Citrus Sinensis ID: 003263
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 835 | 2.2.26 [Sep-21-2011] | |||||||
| O24600 | 993 | DNA-directed RNA polymera | no | no | 0.882 | 0.742 | 0.72 | 0.0 | |
| P69242 | 977 | DNA-directed RNA polymera | N/A | no | 0.876 | 0.749 | 0.671 | 0.0 | |
| P69243 | 977 | DNA-directed RNA polymera | N/A | no | 0.876 | 0.749 | 0.671 | 0.0 | |
| Q8L6J1 | 977 | DNA-directed RNA polymera | N/A | no | 0.835 | 0.714 | 0.712 | 0.0 | |
| Q8L6J3 | 1021 | DNA-directed RNA polymera | N/A | no | 0.794 | 0.649 | 0.637 | 0.0 | |
| Q8VWF8 | 1020 | DNA-directed RNA polymera | N/A | no | 0.794 | 0.65 | 0.630 | 0.0 | |
| Q9LFV6 | 1011 | DNA-directed RNA polymera | no | no | 0.804 | 0.664 | 0.627 | 0.0 | |
| Q93Y94 | 1002 | DNA-directed RNA polymera | N/A | no | 0.790 | 0.658 | 0.627 | 0.0 | |
| Q8L6J5 | 1002 | DNA-directed RNA polymera | N/A | no | 0.790 | 0.658 | 0.629 | 0.0 | |
| P92969 | 976 | DNA-directed RNA polymera | no | no | 0.795 | 0.680 | 0.591 | 0.0 |
| >sp|O24600|RPOT3_ARATH DNA-directed RNA polymerase 3, chloroplastic OS=Arabidopsis thaliana GN=RPOT3 PE=2 SV=1 | Back alignment and function desciption |
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Score = 1112 bits (2875), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 540/750 (72%), Positives = 626/750 (83%), Gaps = 13/750 (1%)
Query: 90 IENSVDFHIPTCEQEQNFHQRVENTETCADLVIPRSENSTNHQLMCLEPRRRIFVQDPPW 149
I NSV FH E +N T A L I EN L RRR+F+QDPPW
Sbjct: 74 ISNSVHFHGNLIESFENQDSSYAGTIKGASL-IEELENPVERN--GLSGRRRLFMQDPPW 130
Query: 150 FSSIFLKGLYKRIKLQ---EYREMKKRKFNLLRRRQVKQETEAWERMVDEYKELEAKMIE 206
S++FLKGL K + E +++ KRKF+ LRRRQVK+ETEAWERMVDEY++LE +M E
Sbjct: 131 ISALFLKGLSKMVDQTLKIERKDIDKRKFDSLRRRQVKEETEAWERMVDEYRDLEKEMCE 190
Query: 207 KRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQR--TKKQKAAYAPHIELLPADKVAVIVM 264
K LAPNLP++K +FLGWF PL + IEREQK+Q+ +KK +AAYAPHIELLPADK+AVIVM
Sbjct: 191 KNLAPNLPYVKHMFLGWFQPLKDVIEREQKLQKNKSKKVRAAYAPHIELLPADKMAVIVM 250
Query: 265 HKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSK 324
HKMMGLVM+GHED C+QVVQAAV IG+AIEQE+RIH+FL++T RK D++E L K
Sbjct: 251 HKMMGLVMSGHEDGCIQVVQAAVSIGIAIEQEVRIHNFLKRT----RKNNAGDSQEEL-K 305
Query: 325 EKELLRKRVNSLIKSKRVMEAQKLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVN 384
EK+LLRKRVNSLI+ KR+++A K++K+E TKPWGR TQAKLGSRL+ELLIE AYVQ P+
Sbjct: 306 EKQLLRKRVNSLIRRKRIIDALKVVKSEGTKPWGRATQAKLGSRLLELLIEAAYVQPPLT 365
Query: 385 PADYSPPDVRPAFRHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHMLIPYVPML 444
+ S P+ RPAFRHRFKT+ K+PG K +RYGV+ECD L+L GLD+SAKHMLIPYVPML
Sbjct: 366 QSGDSIPEFRPAFRHRFKTVTKYPGSKLVRRYGVIECDSLLLAGLDKSAKHMLIPYVPML 425
Query: 445 VPPKKWKGYNKGGYLFLPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVN 504
VPPK+WKGY+KGGYLFLPSY+MRTHGS+KQQ+ALK ++ +VFEALDTLG+TKWRVN
Sbjct: 426 VPPKRWKGYDKGGYLFLPSYIMRTHGSKKQQDALKDISHKTAHRVFEALDTLGNTKWRVN 485
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKWKWSVRKAKKINQERHSQ 564
+ +L V+E +W GGNIAGLV+R DV IPEKP SED E+Q WKWS RKA KIN+ERHS
Sbjct: 486 RNILDVVERLWADGGNIAGLVNREDVPIPEKPSSEDPEELQSWKWSARKANKINRERHSL 545
Query: 565 RCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLG 624
RCD ELKLSVAR+MKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSD+CRG LEFAEGRPLG
Sbjct: 546 RCDVELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGTLEFAEGRPLG 605
Query: 625 KSGLRWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQ 684
KSGL WLKIHLANL++GGVEKLSHD RLAFVENHL +I DSAENPI+G RWWL AEDPFQ
Sbjct: 606 KSGLHWLKIHLANLYAGGVEKLSHDARLAFVENHLDDIMDSAENPIHGKRWWLKAEDPFQ 665
Query: 685 CLAACINLSEALKSSSPHSVISHLPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPA 744
CLAAC+ L++ALKS SP+SVISHLPIHQDGSCNGLQHYAALGR++ EAAAVNLVAGEKPA
Sbjct: 666 CLAACVILTQALKSPSPYSVISHLPIHQDGSCNGLQHYAALGRDSFEAAAVNLVAGEKPA 725
Query: 745 DVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKILIDQVDRKLVKQTVMTSVYGVTFVGAR 804
DVYSEI+ RVHEIMK+DS+KDP +P A LAKILI QVDRKLVKQTVMTSVYGVT+VGAR
Sbjct: 726 DVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAR 785
Query: 805 EQIKRRLEEKGHITDDRQLFAAACYAAKVS 834
EQIKRRLEEKG ITD+R LFAAACY+AKV+
Sbjct: 786 EQIKRRLEEKGVITDERMLFAAACYSAKVT 815
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Arabidopsis thaliana (taxid: 3702) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|P69242|RPOT3_NICSY DNA-directed RNA polymerase 3, chloroplastic OS=Nicotiana sylvestris GN=RPOT3 PE=2 SV=1 | Back alignment and function description |
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| >sp|P69243|RPO3A_TOBAC DNA-directed RNA polymerase 3A, chloroplastic OS=Nicotiana tabacum GN=RPOT3-SYL PE=3 SV=1 | Back alignment and function description |
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| >sp|Q8L6J1|RPO3B_TOBAC DNA-directed RNA polymerase 3B, chloroplastic OS=Nicotiana tabacum GN=RPOT3-TOM PE=2 SV=2 | Back alignment and function description |
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| >sp|Q8L6J3|RPO2B_TOBAC DNA-directed RNA polymerase 2B, chloroplastic/mitochondrial OS=Nicotiana tabacum GN=RPOT2-TOM PE=2 SV=2 | Back alignment and function description |
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| >sp|Q8VWF8|RPOT2_NICSY DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Nicotiana sylvestris GN=RPOT2 PE=2 SV=2 | Back alignment and function description |
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| >sp|Q9LFV6|RPOT2_ARATH DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=RPOT2 PE=1 SV=1 | Back alignment and function description |
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| >sp|Q93Y94|RPOT1_NICSY DNA-directed RNA polymerase 1, mitochondrial OS=Nicotiana sylvestris GN=RPOT1 PE=2 SV=1 | Back alignment and function description |
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| >sp|Q8L6J5|RPO1B_TOBAC DNA-directed RNA polymerase 1B, mitochondrial OS=Nicotiana tabacum GN=RPOT1-TOM PE=2 SV=2 | Back alignment and function description |
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| >sp|P92969|RPOT1_ARATH DNA-directed RNA polymerase 1, mitochondrial OS=Arabidopsis thaliana GN=RPOT1 PE=2 SV=1 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 835 | ||||||
| 224143911 | 882 | predicted protein [Populus trichocarpa] | 0.834 | 0.790 | 0.780 | 0.0 | |
| 224088334 | 982 | predicted protein [Populus trichocarpa] | 0.953 | 0.810 | 0.690 | 0.0 | |
| 225445794 | 979 | PREDICTED: DNA-directed RNA polymerase 3 | 0.844 | 0.720 | 0.763 | 0.0 | |
| 449506262 | 975 | PREDICTED: DNA-directed RNA polymerase 3 | 0.922 | 0.789 | 0.696 | 0.0 | |
| 449454095 | 975 | PREDICTED: DNA-directed RNA polymerase 3 | 0.922 | 0.789 | 0.695 | 0.0 | |
| 297825331 | 990 | PDE319/SCA3 [Arabidopsis lyrata subsp. l | 0.882 | 0.744 | 0.718 | 0.0 | |
| 79602097 | 895 | DNA-directed RNA polymerase 3 [Arabidops | 0.882 | 0.823 | 0.72 | 0.0 | |
| 15224093 | 993 | DNA-directed RNA polymerase 3 [Arabidops | 0.882 | 0.742 | 0.72 | 0.0 | |
| 255574998 | 1000 | DNA-directed RNA polymerase 3B, chloropl | 0.894 | 0.747 | 0.673 | 0.0 | |
| 297743676 | 808 | unnamed protein product [Vitis vinifera] | 0.754 | 0.779 | 0.798 | 0.0 |
| >gi|224143911|ref|XP_002325119.1| predicted protein [Populus trichocarpa] gi|222866553|gb|EEF03684.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
|---|
Score = 1182 bits (3059), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 548/702 (78%), Positives = 637/702 (90%), Gaps = 5/702 (0%)
