTPSLTVYL 1119
>d1y6xa1 a.204.1.4 (A:7-93) Phosphoribosyl-ATP pyrophosphatase HisE
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 87
Score = 31.3 bits (71), Expect = 0.14
Identities = 11/57 (19%), Positives = 20/57 (35%), Gaps = 1/57 (1%)
Query: 699 SDRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELSEEKLLIY 755
DR + S T + + + GE A +++S + E L+Y
Sbjct: 12 GDRARTRPAD-STTVAALDGGVHALGKKLLEEAGEVWLAAEHESNDALAEEISQLLY 67
>d1yvwa1 a.204.1.4 (A:4-95) Phosphoribosyl-ATP pyrophosphatase HisE
{Bacillus cereus [TaxId: 1396]}
Length = 92
Score = 30.5 bits (69), Expect = 0.27
Identities = 14/56 (25%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 700 DRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELSEEKLLIY 755
+RK + + S TN + K + + + E A KN KE+ + E + Y
Sbjct: 11 ERKGSPLPE-SYTNYLFSKGEDKILKKIGEECAEVIIACKNNDKEEVVKEMVDVFY 65
>d1iuqa_ c.112.1.1 (A:) Glycerol-3-phosphate (1)-acyltransferase
{Cushaw squash (Cucurbita moschata) [TaxId: 3662]}
Length = 367
Score = 31.9 bits (72), Expect = 0.46
Identities = 11/91 (12%), Positives = 30/91 (32%), Gaps = 3/91 (3%)
Query: 414 LRLTYPERVTPWNVVKLRDSIINGAEIHPGATHYLDKLSTMRLPPNKKMRISIGRKLDTS 473
+R P ++ L +++ + P + ++ R+ +S+ ++
Sbjct: 257 MRRLIQHSDVPGHLFPL--ALLCHDIMPPPSQ-VEIEIGEKRVIAFNGAGLSVAPEISFE 313
Query: 474 RGAIVQPGKDSDNEFEGKMVYRHLQDGDVVL 504
A + E K ++ + VL
Sbjct: 314 EIAATHKNPEEVREAYSKALFDSVAMQYNVL 344
>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I,
N-terminal DNA-binding fragment {Human (Homo sapiens)
[TaxId: 9606]}
Length = 230
Score = 30.5 bits (69), Expect = 0.93
Identities = 10/78 (12%), Positives = 31/78 (39%), Gaps = 10/78 (12%)
Query: 689 FKTRFNADKQSDRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELS 748
++ ++++ K ++ ++ K ++ +K+ EEK K +E E
Sbjct: 82 WRKEMTNEEKNIITNLSKCDFTQMSQYFKAQTEARKQ----MSKEEKLKIK---EENEKL 134
Query: 749 EEKLLIYKNDLVRGVIDK 766
++ Y ++ ++
Sbjct: 135 LKE---YGFCIMDNHKER 149
>d1f39a_ b.87.1.1 (A:) lambda repressor C-terminal domain
{Bacteriophage lambda [TaxId: 10710]}
Length = 101
Score = 28.3 bits (63), Expect = 1.6
Identities = 7/39 (17%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 496 HLQDGDVVLVNRQPTLHKPSIMAHVVRVLKGEKTLRMHY 534
DG ++LV+ + + + R+ E T +
Sbjct: 24 SFPDGMLILVDPEQAVEPGDFC--IARLGGDEFTFKKLI 60
>d1vjwa_ d.58.1.4 (A:) Ferredoxin A {Thermotoga maritima [TaxId:
2336]}
Length = 59
Score = 27.2 bits (59), Expect = 1.8
Identities = 8/19 (42%), Positives = 9/19 (47%)
Query: 1 CKTCGQRQFLCPGHFGHID 19
C CG + LCP F D
Sbjct: 10 CIGCGVCENLCPDVFQLGD 28
>d1p3ha_ b.35.1.1 (A:) Chaperonin-10 (GroES) {Mycobacterium
tuberculosis [TaxId: 1773]}
Length = 99
Score = 27.5 bits (61), Expect = 3.2
Identities = 14/69 (20%), Positives = 29/69 (42%)
Query: 698 QSDRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPGEEKEAEKNKSKEKELSEEKLLIYKN 757
+ ++K +G + D+ G+K+ ++ G+ K E + + E+ LI
Sbjct: 31 DTAKEKPQEGTVVAVGPGRWDEDGEKRIPLDVAEGDTVIYSKYGGTEIKYNGEEYLILSA 90
Query: 758 DLVRGVIDK 766
V V+ K
Sbjct: 91 RDVLAVVSK 99
>d1v9la2 c.58.1.1 (A:4-179) Glutamate dehydrogenase {Pyrobaculum
islandicum [TaxId: 2277]}
Length = 176
Score = 28.4 bits (63), Expect = 3.3