Query: 137 EPRRRIFVQDPPWFSSIFLKGLYK----RIKLQEYREMKKRKFNLLRRRQVKQETEAWER 192
E +++F+QDPPW S+ F KG+YK ++K+ E+++++KRK+NLLRRRQ+++ETEAWER
Sbjct: 4 ESSKKVFIQDPPWISAHFWKGMYKLANKKVKV-EFKDIEKRKYNLLRRRQIREETEAWER 62
Query: 193 MVDEYKELEAKMIEKRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQRTKKQKAAYAPHIE 252
M DEY+ L +M E++LAPNLP++KGL LGWF PL EAIE+EQKM+++KKQK+A++P+IE
Sbjct: 63 MADEYRGLVREMCERKLAPNLPYVKGLLLGWFEPLKEAIEKEQKMEKSKKQKSAFSPNIE 122
Query: 253 LLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNYKRK 312
LLPADK+AVIVMHKMMGL+M GHED CV+VVQAAV IGMAIEQE+RIH+FLEKTKNY+RK
Sbjct: 123 LLPADKMAVIVMHKMMGLLMVGHEDGCVRVVQAAVQIGMAIEQEVRIHNFLEKTKNYQRK 182
Query: 313 KIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLLKNEETKPWGRDTQAKLGSRLVEL 372
K + + +E + KEKE+LRKRVNSLI+ KR+ME Q L+K +ETKPW R TQAKLGSRL+EL
Sbjct: 183 KTMHEVQETMDKEKEVLRKRVNSLIRRKRLMEVQNLVKQDETKPWSRGTQAKLGSRLIEL 242
Query: 373 LIETAYVQHPVNPADYSPPDVRPAFRHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRS 432
L ETAYVQ PVN ++ PPDVRPAFRH FKT+ K+PGQK K+YGV+ECDPL+L GLD +
Sbjct: 243 LTETAYVQPPVNQSEDIPPDVRPAFRHIFKTLTKNPGQKIVKKYGVIECDPLILTGLDGT 302
Query: 433 AKHMLIPYVPMLVPPKKWKGYNKGGYLFLPSYVMRTHGSRKQQEALKSVTGNCMKKVFEA 492
AKHMLIPY PMLVPPKKWKGY+KGG+LFLPSYVMRTHGSR+QQ A++SV G M+KVFEA
Sbjct: 303 AKHMLIPYFPMLVPPKKWKGYDKGGHLFLPSYVMRTHGSRQQQVAVRSVPGKQMQKVFEA 362
Query: 493 LDTLGSTKWRVNKQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKWKWSVR 552
LDTLG+TKWRVN+++L V+E IW SGGNIAGLVDR D+ IPEKP S+D+TE+QKWKWSVR
Sbjct: 363 LDTLGNTKWRVNRRLLDVVERIWTSGGNIAGLVDREDIPIPEKPSSDDLTEIQKWKWSVR 422
Query: 553 KAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCR 612
KAKKINQERHSQRCDTELKLSVAR++KDEEGFYYPHNLDFRGRAYPMHPHL HLSSD+CR
Sbjct: 423 KAKKINQERHSQRCDTELKLSVARKLKDEEGFYYPHNLDFRGRAYPMHPHLTHLSSDLCR 482
Query: 613 GVLEFAEGRPLGKSGLRWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPING 672
GVLEF EGRPLGKSGLRWLKIHLANL+SGGVEKLSHDGRLAFVENHL EIFDSA+NP+NG
Sbjct: 483 GVLEFEEGRPLGKSGLRWLKIHLANLYSGGVEKLSHDGRLAFVENHLSEIFDSAKNPVNG 542
Query: 673 SRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHLPIHQDGSCNGLQHYAALGRNTLEA 732
RWWL AEDPFQCLAACINLSEAL S+SPH+VISHLPIHQDGSCNGLQHYAALGR+TLEA
Sbjct: 543 KRWWLKAEDPFQCLAACINLSEALNSASPHTVISHLPIHQDGSCNGLQHYAALGRDTLEA 602
Query: 733 AAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKILIDQVDRKLVKQTVM 792
AAVNLVA EKP+DVYSEIAVRVHEI++RDSNKDP+ +P ALLAKIL+DQVDRKLVKQTVM
Sbjct: 603 AAVNLVAAEKPSDVYSEIAVRVHEIIRRDSNKDPATNPHALLAKILVDQVDRKLVKQTVM 662
Query: 793 TSVYGVTFVGAREQIKRRLEEKGHITDDRQLFAAACYAAKVS 834
TSVYGVT+VGAREQIKRRLEEKGHITDDR LF+AACY AKV+
Sbjct: 663 TSVYGVTYVGAREQIKRRLEEKGHITDDRLLFSAACYTAKVT 704
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Source: Populus trichocarpa Species: Populus trichocarpa Genus: Populus Family: Salicaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|224088334|ref|XP_002308414.1| predicted protein [Populus trichocarpa] gi|222854390|gb|EEE91937.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|225445794|ref|XP_002274521.1| PREDICTED: DNA-directed RNA polymerase 3, chloroplastic [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|449506262|ref|XP_004162698.1| PREDICTED: DNA-directed RNA polymerase 3, chloroplastic-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|449454095|ref|XP_004144791.1| PREDICTED: DNA-directed RNA polymerase 3, chloroplastic-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|297825331|ref|XP_002880548.1| PDE319/SCA3 [Arabidopsis lyrata subsp. lyrata] gi|297326387|gb|EFH56807.1| PDE319/SCA3 [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
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| >gi|79602097|ref|NP_973525.2| DNA-directed RNA polymerase 3 [Arabidopsis thaliana] gi|330252436|gb|AEC07530.1| DNA-directed RNA polymerase 3 [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|15224093|ref|NP_179989.1| DNA-directed RNA polymerase 3 [Arabidopsis thaliana] gi|3914826|sp|O24600.1|RPOT3_ARATH RecName: Full=DNA-directed RNA polymerase 3, chloroplastic; Flags: Precursor gi|2330560|emb|CAA69972.1| chloroplast single-subunit DNA-dependent RNA polymerase [Arabidopsis thaliana] gi|2330564|emb|CAA69717.1| chloroplast single-subunit DNA-dependent RNA polymerase [Arabidopsis thaliana] gi|4115372|gb|AAD03373.1| chloroplast single subunit DNA-dependent RNA polymerase [Arabidopsis thaliana] gi|110739160|dbj|BAF01496.1| chloroplast single subunit DNA-dependent RNA polymerase [Arabidopsis thaliana] gi|330252437|gb|AEC07531.1| DNA-directed RNA polymerase 3 [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|255574998|ref|XP_002528405.1| DNA-directed RNA polymerase 3B, chloroplast precursor, putative [Ricinus communis] gi|223532193|gb|EEF33998.1| DNA-directed RNA polymerase 3B, chloroplast precursor, putative [Ricinus communis] | Back alignment and taxonomy information |
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| >gi|297743676|emb|CBI36559.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 835 | ||||||
| TAIR|locus:2047515 | 993 | SCA3 "SCABRA 3" [Arabidopsis t | 0.882 | 0.742 | 0.721 | 3.7e-293 | |
| UNIPROTKB|P69242 | 977 | RPOT3 "DNA-directed RNA polyme | 0.895 | 0.765 | 0.667 | 2.7e-281 | |
| UNIPROTKB|Q8VWF8 | 1020 | RPOT2 "DNA-directed RNA polyme | 0.795 | 0.650 | 0.628 | 2.6e-239 | |
| UNIPROTKB|Q93Y94 | 1002 | RPOT1 "DNA-directed RNA polyme | 0.785 | 0.654 | 0.630 | 3e-236 | |
| ASPGD|ASPL0000068622 | 1391 | AN7609 [Emericella nidulans (t | 0.761 | 0.457 | 0.352 | 1.3e-96 | |
| DICTYBASE|DDB_G0267416 | 950 | rpmA "DNA-dependent RNA polyme | 0.591 | 0.52 | 0.393 | 3.3e-96 | |
| SGD|S000001858 | 1351 | RPO41 "Mitochondrial RNA polym | 0.579 | 0.358 | 0.416 | 5.8e-96 | |
| POMBASE|SPAC26H5.12 | 1154 | rpo41 "mitochondrial RNA polym | 0.730 | 0.528 | 0.347 | 5.5e-93 | |
| CGD|CAL0005126 | 1300 | RPO41 [Candida albicans (taxid | 0.623 | 0.400 | 0.368 | 2.7e-87 | |
| RGD|1304599 | 1205 | Polrmt "polymerase (RNA) mitoc | 0.536 | 0.371 | 0.4 | 2.2e-83 |
| TAIR|locus:2047515 SCA3 "SCABRA 3" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 2815 (996.0 bits), Expect = 3.7e-293, P = 3.7e-293
Identities = 541/750 (72%), Positives = 627/750 (83%)
Query: 90 IENSVDFHIPTCEQEQNFHQRVENTETCADLVIPRSENSTNHQLMCLEPRRRIFVQDPPW 149
I NSV FH E +N T A L I EN L RRR+F+QDPPW
Sbjct: 74 ISNSVHFHGNLIESFENQDSSYAGTIKGASL-IEELENPVERN--GLSGRRRLFMQDPPW 130
Query: 150 FSSIFLKGLYKRIK--LQ-EYREMKKRKFNLLRRRQVKQETEAWERMVDEYKELEAKMIE 206
S++FLKGL K + L+ E +++ KRKF+ LRRRQVK+ETEAWERMVDEY++LE +M E
Sbjct: 131 ISALFLKGLSKMVDQTLKIERKDIDKRKFDSLRRRQVKEETEAWERMVDEYRDLEKEMCE 190
Query: 207 KRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQRTKKQK--AAYAPHIELLPADKVAVIVM 264
K LAPNLP++K +FLGWF PL + IEREQK+Q+ K +K AAYAPHIELLPADK+AVIVM
Sbjct: 191 KNLAPNLPYVKHMFLGWFQPLKDVIEREQKLQKNKSKKVRAAYAPHIELLPADKMAVIVM 250
Query: 265 HKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSK 324
HKMMGLVM+GHED C+QVVQAAV IG+AIEQE+RIH+FL++T RK D++E L K
Sbjct: 251 HKMMGLVMSGHEDGCIQVVQAAVSIGIAIEQEVRIHNFLKRT----RKNNAGDSQEEL-K 305
Query: 325 EKELLRKRVNSLIKSKRVMEAQKLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVN 384
EK+LLRKRVNSLI+ KR+++A K++K+E TKPWGR TQAKLGSRL+ELLIE AYVQ P+
Sbjct: 306 EKQLLRKRVNSLIRRKRIIDALKVVKSEGTKPWGRATQAKLGSRLLELLIEAAYVQPPLT 365
Query: 385 PADYSPPDVRPAFRHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHMLIPYVPML 444
+ S P+ RPAFRHRFKT+ K+PG K +RYGV+ECD L+L GLD+SAKHMLIPYVPML
Sbjct: 366 QSGDSIPEFRPAFRHRFKTVTKYPGSKLVRRYGVIECDSLLLAGLDKSAKHMLIPYVPML 425
Query: 445 VPPKKWKGYNKGGYLFLPSYVMRTHGSRKQQEALKSVTGNCMKKVFEALDTLGSTKWRVN 504
VPPK+WKGY+KGGYLFLPSY+MRTHGS+KQQ+ALK ++ +VFEALDTLG+TKWRVN
Sbjct: 426 VPPKRWKGYDKGGYLFLPSYIMRTHGSKKQQDALKDISHKTAHRVFEALDTLGNTKWRVN 485
Query: 505 KQVLSVLESIWVSGGNIAGLVDRNDVLIPEKPLSEDMTEVQKWKWSVRKAKKINQERHSQ 564
+ +L V+E +W GGNIAGLV+R DV IPEKP SED E+Q WKWS RKA KIN+ERHS
Sbjct: 486 RNILDVVERLWADGGNIAGLVNREDVPIPEKPSSEDPEELQSWKWSARKANKINRERHSL 545
Query: 565 RCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLG 624
RCD ELKLSVAR+MKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSD+CRG LEFAEGRPLG
Sbjct: 546 RCDVELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDLCRGTLEFAEGRPLG 605
Query: 625 KSGLRWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQ 684
KSGL WLKIHLANL++GGVEKLSHD RLAFVENHL +I DSAENPI+G RWWL AEDPFQ
Sbjct: 606 KSGLHWLKIHLANLYAGGVEKLSHDARLAFVENHLDDIMDSAENPIHGKRWWLKAEDPFQ 665
Query: 685 CLAACINLSEALKSSSPHSVISHLPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPA 744
CLAAC+ L++ALKS SP+SVISHLPIHQDGSCNGLQHYAALGR++ EAAAVNLVAGEKPA
Sbjct: 666 CLAACVILTQALKSPSPYSVISHLPIHQDGSCNGLQHYAALGRDSFEAAAVNLVAGEKPA 725
Query: 745 DVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKILIDQVDRKLVKQTVMTSVYGVTFVGAR 804
DVYSEI+ RVHEIMK+DS+KDP +P A LAKILI QVDRKLVKQTVMTSVYGVT+VGAR
Sbjct: 726 DVYSEISRRVHEIMKKDSSKDPESNPTAALAKILITQVDRKLVKQTVMTSVYGVTYVGAR 785
Query: 805 EQIKRRLEEKGHITDDRQLFAAACYAAKVS 834
EQIKRRLEEKG ITD+R LFAAACY+AKV+
Sbjct: 786 EQIKRRLEEKGVITDERMLFAAACYSAKVT 815
|
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| UNIPROTKB|P69242 RPOT3 "DNA-directed RNA polymerase 3, chloroplastic" [Nicotiana sylvestris (taxid:4096)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|Q8VWF8 RPOT2 "DNA-directed RNA polymerase 2, chloroplastic/mitochondrial" [Nicotiana sylvestris (taxid:4096)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|Q93Y94 RPOT1 "DNA-directed RNA polymerase 1, mitochondrial" [Nicotiana sylvestris (taxid:4096)] | Back alignment and assigned GO terms |
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| ASPGD|ASPL0000068622 AN7609 [Emericella nidulans (taxid:162425)] | Back alignment and assigned GO terms |
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| DICTYBASE|DDB_G0267416 rpmA "DNA-dependent RNA polymerase" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
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| SGD|S000001858 RPO41 "Mitochondrial RNA polymerase" [Saccharomyces cerevisiae (taxid:4932)] | Back alignment and assigned GO terms |
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| POMBASE|SPAC26H5.12 rpo41 "mitochondrial RNA polymerase Rpo41" [Schizosaccharomyces pombe (taxid:4896)] | Back alignment and assigned GO terms |
|---|
| CGD|CAL0005126 RPO41 [Candida albicans (taxid:5476)] | Back alignment and assigned GO terms |
|---|
| RGD|1304599 Polrmt "polymerase (RNA) mitochondrial (DNA directed)" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
|---|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| Q8L6J1 | RPO3B_TOBAC | 2, ., 7, ., 7, ., 6 | 0.7120 | 0.8359 | 0.7144 | N/A | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | 0.963 |
| 4th Layer | 2.7.7.6 | 0.946 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
Fail to connect to STRING server
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 835 | |||
| COG5108 | 1117 | COG5108, RPO41, Mitochondrial DNA-directed RNA pol | 1e-136 | |
| PHA00452 | 807 | PHA00452, PHA00452, T3/T7-like RNA polymerase | 1e-116 | |
| pfam00940 | 394 | pfam00940, RNA_pol, DNA-dependent RNA polymerase | 3e-97 |
| >gnl|CDD|227439 COG5108, RPO41, Mitochondrial DNA-directed RNA polymerase [Transcription] | Back alignment and domain information |
|---|
Score = 433 bits (1114), Expect = e-136
Identities = 227/670 (33%), Positives = 336/670 (50%), Gaps = 47/670 (7%)
Query: 177 LLRRRQVKQETEAWERMVDEYKELEAKMIEKRLAPNL----PHIKGLFLGWFGPLSEAIE 232
L + + E W+ ++ +++ K EK + I L L EA+
Sbjct: 255 WLEKSAIALAEEMWKAGIERFEKRGEKNREKNAEASNLSWYRMIIHLHKEEIAGLLEALL 314
Query: 233 REQKMQRTKKQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMA 292
E + + ++ Y P+++L DKVA + + ++ LV DR +++ ++ +G
Sbjct: 315 AEASLGK-AGKRLTYGPYLKLADLDKVAHLTIRELFDLVSMRRYDRGMRLTPLSIRLGAM 373
Query: 293 IEQEIRIHSFLEKTKN---YKRKKIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLL 349
+E E F K+ RKKI + +KR M
Sbjct: 374 VEDEFFSEQFKGHEKDAYEDARKKIPEQFHN---------------AVHNKRSMTRHAKH 418
Query: 350 KNEETKPWGRDTQAKLGSRLVELLIETAYVQ-HPVNPA-DYSPPDVRPAFRHRFKTILKH 407
K E + W +D +AK+GS + LL+ A ++ ++ A + + AFRH ++ H
Sbjct: 419 KGAEWQDWPQDIKAKVGSVALCLLLSVAKIEVKLIDIATEQTLKGEFEAFRHSYQY---H 475
Query: 408 PGQKTTKRYGVVECDPLVLEGLDRSAKHMLIPYVPMLVPPKKWKGYNKGGYLFLPSYVMR 467
G K D L+ E + + +PMLVPPK W + +GGY + ++R
Sbjct: 476 NGTKIGVVATHETLDWLLTE--NSRLAPLSPQLLPMLVPPKPWTSWFRGGYWYGRVRLLR 533
Query: 468 THGSRKQQEALKSVTGNC-MKKVFEALDTLGSTKWRVNKQVLSVLESIWVSGGNIAGLVD 526
+ +Q L + N M KV+ +++ LG+T W +N +V V+ S+W +G +
Sbjct: 534 LKKTGEQVRYLLMASENGDMDKVYHSINALGNTAWSINHRVFEVMASLWNNGETFLCIPQ 593
Query: 527 RND--VLIPEKPLSEDMTEVQKWKWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGF 584
+D + P E +WK + + N S+RCD KL +AR DE+ F
Sbjct: 594 ADDMWLAPPMPREDMSPEEFSRWKSERKTIAEANARAVSKRCDFNYKLEIARAFLDEK-F 652
Query: 585 YYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLKIHLANLFSGGVE 644
Y+PH LDFRGRAYP+ HLNH +D RG+L+FA G+PLG GL WLKIHLANLF GV+
Sbjct: 653 YFPHQLDFRGRAYPLSLHLNHQGNDASRGLLQFANGKPLGPEGLDWLKIHLANLF--GVD 710
Query: 645 KLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSV 704
K S + R+AFV + EI DSAENP++G+RWWLTA+ P+Q LA C E + +
Sbjct: 711 KCSMNERVAFVMANQQEILDSAENPLDGNRWWLTADKPWQALAFCFEWQEYVAEGDHEAF 770
Query: 705 ISHLPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNK 764
ISHLP+ QDG+CNGLQHYAALG + AA VNLV +KP DVY+ +A V ++ +
Sbjct: 771 ISHLPVQQDGTCNGLQHYAALGGDEEGAAQVNLVPSDKPNDVYATVASVVIAKLRDIAEA 830
Query: 765 DPSKHPQALLAKILIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLF 824
AK L D+ R +VK+TVMT+VYGVT+VGA QI +RL I +
Sbjct: 831 GDE------TAKELKDKETRTVVKETVMTNVYGVTYVGATRQITKRLT---LIYGASKFD 881
Query: 825 AA--ACYAAK 832
Y K
Sbjct: 882 TVDPWKYLTK 891
|
Length = 1117 |
| >gnl|CDD|222797 PHA00452, PHA00452, T3/T7-like RNA polymerase | Back alignment and domain information |
|---|
| >gnl|CDD|216207 pfam00940, RNA_pol, DNA-dependent RNA polymerase | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 835 | |||
| KOG1038 | 1088 | consensus Mitochondrial/chloroplast DNA-directed R | 100.0 | |
| PHA00452 | 807 | T3/T7-like RNA polymerase | 100.0 | |
| COG5108 | 1117 | RPO41 Mitochondrial DNA-directed RNA polymerase [T | 100.0 | |
| PF00940 | 405 | RNA_pol: DNA-dependent RNA polymerase; InterPro: I | 100.0 | |
| PF14700 | 318 | RPOL_N: DNA-directed RNA polymerase N-terminal; PD | 100.0 |
| >KOG1038 consensus Mitochondrial/chloroplast DNA-directed RNA polymerase RPO41, provides primers for DNA replication-initiation [Transcription; Replication, recombination and repair] | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.7e-183 Score=1553.60 Aligned_cols=728 Identities=53% Similarity=0.867 Sum_probs=659.8
Q ss_pred hhccccccc-------chhhhhhhhhccccchhhcccccccCCCCCcccccccCCcccceeecCCCchhHHHHh-----h
Q 003263 90 IENSVDFHI-------PTCEQEQNFHQRVENTETCADLVIPRSENSTNHQLMCLEPRRRIFVQDPPWFSSIFLK-----G 157 (835)
Q Consensus 90 ~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~ 157 (835)
+.+.++++. +.+++|.+..+-+-|++++.++ +.++++++.---+..-+...-++....|.++.+.. .