Identities = 25/111 (22%), Positives = 31/111 (27%), Gaps = 23/111 (20%)
Query: 402 AVNEIGIPPYFALRLTYPERVTPWNV-VKLRDSII------------------NGAEIHP 442
V G P F L+ P RV N+ V+L G HP
Sbjct: 14 GVELGGFPEDFYKILSRPRRVLIVNIPVRLDGGGFEVFEGYRVQHCDVLGPYKGGVRFHP 73
Query: 443 GATHYLDK-LSTMRLPPNKKMRISIGRKLDTSRGAIVQPGKDSDNEFEGKM 492
T D L+ + N + G V P K S E E
Sbjct: 74 EVTLADDVALAILMTLKNSLAGLPYGG---AKGAVRVDPKKLSQRELEELS 121
>d1uq5a_ d.165.1.1 (A:) Ricin A-chain {Castor bean (Ricinus
communis) [TaxId: 3988]}
Length = 263
Score = 28.0 bits (62), Expect = 5.7
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 774 LVHTVQELYGSNTAGTLLSALSRLFTVFLQM 804
L + LY +T GT L L+R F + +QM
Sbjct: 140 LEEAISALYYYSTGGTQLPTLARSFIICIQM 170
>d1q5za_ a.196.1.1 (A:) Invasion protein A (SipA) , C-terminal actin
binding domain {Salmonella typhimurium [TaxId: 90371]}
Length = 145
Score = 27.3 bits (60), Expect = 6.2
Identities = 24/93 (25%), Positives = 36/93 (38%), Gaps = 9/93 (9%)
Query: 673 RPPFVVERGGKLPQDFFKTRFNADKQSDRKKNDKGKLSKTNKMHKDKSGKKKEVVEGKPG 732
R F R LP D K+ + SD K+ + K K KEV+ P
Sbjct: 52 RRAFDGLRAEILPNDTIKSAALKAQCSDIDKHPE---------LKAKMETLKEVITHHPQ 102
Query: 733 EEKEAEKNKSKEKELSEEKLLIYKNDLVRGVID 765
+EK AE +E +L + ++ V+D
Sbjct: 103 KEKLAEIALQFAREAGLTRLKGETDYVLSNVLD 135
>d1w07a3 e.6.1.2 (A:2-272) Acyl-coenzyme A oxidase 1, domains 1 and
2 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
Length = 271
Score = 27.8 bits (61), Expect = 6.9
Identities = 21/193 (10%), Positives = 44/193 (22%), Gaps = 41/193 (21%)
Query: 810 GVDDLLILKDKERER--------KNHLHGSEEIGKRVHLEALELEDGAEIDPIKLKSEIE 861
G+D L ER + K GS + + DP+ KS
Sbjct: 2 GIDHL----ADERNKAEFDVEDMKIVWAGSRHAFEVSD----RIARLVASDPVFEKSNRA 53
Query: 862 ----KAMRGGGDAAVAYFDMKMTSQLNKHTSSSVINELLSEGLLKPTGKNWISLMTTSGA 917
K + A+ ++ + + + + ++ L
Sbjct: 54 RLSRKELFKSTLRKCAHAFKRIIELRLNEEEAGRLRHFIDQPA-------YVDLHWG--- 103
Query: 918 KGSKVNFQQISSHLGQQELEGKRVPRMVSGKTLPSF------HPWDWAPRAGGFIIDRFL 971
F G +E + K + + + + H + +D
Sbjct: 104 -----MFVPAIKGQGTEEQQKKWLSLANKMQIIGCYAQTELGHGSNVQGLETTATLDPKT 158
Query: 972 TGLRPQEYYFHCM 984
Sbjct: 159 DEFVIHTPTQTAS 171
>d1i2ha_ b.55.1.4 (A:) Homer {Rat (Rattus norvegicus) [TaxId:
10116]}
Length = 145
Score = 27.2 bits (60), Expect = 7.7
Identities = 13/62 (20%), Positives = 20/62 (32%), Gaps = 13/62 (20%)
Query: 904 TGKNWISLMTTSGAKGSKVNF--QQISSHLGQQELEGKRV-------PRMVSGKTLPSFH 954
T KNW+ + V++ + L+G + P M KT F
Sbjct: 22 TKKNWV----PTSKHAVTVSYFYDSTRNVYRIISLDGSKAIINSTITPNMTFTKTSQKFG 77
Query: 955 PW 956
W
Sbjct: 78 QW 79
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.318 0.135 0.401
Gapped
Lambda K H
0.267 0.0583 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 4,461,156
Number of extensions: 212997
Number of successful extensions: 603
Number of sequences better than 10.0: 1
Number of HSP's gapped: 588
Number of HSP's successfully gapped: 22
Length of query: 1208
Length of database: 2,407,596
Length adjustment: 96
Effective length of query: 1112
Effective length of database: 1,089,516
Effective search space: 1211541792
Effective search space used: 1211541792
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.4 bits)