T Consensus 146 ~~~p~~~~~~~~~~~l~~~nsF~~~~~~l~G~~~g~s~-a~e~~~~~~~~~~s~~~~~~~~~~~~m~ke~~~~~~~~~~~ 224 (1088)
T KOG1038|consen 146 LVSPEHVRGIRQLLGLNNINSFPHSSEVLSGLIKGSSL-AGESENPTDQEGDSSNKQEINELVTKMEKEGNSLNQISSKF 224 (1088)
T ss_pred ccCchhhhhhHHhhccchhhcccchhhhhhcccccchH-HHHHhCcccccccccchhhHHHHHhHhhhhhhhhhHHHHHH
Confidence 445555665 6677787777888888999966 78888888733222334566677889998887633 3
Q ss_pred hHhhhh---HHHHhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHcccCCCChh-HHHHHHHHHHHHHHHH
Q 003263 158 LYKRIK---LQEYREMKKR-KFNLLRRRQVKQETEAWERMVDEYK-ELEAKMIEKRLAPNLPH-IKGLFLGWFGPLSEAI 231 (835)
Q Consensus 158 ~~~~~~---~~~~~~~~~~-~~~~l~~RQ~~LE~~a~~~a~~r~r-~~~~~~~~~g~a~~~~~-~~~ll~~w~~~L~~~I 231 (835)
+...++ +.+-++.+.. +|-.+.+||..+|.++|++|+++|+ +...+|++..+++++|| +++++++||++|.++|
T Consensus 225 ~~~~~~~~lk~v~k~~~~~~d~~~l~~Rq~~~e~~~~e~a~e~~k~el~~~~c~~~l~~~lp~~lk~lf~~W~~~l~~ai 304 (1088)
T KOG1038|consen 225 LEESRDLPLKAVRKGFGDFKDFFNLDRRQVKLETEAWERAAEEWKIELESDMCEGSLAPNLPYNLKSLFLGWFKPLRDAI 304 (1088)
T ss_pred HHHHhcccHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhcccccchHHHHHHHHHHHHHHHHH
Confidence 333333 5666667666 8888999999999999999999999 77789999999999999 9999999999999999
Q ss_pred HHHHHHHHhc--cCccchhhhhccCChhHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 003263 232 EREQKMQRTK--KQKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNY 309 (835)
Q Consensus 232 ~~e~~~~~~~--~~r~~y~p~L~~l~~e~lA~Iti~~~l~~~~~~~~~~~v~~~~la~~IG~aVe~E~~~~~~~~k~kk~ 309 (835)
++|+..++.. +.|..|+|||++||++++|+|||+++|+++++|++.+++++++++.+||++||+|+|++.++++..++
T Consensus 305 ~ee~n~~r~~~~~~r~~Y~p~L~lL~a~k~aviti~el~~ll~tg~~~~~~~v~~aa~~~G~aveqe~ri~~~lq~~~k~ 384 (1088)
T KOG1038|consen 305 KEEINLLRALVRKGRLNYAPFLKLLDADKMAVITIHELMGLLMTGGETGGVRVVQAAKSLGRAVEQEFRIEQFLQRKTKN 384 (1088)
T ss_pred HHHHHHHHHHHhcCccccchHHHhcChhhHHHHHHHHHHhhhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 9999999876 88999999999999999999999999999999999999999999999999999999999998775443
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhcC-CCCCCCCHHHHHHHHHHHHHHHHHHccccCCCCCCCC
Q 003263 310 KRKKIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLLKN-EETKPWGRDTQAKLGSRLVELLIETAYVQHPVNPADY 388 (835)
Q Consensus 310 ~~~~~~~~~~~~~~k~~~~l~k~~~~~~k~~~~~~~~~~~~~-~~~~~W~~~~~~kvG~~Ll~~L~e~~~i~~~~~~~~~ 388 (835)
+... .....++....++.+..++++.+..+....+.. ....+|+..++++||++|+++||++++|+++.++..+
T Consensus 385 ~~~~-----~~~~~ke~~~~~~~v~~l~~~~k~~~~~~~~~~~~~~~pWp~~v~~kvGs~L~~lL~~~aki~~~~~~~~~ 459 (1088)
T KOG1038|consen 385 KAGD-----SYCELKELGKSRKEVRQLVQNLKLSQRLSGPESHLSEKPWPSAVQAKVGSRLIELLMQVAKIQVPADQPDT 459 (1088)
T ss_pred ccch-----HHHHHHHhhcccHHHHHHHHHHHHHHHhcccccccccCCccHHHHHHHHHHHHHHHHHHhcCCCcccCcCc
Confidence 3221 111234556667778888877776666665555 5678999999999999999999999999999998777
Q ss_pred CCCCccCceeEEeEeeecCCCCccceeEEEEEcCHHHHHHHHhhhhcccCCCCceeeCCCCCcCCCCcccccCCccceec
Q 003263 389 SPPDVRPAFRHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRSAKHMLIPYVPMLVPPKKWKGYNKGGYLFLPSYVMRT 468 (835)
Q Consensus 389 ~~~~~~paF~h~~~~~~~~~g~~~~k~~gvi~~~~~~~~~l~~~~~~~~~~~LPMlvPPkpW~~~~~GGYL~~~~~~~R~ 468 (835)
+.++.+|||.|.|++. +|++.+++||+|+|||.+..+|++.+.++.++++||||||+||+++++||||++|+++||+
T Consensus 460 ~~~~~~paf~h~f~~~---n~~~~~~~~g~ie~~pll~r~leks~~~~~~~~vPMLvpPkpWt~~~~Ggyl~~~s~lmRt 536 (1088)
T KOG1038|consen 460 KLPDERPAFVHTFQVT---NGQKGGRKYGVIECHPLLSRGLEKSALHFVPPLVPMLVPPKPWTGYDSGGYLFLPSYLMRT 536 (1088)
T ss_pred Cccccchhhhhheeee---cccccceeeeeeecCHHHHHHhhhhhccccccccccccCCCCCCCCCCCceEecchhhhhc
Confidence 7789999999999965 4554578999999999999999998888899999999999999999999999999999999
Q ss_pred CCcHHHHHHH-HhccccchHHHHHHHHhhcCcceEEcHHHHHHHHHHHHcCCCCCCCCCCCCCCCCCCC-CCCCHHHHHH
Q 003263 469 HGSRKQQEAL-KSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESIWVSGGNIAGLVDRNDVLIPEKP-LSEDMTEVQK 546 (835)
Q Consensus 469 ~~~~~q~~~l-k~~~~~~l~~v~~aLN~Lqst~WrIN~~VL~vi~~~w~~g~~i~~l~~~~~~p~P~~p-~~~d~~~~~~ 546 (835)
+++++|..++ ++.+.+++++||+|||.||+||||||++||||+.++|++|+.+.+++++.+.++|++| ..+|+++++.
T Consensus 537 ~g~~~Q~~~llkas~~~~l~~v~daL~~LG~t~WrVN~rvldvV~riw~~Gg~~~~~v~r~~~~lP~~P~~s~dp~~~~~ 616 (1088)
T KOG1038|consen 537 HGAKEQVDYLLKASPPGQLDPVFDALDTLGNTKWRVNRRVLDVVIRIWQNGGCFLLIVPREDVPLPPKPTLSEDPAELKA 616 (1088)
T ss_pred CCcHHHHHHHHhcCChhhhHHHHHHHHHhcCCCeeecchHHHHHHHHHhcCCCccCCCCCCCCCCCCCCCCCcChHHHHH
Confidence 9999999855 5557789999999999999999999999999999999999999999999999999999 6789999999
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHhcCCCceeeccccCCCCccccCCCCCCCCCchhhhhhhhcccCccCCcc
Q 003263 547 WKWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKS 626 (835)
Q Consensus 547 wk~~~~~~~~~~~~~~S~R~~~~~~L~iA~~f~~~~~fYfPhnlDFRGR~YP~~~~Ln~qGsDl~RsLL~FaegkpLG~~ 626 (835)
|+++.+++.+.++++||+|||++|+|+||++|+|+ .||||||||||||+||+||||||.|||+|||||+|++|+|||.+
T Consensus 617 wk~e~k~~~k~~~e~HS~RCD~~ykLsvAr~~~de-~Fy~PHNmDFRGRaYP~~PHlNHLgsDlcRglLeF~~GkPLG~s 695 (1088)
T KOG1038|consen 617 WKWEVKKAQKVNRERHSLRCDAEYKLSVARKMKDE-EFYYPHNMDFRGRAYPLPPHLNHLGSDLCRGLLEFAEGKPLGPS 695 (1088)
T ss_pred hHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhccC-eeecCcccCcCCccCCCCchhcccchHHHHHHHHHhcCCcCCcc
Confidence 99999999999999999999999999999999997 59999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhhhhcCCCCCCCHHHHHHHHHHHHHHHHHhccCCCCCchhHhhCCChHHHHHHHHHHHHHHhcCCCCcccc
Q 003263 627 GLRWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVIS 706 (835)
Q Consensus 627 Gl~WLKIhlANlyG~G~DK~S~deRi~wv~~n~~~I~dsA~dPL~g~~wW~~AD~PwQfLAaC~El~~al~s~dP~~y~S 706 (835)
||+|||||+||+|| |+||+|+++|++|+++|+++|+|||++||+|++||++|||||||||+||||++|++++||+.|+|
T Consensus 696 GL~WLKIHlaNL~~-g~~kl~~~~RlAF~E~hl~DI~DSAd~PLtG~rWW~~AedPfQ~LA~C~elaea~RspdPeayiS 774 (1088)
T KOG1038|consen 696 GLRWLKIHLANLYA-GVDKLSLRDRLAFTEEHLDDIFDSADRPLTGRRWWLKAEDPFQCLAACMELAEALRSPDPEAYIS 774 (1088)
T ss_pred chhHHHHHHHHHhc-ccccccHHHHHHHHHHHHHHHhhcccCCCcccchhhcCCChHHHHHHHHHHHHHHcCCCHHHHHh
Confidence 99999999999997 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCchhhHHHHHhhCChhhhcccccCCCCCcccchhHHHHHHHHHHHhhcCCCCCCCcHHHHHHHcccCCCccc
Q 003263 707 HLPIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKILIDQVDRKL 786 (835)
Q Consensus 707 ~lPVhqDGSCNGLQHyAALgrD~~Ga~~VNLipsd~PqDVYs~Va~~V~~~i~~da~~d~~~~~~~~~ak~l~~~I~RKv 786 (835)
|+||||||||||||||||||||..||++|||+|||+|||||++||..|.+.+++||++|+ .+|++|.+.|||||
T Consensus 775 H~PIHQDGSCNGLQHYAALGrD~~GA~~VNLvpsdkPqDVYs~VA~~V~~~~k~DAe~g~------e~Ak~L~~~V~RKv 848 (1088)
T KOG1038|consen 775 HIPIHQDGSCNGLQHYAALGRDSEGAAAVNLVPSDKPQDVYSAVAARVEKIMKQDAEKGP------EVAKILKDQVTRKV 848 (1088)
T ss_pred cCCcccCCCcchHHHHHHhcCccccchhccccCCCCchhHHHHHHHHHHHHHHHhhhcCh------HHHHHHHHHHhHHH
Confidence 999999999999999999999999999999999999999999999999999999999985 58999999999999
Q ss_pred ccccccccccccchhhHHHHHHHHHhhCCCCCChHHHHHhhhhhhhcc
Q 003263 787 VKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFAAACYAAKVS 834 (835)
Q Consensus 787 VKqtVMT~vYGvT~~Gar~QI~~~L~e~g~i~d~~~~~~aa~Ylak~t 834 (835)
|||||||+|||||++|||+||.++|+++|.++|+.++|+|||||+|+|
T Consensus 849 VKQTVMT~VYGVTyvGAR~QI~krL~e~~~f~d~~~v~~as~Yltk~t 896 (1088)
T KOG1038|consen 849 VKQTVMTSVYGVTYVGARLQIKKRLKEIDDFPDEKEVFDASCYLTKKT 896 (1088)
T ss_pred hhhheeeeeeeeeEecHHHHHHHHhhhccCcchhHhhhhHHHHHHHHH
Confidence 999999999999999999999999999999999989999999999987
|
|
| >PHA00452 T3/T7-like RNA polymerase | Back alignment and domain information |
|---|
| >COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription] | Back alignment and domain information |
|---|
| >PF00940 RNA_pol: DNA-dependent RNA polymerase; InterPro: IPR002092 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >PF14700 RPOL_N: DNA-directed RNA polymerase N-terminal; PDB: 3SPA_A 1CEZ_A 1H38_B 1S77_D 1QLN_A 1S0V_D 3E2E_A 2PI4_A 3E3J_B 1S76_D | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 835 | ||||
| 3spa_A | 1134 | Crystal Structure Of Human Mitochondrial Rna Polyme | 4e-88 | ||
| 3e2e_A | 889 | Crystal Structure Of An Intermediate Complex Of T7 | 1e-50 | ||
| 1aro_P | 883 | T7 Rna Polymerase Complexed With T7 Lysozyme Length | 1e-50 | ||
| 2pi4_A | 878 | T7rnap Complexed With A Phi10 Protein And Initiatin | 2e-50 | ||
| 4rnp_A | 883 | Bacteriophage T7 Rna Polymerase, High Salt Crystal | 2e-50 |
| >pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase Length = 1134 | Back alignment and structure |
|
| >pdb|3E2E|A Chain A, Crystal Structure Of An Intermediate Complex Of T7 Rnap And 7nt Of Rna Length = 889 | Back alignment and structure |
| >pdb|1ARO|P Chain P, T7 Rna Polymerase Complexed With T7 Lysozyme Length = 883 | Back alignment and structure |
| >pdb|2PI4|A Chain A, T7rnap Complexed With A Phi10 Protein And Initiating Gtps. Length = 878 | Back alignment and structure |
| >pdb|4RNP|A Chain A, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form, Low Temperature Data, Alpha-Carbons Only Length = 883 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134 | Back alignment and structure |
|---|
Score = 421 bits (1081), Expect = e-132
Identities = 207/713 (29%), Positives = 337/713 (47%), Gaps = 39/713 (5%)
Query: 132 QLMCLEPRRRIFVQDPPWFSSIFLKGLYKRIKLQEYREMKKRKFNLLRRRQVKQETEAWE 191
+ + P S + K ++ + K + A
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASR 315
Query: 192 RMVDEYKELEAKMIEKRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQR--TKKQKAAYAP 249
V ++ E + A +K L W L A+ + + + + P
Sbjct: 316 VCVVSVEKPTLPSKEVKHARK--TLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYP 373
Query: 250 HIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNY 309
+ LL +V +++ + L G + +A + Q R+ ++ +N+
Sbjct: 374 FLCLLDEREVVRMLLQVLQALPAQGESFTTLARELSARTFSRHVVQRQRVSGQVQALQNH 433
Query: 310 KRKKIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLLKNEETKPWGRDTQAKLGSRL 369
RK + + E L R+ +L + +PW Q +LG L
Sbjct: 434 YRKYLCLLASDAEVPEPCLPRQYWEALGAPE----------ALREQPWPLPVQMELGKLL 483
Query: 370 VELLIETAYVQHPVNPADYSPPDVRPAFRHRFKTILKHPGQKTTKRYGVVECDPLVLEGL 429
E+L++ + ++ + P H + + ++ G+++ P ++ L
Sbjct: 484 AEMLVQATQMPCSLDKPH-RSSRLVPVLYHVYSF-------RNVQQIGILKPHPAYVQLL 535
Query: 430 DRSAKHMLI---PYVPMLVPPKKWKGYNKGGYLFLPSYVMRT-HGSRKQQEALKSVTGNC 485
+++A+ L VPML PP W + G +L P+ +MRT G+ + QE L++
Sbjct: 536 EKAAEPTLTFEAVDVPMLCPPLPWTSPHSGAFLLSPTKLMRTVEGATQHQELLETCPPTA 595
Query: 486 MKKVFEALDTLGSTKWRVNKQVLSVLESIWVSGGNIAGLVDRNDVLIP-----EKPLSED 540
+ +AL LG+ WRVN +VL ++ ++ + G V P P S
Sbjct: 596 LHGALDALTQLGNCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHSAA 655
Query: 541 MTEVQKWKWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMH 600
+ + + +K+ +E HS R + +LS+A+ ++D F+ PHN+DFRGR YP
Sbjct: 656 PARKAELRRELAHCQKVAREMHSLRAEALYRLSLAQHLRDRV-FWLPHNMDFRGRTYPCP 714
Query: 601 PHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLKIHLANLFSGGVEKLSHDGRLAFVENHLY 660
PH NHL SDV R +LEFA+GRPLG GL WLKIHL NL G ++ RLAF E +
Sbjct: 715 PHFNHLGSDVARALLEFAQGRPLGPHGLDWLKIHLVNLT-GLKKREPLRKRLAFAEEVMD 773
Query: 661 EIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHLPIHQDGSCNGLQ 720
+I DSA+ P+ G +WW+ AE+P+Q LA C+ ++ A+++S P + +SHLP+HQDGSCNGLQ
Sbjct: 774 DILDSADQPLTGRKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSHLPVHQDGSCNGLQ 833
Query: 721 HYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKHPQALLAKILID 780
HYAALGR+++ AA+VNL + P DVYS +A +V ++D+ + +A++L
Sbjct: 834 HYAALGRDSVGAASVNLEPSDVPQDVYSGVAAQVEVFRRQDAQRGMR------VAQVLEG 887
Query: 781 QVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDDRQLFAAACYAAKV 833
+ RK+VKQTVMT VYGVT G R QI++RL E + A+ +V
Sbjct: 888 FITRKVVKQTVMTVVYGVTRYGGRLQIEKRLRELSDFPQEFVWEASHYLVRQV 940
|
| >1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A 1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A* 3e3j_C* 1aro_P 2pi4_A* 2pi5_A Length = 883 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >3q23_A Virion RNA polymerase; protein-DNA complex; HET: DNA G2P; 1.80A {Enterobacteria phage N4} PDB: 3q0a_A* 3q22_A* 3q24_A* 3c3l_A 3c46_A 3c2p_A* 2po4_A Length = 1118 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 835 | |||
| 1msw_D | 883 | DNA-directed RNA polymerase, bacteriophage T7 RNA; | 100.0 | |
| 3spa_A | 1134 | Mtrpol, DNA-directed RNA polymerase, mitochondrial | 100.0 | |
| 3q23_A | 1118 | Virion RNA polymerase; protein-DNA complex; HET: D | 97.74 |
| >1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A 1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A* 3e3j_C* 1aro_P 2pi4_A* 2pi5_A | Back alignment and structure |
|---|
Probab=100.00 E-value=1.3e-151 Score=1348.80 Aligned_cols=621 Identities=27% Similarity=0.439 Sum_probs=525.3
Q ss_pred HhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH-hccCc
Q 003263 167 YREMKKRKFN-LLRRRQVKQETEAWERMVDEYKELEAKMIEKRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQR-TKKQK 244 (835)
Q Consensus 167 ~~~~~~~~~~-~l~~RQ~~LE~~a~~~a~~r~r~~~~~~~~~g~a~~~~~~~~ll~~w~~~L~~~I~~e~~~~~-~~~~r 244 (835)
-++.-...|+ .|++||++||++++++|++||++++++++++|+++++|++++++.+|+++|+++|+++++..+ +.|.+
T Consensus 20 ~~~~~~~~~~~~l~~rQ~~lE~e~~~~a~~r~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~l~~~i~~~~~~~~~~~g~~ 99 (883)
T 1msw_D 20 PFNTLADHYGERLAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKR 99 (883)
T ss_dssp HHHHHTTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCGGGSTTTHHHHHHHHHHHHHHHHHHHHHHHHSCSCC
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCChhhHHHHHHHHHHHHHHHHHHHHHHhcccCcc
Confidence 3444456676 678999999999999999999999999999999999999999999999999999999988776 36779
Q ss_pred cchhhhhccCChhHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHH
Q 003263 245 AAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSK 324 (835)
Q Consensus 245 ~~y~p~L~~l~~e~lA~Iti~~~l~~~~~~~~~~~v~~~~la~~IG~aVe~E~~~~~~~~k~kk~~~~~~~~~~~~~~~k 324 (835)
+.|+|||++|+||++|+|||+++|+++++ .+++++++++.+||++||+|++++++.++.++++.+.
T Consensus 100 ~~~~~~L~~l~~e~lA~iti~~~l~~~~~---~~~~~~~~~~~~iG~ave~E~~~~~~~~~~~~~~~~~----------- 165 (883)
T 1msw_D 100 PTAFQFLQEIKPEAVAYITIKTTLACLTS---ADNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKKN----------- 165 (883)
T ss_dssp CTTTTTTTSSCHHHHHHHHHHHHHHHHHH---CSCCBHHHHHHHHHHHHHHHHHHHHHHHSSCSSHHHH-----------
T ss_pred hHHHHHHHhCCHHHHHHHHHHHHHHHhcc---cCCccHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH-----------
Confidence 99999999999999999999999999987 3568899999999999999999999887665433221
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHhh-c-----CCCCCCCCHHHHHHHHHHHHHHHHHH-ccccCCCCCCCCCCCCccCce
Q 003263 325 EKELLRKRVNSLIKSKRVMEAQKLL-K-----NEETKPWGRDTQAKLGSRLVELLIET-AYVQHPVNPADYSPPDVRPAF 397 (835)
Q Consensus 325 ~~~~l~k~~~~~~k~~~~~~~~~~~-~-----~~~~~~W~~~~~~kvG~~Ll~~L~e~-~~i~~~~~~~~~~~~~~~paF 397 (835)
..+.++++.+...++...+.+.... + ++.+.+|+..++++||++|+++|+++ +.|++....
T Consensus 166 ~~~~l~~~~~~~~k~~~~~~~~~~~~~~g~~~~~~~~~W~~~~~~~vG~~Li~~l~~~~~~~~~~~~~------------ 233 (883)
T 1msw_D 166 VEEQLNKRVGHVYKKAFMQVVEADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQN------------ 233 (883)
T ss_dssp TSHHHHHSCSHHHHHHHHHHHHHHSTTTTTTTTCCCCCCCTTHHHHHHHHHHHHHHHHCTTEEEECC-------------
T ss_pred HHHHHHhcccHHHHHHHHHHHHHHhhhccccccCCCCCCCHHHHHHHHHHHHHHHHHhhCCcceeccc------------
Confidence 1123333333333333333333211 1 26689999999999999999999995 666653221
Q ss_pred eEEeEeeecCCCCccceeEEEEEcCHHHHHHHHhhh---hcccCCCCceeeCCCCCcCCCCcccccC---CccceecCCc
Q 003263 398 RHRFKTILKHPGQKTTKRYGVVECDPLVLEGLDRSA---KHMLIPYVPMLVPPKKWKGYNKGGYLFL---PSYVMRTHGS 471 (835)
Q Consensus 398 ~h~~~~~~~~~g~~~~k~~gvi~~~~~~~~~l~~~~---~~~~~~~LPMlvPPkpW~~~~~GGYL~~---~~~~~R~~~~ 471 (835)
.|.. .+++|+|++||.+++.+.+.. ..+.+.+|||||||+||+++.+||||+. +..++|++..
T Consensus 234 ----------~~~~-~k~~~~i~~~~~~~~~l~~~~~~~~~~~~~~lPMlvpP~pW~~~~~GGYl~~~~~~~~~ir~~~~ 302 (883)
T 1msw_D 234 ----------AGVV-GQDSETIELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSK 302 (883)
T ss_dssp ------------------CCEEEECHHHHHHHHHHHHHHTTSCCCCCCBSSCCBCCSSSBSCBSSSCCSSCCBSEECSST
T ss_pred ----------cCCC-CceeeEEEeCHHHHHHHhhcccchhhcCCCCCceeeCCccCCCCCCCCccCCCcccchhhcccCH
Confidence 1111 357899999999999997642 3355569999999999999999999974 3456776532
Q ss_pred HHHHHHHHhccccchHHHHHHHHhhcCcceEEcHHHHHHHHHHHH-cCCCCCCCCCCCCCCCCCCCCCCC--HHHHHHHH
Q 003263 472 RKQQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESIWV-SGGNIAGLVDRNDVLIPEKPLSED--MTEVQKWK 548 (835)
Q Consensus 472 ~~q~~~lk~~~~~~l~~v~~aLN~Lqst~WrIN~~VL~vi~~~w~-~g~~i~~l~~~~~~p~P~~p~~~d--~~~~~~wk 548 (835)
.++++..+++++.||++||+||+|||+||++||+||+++|+ +|+++++||+..+.|+|++|++.+ ++++++|+
T Consensus 303 ----~~~~~~~~~~l~~v~~aLN~L~~t~w~IN~~vL~vi~~~~~~~g~~~~~ip~~~~~~~P~~p~~~d~~~~~~~~~k 378 (883)
T 1msw_D 303 ----KALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKPEDIDMNPEALTAWK 378 (883)
T ss_dssp ----THHHHTTTCCCHHHHHHHHHHHTCCEEECHHHHHHHHHHTTCSSCSSTTCCCSSCCCCCCC-----------CCTT
T ss_pred ----HHHHhccccchHHHHHHHHHhccCCeEecHHHHHHHHHHHhhcCCcccCCCCcCcCCCCCCCCccccCHHHHHHHH
Confidence 34666677899999999999999999999999999999999 999999999988899999987543 67889999
Q ss_pred HHHHHHHHHHHHhhhhhhhhhHHHHHHHHhcCCCceeeccccCCCCccccCCCCCCCCCchhhhhhhhcccCccCCcchh
Q 003263 549 WSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGL 628 (835)
Q Consensus 549 ~~~~~~~~~~~~~~S~R~~~~~~L~iA~~f~~~~~fYfPhnlDFRGR~YP~~~~Ln~qGsDl~RsLL~FaegkpLG~~Gl 628 (835)
+.++++++.++++||+||+++++|++|++|+|++.||||||+|||||+||+| ||||||+|+|||||+||+|+|||++||
T Consensus 379 ~~~~~~~~~~~~~~S~r~~~~~~L~iA~~f~~~~~fYfPhnlDFRGR~Yp~p-~Ln~~GsDl~RsLL~FaegkpLG~~Gl 457 (883)
T 1msw_D 379 RAAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGY 457 (883)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTTSSSSSCSCBBCCEEEETTSCEEESS-SSCTTSCHHHHHHEEESSCEECHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEeecccCCCCcCCCCC-CCCCCcchHHHHHHHhccCCccChhHH
Confidence 9999999999999999999999999999999988999999999999999995 999999999999999999999999999
Q ss_pred HHHHHHHhhhhcCCCCCCCHHHHHHHHHHHHHHHHHhccCCCCCchhHhhCCChHHHHHHHHHHHHHHhcCCCCcccccc
Q 003263 629 RWLKIHLANLFSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHL 708 (835)
Q Consensus 629 ~WLKIhlANlyG~G~DK~S~deRi~wv~~n~~~I~dsA~dPL~g~~wW~~AD~PwQfLAaC~El~~al~s~dP~~y~S~l 708 (835)
+|||||+||+| |+||+||+||++||++|+++|++||+|||+ .+||++||+||||||+|+||++|+++|+ +|+|||
T Consensus 458 ~WLkIhlAN~~--G~dK~s~~eRi~wv~~n~~~I~dsA~~Pl~-~~wW~~Ad~PwQfLA~C~El~~a~~~~~--~y~S~l 532 (883)
T 1msw_D 458 YWLKIHGANCA--GVDKVPFPERIKFIEENHENIMACAKSPLE-NTWWAEQDSPFCFLAFCFEYAGVQHHGL--SYNCSL 532 (883)
T ss_dssp HHHHHHHHHHT--TCCSSCHHHHHHHHHHTHHHHHHHHHCHHH-HCGGGGSSSHHHHHHHHHHHHHHHHHCT--TCEECC
T ss_pred HHHHHHHHHhc--CCCcCCHHHHHHHHHHHHHHHHHHhcCccc-chHHHcCCcHHHHHHHHHHHHHHHhCCC--cccccc
Confidence 99999999999 899999999999999999999999999999 5899999999999999999999999876 999999
Q ss_pred cccccCCchhhHHHHHhhCChhhhcccccCCCCCcccchhHHHHHHHHHHHhhcCCCCCC------C-------------
Q 003263 709 PIHQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSK------H------------- 769 (835)
Q Consensus 709 PVhqDGSCNGLQHyAALgrD~~Ga~~VNLipsd~PqDVYs~Va~~V~~~i~~da~~d~~~------~------------- 769 (835)
||||||||||||||||||||.+||++|||+|+|+|||||+.||+.|.+.+++|+.+|.+. +
T Consensus 533 PVhqDgSCnGLQHyAALgrD~~ga~~VNL~psd~PqDvYs~Va~~v~~~~~~da~~g~~~~~~~~~d~~~g~i~e~~~~~ 612 (883)
T 1msw_D 533 PLAFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLG 612 (883)
T ss_dssp CEEEECSCHHHHHHHHHHTCTTHHHHTTCSCCSSCCCHHHHHHHHHHHHHHHHHTTSCCCCCCCSSSSSSCCSSCCCCCC
T ss_pred ccccCCCCcHHHHHHHHhcChhhhhHhCCCCCCCCcchHHHHHHHHHHHHHHHHhcccccccccccccccccchhhcccc
Confidence 999999999999999999999999999999999999999999999999999998765321 0
Q ss_pred cHHHHHHHcccCCCcccccccccccccccchhhHHHHHHHHHhhCCCCCCh----HHHHHhhhhhhhcc
Q 003263 770 PQALLAKILIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHITDD----RQLFAAACYAAKVS 834 (835)
Q Consensus 770 ~~~~~ak~l~~~I~RKvVKqtVMT~vYGvT~~Gar~QI~~~L~e~g~i~d~----~~~~~aa~Ylak~t 834 (835)
.....+++|.++|+||+|||||||+|||||++|+++||+++|+++++..++ .....+|+|||++|
T Consensus 613 ~~~l~~~~l~~~i~RKvvKqtVMT~vYGvT~~Ga~~qI~~~l~~~~~~~~~~~~~~~~~~~a~yla~~i 681 (883)
T 1msw_D 613 TKALAGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLI 681 (883)
T ss_dssp HHHHHHHHHTTCCCHHHHHHHHHGGGGTCCHHHHHHHHHHHTHHHHHHTSCCCSCSSHHHHHHHHHHHH
T ss_pred hhHHHHHHHhcCCCHHHhccceeeeeeCCcchhhHHHHHHHHhhhhccccccccccchhHHHHHHHHHH
Confidence 112346788899999999999999999999999999999999985332111 12358999999976
|
| >3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} | Back alignment and structure |
|---|
| >3q23_A Virion RNA polymerase; protein-DNA complex; HET: DNA G2P; 1.80A {Enterobacteria phage N4} PDB: 3q0a_A* 3q22_A* 4ff1_A 4ff2_A* 4ff3_A* 4ff4_A* 3q24_A* 3c3l_A 3c46_A 3c2p_A* 2po4_A | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 835 | ||||
| d1mswd_ | 882 | e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [ | 1e-154 |
| >d1mswd_ e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760]} Length = 882 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA/RNA polymerases superfamily: DNA/RNA polymerases family: T7 RNA polymerase domain: T7 RNA polymerase species: Bacteriophage T7 [TaxId: 10760]
Score = 473 bits (1217), Expect = e-154
Identities = 156/686 (22%), Positives = 291/686 (42%), Gaps = 67/686 (9%)
Query: 178 LRRRQVKQETEAWERMVDEYKELEAKMIEKRLAPNLPHIKGLFLGWFGPLSEAIEREQKM 237
L R Q+ E E++E ++++ + ++ + K L + I +
Sbjct: 31 LAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEE 90
Query: 238 QRTKK-QKAAYAPHIELLPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQE 296
+ K+ ++ ++ + + VA I + + + + V A IG AIE E
Sbjct: 91 VKAKRGKRPTAFQFLQEIKPEAVAYITIKTTLACLTSADNTT---VQAVASAIGRAIEDE 147
Query: 297 IRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRVNSLIKSKRVMEAQKLLKNEETKP 356
R + + +K + E++ + + +K ++++ + + LL E
Sbjct: 148 ARFGRIRDLEAKHFKKNV---EEQLNKRVGHVYKKAFMQVVEADMLSKG--LLGGEAWSS 202
Query: 357 WGRDTQAKLGSRLVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKTILKHPGQKTTKRY 416
W ++ +G R +E+LIE+ + + +
Sbjct: 203 WHKEDSIHVGVRCIEMLIESTGMVSLH----------------------RQNAGVVGQDS 240
Query: 417 GVVECDPLVLEGLDRSAKHM--LIP-YVPMLVPPKKWKGYNKGGYLFLPSYVMRTHGSRK 473
+E P E + A + + P + P +VPPK W G GGY + +
Sbjct: 241 ETIELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTH- 299
Query: 474 QQEALKSVTGNCMKKVFEALDTLGSTKWRVNKQVLSVLESIWVSGGNIAG---LVDRNDV 530
++AL M +V++A++ +T W++NK+VL+V I ++R ++
Sbjct: 300 SKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREEL 359
Query: 531 LIPEKPLSEDMTEVQKWKWSVRKAKKINQERHSQRCDTELKLSVARRMKDEEGFYYPHNL 590
+ + + + + WK + + ++ R S+R E L A + + + ++P+N+
Sbjct: 360 PMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWFPYNM 419
Query: 591 DFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLKIHLANLFSGGVEKLSHDG 650
D+RGR Y N +D+ +G+L A+G+P+GK G WLKIH AN GV+K+
Sbjct: 420 DWRGRVYA-VSMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGANCA--GVDKVPFPE 476
Query: 651 RLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHLPI 710
R+ F+E + I A++P+ WW + PF LA C + S LP+
Sbjct: 477 RIKFIEENHENIMACAKSPLEN-TWWAEQDSPFCFLAFCFEYAGVQHH--GLSYNCSLPL 533
Query: 711 HQDGSCNGLQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSKH- 769
DGSC+G+QH++A+ R+ + AVNL+ E D+Y +A +V+EI++ D+
Sbjct: 534 AFDGSCSGIQHFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAINGTDNEV 593
Query: 770 ------------------PQALLAKILIDQVDRKLVKQTVMTSVYGVTFVGAREQIKRRL 811
+AL + L V R + K++VMT YG G R+Q+
Sbjct: 594 VTVTDENTGEISEKVKLGTKALAGQWLAYGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDT 653
Query: 812 EEKGHITDDRQLF----AAACYAAKV 833
+ + +F AA Y AK+
Sbjct: 654 IQPAIDSGKGLMFTQPNQAAGYMAKL 679
|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 835 | |||
| d1mswd_ | 882 | T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760] | 100.0 |
| >d1mswd_ e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA/RNA polymerases superfamily: DNA/RNA polymerases family: T7 RNA polymerase domain: T7 RNA polymerase species: Bacteriophage T7 [TaxId: 10760]
Probab=100.00 E-value=3.2e-136 Score=1226.34 Aligned_cols=614 Identities=27% Similarity=0.433 Sum_probs=510.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHh-ccCccchhhhhcc
Q 003263 175 FNLLRRRQVKQETEAWERMVDEYKELEAKMIEKRLAPNLPHIKGLFLGWFGPLSEAIEREQKMQRT-KKQKAAYAPHIEL 253 (835)
Q Consensus 175 ~~~l~~RQ~~LE~~a~~~a~~r~r~~~~~~~~~g~a~~~~~~~~ll~~w~~~L~~~I~~e~~~~~~-~~~r~~y~p~L~~ 253 (835)
-..|++||++||+++++.|++||++.+++++++|.+++++++++++.+|+++|+++|++++++.+. .|.++.|+|||+.
T Consensus 28 ~~~L~~rQ~~LE~ea~~~g~~R~r~~~e~~~~rg~~s~~~~g~~li~~~l~~l~~~I~~~~~~~~~~~G~~~~~~~yL~~ 107 (882)
T d1mswd_ 28 GERLAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRPTAFQFLQE 107 (882)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCGGGSTTTHHHHHHHHHHHHHHHHHHHHHHHHSCSCCCTTTTTTTS
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHhc
Confidence 345889999999999999999999999999999999999999999999999999999999887754 4778899999999
Q ss_pred CChhHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHHHHHHHH
Q 003263 254 LPADKVAVIVMHKMMGLVMAGHEDRCVQVVQAAVHIGMAIEQEIRIHSFLEKTKNYKRKKIIADTEEVLSKEKELLRKRV 333 (835)
Q Consensus 254 l~~e~lA~Iti~~~l~~~~~~~~~~~v~~~~la~~IG~aVe~E~~~~~~~~k~kk~~~~~~~~~~~~~~~k~~~~l~k~~ 333 (835)
|+||++|+|||+++|++++++ ++.++++++.+||++||+|++++++.+.++++..+... +.++++.
T Consensus 108 l~pe~lA~Itik~~ld~l~~~---~~~~~t~va~~IG~AVE~E~r~~~~~~~~~~~~~k~~~-----------~~~~k~~ 173 (882)
T d1mswd_ 108 IKPEAVAYITIKTTLACLTSA---DNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKKNVE-----------EQLNKRV 173 (882)
T ss_dssp SCHHHHHHHHHHHHHHHHHHC---SCCBHHHHHHHHHHHHHHHHHHHHHHHSSCSSHHHHTS-----------HHHHHSC
T ss_pred CCHHHHHHHHHHHHHHHhcCC---CCChHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHhhH-----------HHHHHHh
Confidence 999999999999999999874 34679999999999999999999988766554332111 1222222
Q ss_pred HHHHHhHHHHHHH------HhhcCCCCCCCCHHHHHHHHHHHHHHHHHHccccCCCCCCCCCCCCccCceeEEeEeeecC
Q 003263 334 NSLIKSKRVMEAQ------KLLKNEETKPWGRDTQAKLGSRLVELLIETAYVQHPVNPADYSPPDVRPAFRHRFKTILKH 407 (835)
Q Consensus 334 ~~~~k~~~~~~~~------~~~~~~~~~~W~~~~~~kvG~~Ll~~L~e~~~i~~~~~~~~~~~~~~~paF~h~~~~~~~~ 407 (835)
+...++...+.+. ....++.|.+|+..++++||++|+++|++++.+...... .
T Consensus 174 ~~~~kk~~~~~~~~~~~~~~~~~~~~w~~W~~~~r~kVG~~Lle~l~e~tg~~~~~~~---------------------~ 232 (882)
T d1mswd_ 174 GHVYKKAFMQVVEADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQ---------------------N 232 (882)
T ss_dssp SHHHHHHHHHHHHHHSTTTTTTTTCCCCCCCTTHHHHHHHHHHHHHHHHCTTEEEECC----------------------
T ss_pred hHHHHHHHHHHHHHHHHHhhhccccccCccCHHHHHHHHHHHHHHHHHHhCCceeecc---------------------c
Confidence 3333333222222 122236789999999999999999999999875321111 0
Q ss_pred CCCccceeEEEEEcCHHHHHHHHhhhh---cccCCCCceeeCCCCCcCCCCcccccCCc---cceecCCcHHHHHHHHhc
Q 003263 408 PGQKTTKRYGVVECDPLVLEGLDRSAK---HMLIPYVPMLVPPKKWKGYNKGGYLFLPS---YVMRTHGSRKQQEALKSV 481 (835)
Q Consensus 408 ~g~~~~k~~gvi~~~~~~~~~l~~~~~---~~~~~~LPMlvPPkpW~~~~~GGYL~~~~---~~~R~~~~~~q~~~lk~~ 481 (835)
.|.. +++.+++.++|++.+.++.... .+.+.+|||||||+||++..+||||+... .++|++.. .++.+.
T Consensus 233 ~~~~-~k~~~~v~~t~~~~~~l~~~~~~~~~~~P~~lPMlvpP~pW~~~~~GGYl~~~~~~~~~~~~~~~----~~~~~~ 307 (882)
T d1mswd_ 233 AGVV-GQDSETIELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSK----KALMRY 307 (882)
T ss_dssp --------CCEEEECHHHHHHHHHHHHHHTTSCCCCCCBSSCCBCCSSSBSCBSSSCCSSCCBSEECSST----THHHHT
T ss_pred cccc-cCcCcceeecHHHHHHHHhhHhHHHhcCcccccccCCCccCCCCCcCCeeecCCCceeccccccH----hhhhhc
Confidence 1211 3567789999999988865432 23344999999999999999999998544 35555442 234445
Q ss_pred cccchHHHHHHHHhhcCcceEEcHHHHHHHHHHHH-cCCCCCCCCCCCCCCCCCCCC--CCCHHHHHHHHHHHHHHHHHH
Q 003263 482 TGNCMKKVFEALDTLGSTKWRVNKQVLSVLESIWV-SGGNIAGLVDRNDVLIPEKPL--SEDMTEVQKWKWSVRKAKKIN 558 (835)
Q Consensus 482 ~~~~l~~v~~aLN~Lqst~WrIN~~VL~vi~~~w~-~g~~i~~l~~~~~~p~P~~p~--~~d~~~~~~wk~~~~~~~~~~ 558 (835)
...+++.+|++||+||+|||+||+.||+|++++|+ .|+.++++|+....+.|++|. +.+++++++|++..+++++.+
T Consensus 308 ~~~~l~~v~~aLN~LQst~wrIN~~vLdv~~~~~~~~~~~~~~iP~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~ 387 (882)
T d1mswd_ 308 EDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKPEDIDMNPEALTAWKRAAAAVYRKD 387 (882)
T ss_dssp TTCCCHHHHHHHHHHHTCCEEECHHHHHHHHHHTTCSSCSSTTCCCSSCCCCCCC-----------CCTTHHHHHHHHHH
T ss_pred cccchHHHHHHHHHHhcCCeEeCHHHHHHHHHHHhcCCCcccccCcccccccCCcccccccCHHHHHHHHHHHHHHHHHH
Confidence 66789999999999999999999999999999998 556788898877666676655 446778999999999999999
Q ss_pred HHhhhhhhhhhHHHHHHHHhcCCCceeeccccCCCCccccCCCCCCCCCchhhhhhhhcccCccCCcchhHHHHHHHhhh
Q 003263 559 QERHSQRCDTELKLSVARRMKDEEGFYYPHNLDFRGRAYPMHPHLNHLSSDVCRGVLEFAEGRPLGKSGLRWLKIHLANL 638 (835)
Q Consensus 559 ~~~~S~R~~~~~~L~iA~~f~~~~~fYfPhnlDFRGR~YP~~~~Ln~qGsDl~RsLL~FaegkpLG~~Gl~WLKIhlANl 638 (835)
.+.+|+||+++++|++|++|+|+++||||||+|||||+||+ |+|||||+|+|||||+||+|+|||++|++|||||+||+
T Consensus 388 ~~~~s~r~~~~~~l~~A~~~~~~~~fy~P~~~DfRGR~Y~~-~~ln~qg~D~~rsLl~Fa~~~~l~~~g~~wL~i~~An~ 466 (882)
T d1mswd_ 388 KARKSRRISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAV-SMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGANC 466 (882)
T ss_dssp HHHHHHHHHHHHHHTTTSSSSSCSCBBCCEEEETTSCEEES-SSSCTTSCHHHHHHEEESSCEECHHHHHHHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHHhCCCCceeeeeeeecccccccC-CCCCCCccchhhhhhhccCCCcccchhHHHHHHHHHhc
Confidence 99999999999999999999998889999999999999997 58999999999999999999999999999999999999
Q ss_pred hcCCCCCCCHHHHHHHHHHHHHHHHHhccCCCCCchhHhhCCChHHHHHHHHHHHHHHhcCCCCcccccccccccCCchh
Q 003263 639 FSGGVEKLSHDGRLAFVENHLYEIFDSAENPINGSRWWLTAEDPFQCLAACINLSEALKSSSPHSVISHLPIHQDGSCNG 718 (835)
Q Consensus 639 yG~G~DK~S~deRi~wv~~n~~~I~dsA~dPL~g~~wW~~AD~PwQfLAaC~El~~al~s~dP~~y~S~lPVhqDGSCNG 718 (835)
| |+||+||+||++||++|++.|+++|+||+.+ .||.+||+||||||+|+||++++.++ +.|+|+|||||||||||
T Consensus 467 ~--g~dK~s~~~r~~w~~~~~~~i~~~~~dp~~~-~~w~~a~~p~qfla~c~e~~~~~~~~--~~~~s~lpv~~D~scnG 541 (882)
T d1mswd_ 467 A--GVDKVPFPERIKFIEENHENIMACAKSPLEN-TWWAEQDSPFCFLAFCFEYAGVQHHG--LSYNCSLPLAFDGSCSG 541 (882)
T ss_dssp T--TCCSSCHHHHHHHHHHTHHHHHHHHHCHHHH-CGGGGSSSHHHHHHHHHHHHHHHHHC--TTCEECCCEEEECSCHH
T ss_pred c--CcchhhHHHHHHHHHHhHHHHHhhhcCcchh-hhhhhCchhHHHHHHHHHHHHHHhcC--CcccccceeeeccCccH
Confidence 9 8999999999999999999999999999984 89999999999999999999999864 68999999999999999
Q ss_pred hHHHHHhhCChhhhcccccCCCCCcccchhHHHHHHHHHHHhhcCCCCCC-------------------CcHHHHHHHcc
Q 003263 719 LQHYAALGRNTLEAAAVNLVAGEKPADVYSEIAVRVHEIMKRDSNKDPSK-------------------HPQALLAKILI 779 (835)
Q Consensus 719 LQHyAALgrD~~Ga~~VNLipsd~PqDVYs~Va~~V~~~i~~da~~d~~~-------------------~~~~~~ak~l~ 779 (835)
|||||||+||..||++|||+|+|+|+|||+.||+.|.+.+++|+..+.+. ......++++.
T Consensus 542 ~Qh~aal~~d~~~a~~vNL~p~~~p~DvY~~va~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 621 (882)
T d1mswd_ 542 IQHFSAMLRDEVGGRAVNLLPSETVQDIYGIVAKKVNEILQADAINGTDNEVVTVTDENTGEISEKVKLGTKALAGQWLA 621 (882)
T ss_dssp HHHHHHHHTCTTHHHHTTCSCCSSCCCHHHHHHHHHHHHHHHHHTTSCCCCCCCSSSSSSCCSSCCCCCCHHHHHHHHHT
T ss_pred HHHHHHHhcCHHHHHhcCCCCCCCCccHHHHHHHHHHHHHHHhhhccccccccccccccccchhhhcccchHHHHHHHhh
Confidence 99999999999999999999999999999999999999999998765431 12334567888
Q ss_pred cCCCcccccccccccccccchhhHHHHHHHHHhhCCCC----CChHHHHHhhhhhhhcc
Q 003263 780 DQVDRKLVKQTVMTSVYGVTFVGAREQIKRRLEEKGHI----TDDRQLFAAACYAAKVS 834 (835)
Q Consensus 780 ~~I~RKvVKqtVMT~vYGvT~~Gar~QI~~~L~e~g~i----~d~~~~~~aa~Ylak~t 834 (835)
.+|+||+|||+|||+|||||++|+++||.++|.+++.. ....+.+.+|.|||+++
T Consensus 622 ~~i~Rk~vK~~vMT~~YG~t~~g~~~qi~~~l~~~~~~~~~~~~~~~~~~~~~yla~~i 680 (882)
T d1mswd_ 622 YGVTRSVTKRSVMTLAYGSKEFGFRQQVLEDTIQPAIDSGKGLMFTQPNQAAGYMAKLI 680 (882)
T ss_dssp TCCCHHHHHHHHHGGGGTCCHHHHHHHHHHHTHHHHHHTSCCCSCSSHHHHHHHHHHHH
T ss_pred cccchhhhccceeeeecccchhhHHHHHHHHHhhhcccccccccccchhHHHHHHHHHH
Confidence 89999999999999999999999999999999765321 11124689999999874
|