Psyllid ID: psy6965
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 | 1764 | 2.2.26 [Sep-21-2011] | |||||||
| P04052 | 1887 | DNA-directed RNA polymera | yes | N/A | 0.159 | 0.148 | 0.786 | 1e-135 | |
| P08775 | 1970 | DNA-directed RNA polymera | yes | N/A | 0.162 | 0.145 | 0.682 | 1e-118 | |
| P24928 | 1970 | DNA-directed RNA polymera | yes | N/A | 0.162 | 0.145 | 0.682 | 1e-118 | |
| P16356 | 1856 | DNA-directed RNA polymera | yes | N/A | 0.159 | 0.151 | 0.649 | 1e-110 | |
| P35074 | 1853 | DNA-directed RNA polymera | N/A | N/A | 0.158 | 0.150 | 0.656 | 1e-108 | |
| P35084 | 1727 | DNA-directed RNA polymera | yes | N/A | 0.140 | 0.143 | 0.509 | 7e-67 | |
| P18616 | 1839 | DNA-directed RNA polymera | yes | N/A | 0.141 | 0.135 | 0.507 | 7e-64 | |
| P36594 | 1752 | DNA-directed RNA polymera | yes | N/A | 0.123 | 0.123 | 0.512 | 8e-60 | |
| A5DCV3 | 1579 | DNA-directed RNA polymera | N/A | N/A | 0.108 | 0.121 | 0.548 | 4e-57 | |
| P14248 | 2452 | DNA-directed RNA polymera | N/A | N/A | 0.112 | 0.080 | 0.509 | 2e-54 |
| >sp|P04052|RPB1_DROME DNA-directed RNA polymerase II subunit RPB1 OS=Drosophila melanogaster GN=RpII215 PE=3 SV=4 | Back alignment and function desciption |
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Score = 484 bits (1247), Expect = e-135, Method: Compositional matrix adjust.
Identities = 232/295 (78%), Positives = 249/295 (84%), Gaps = 14/295 (4%)
Query: 1460 IRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK 1519
IRIMN++++K QDE++AVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK
Sbjct: 1251 IRIMNNEENKFQDEDEAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK 1310
Query: 1520 RIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSV 1579
RI+ITE+GEFKAI +WLLETDGTS+MKVLSERDVDP+RT SNDICEIFQVLGIEAVRKSV
Sbjct: 1311 RIVITETGEFKAIGEWLLETDGTSMMKVLSERDVDPIRTSSNDICEIFQVLGIEAVRKSV 1370
Query: 1580 EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1639
EKEMN VLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV
Sbjct: 1371 EKEMNAVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1430
Query: 1640 LMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKDGIEIP--LATGMMGGP 1697
LMDAAAHAE DPMRGVSENIIMGQLP+MGTGCFDLLLDAEKC+ GIEIP L M+GG
Sbjct: 1431 LMDAAAHAETDPMRGVSENIIMGQLPKMGTGCFDLLLDAEKCRFGIEIPNTLGNSMLGG- 1489
Query: 1698 AGMFFGSAATPSSMIHNPLQTPH---NTS--LTNATHQSRDKAFAPSELFLSPDS 1747
A MF G +TPS P TP NT + H S A P SP +
Sbjct: 1490 AAMFIGGGSTPSM---TPPMTPWANCNTPRYFSPPGHVS---AMTPGGPSFSPSA 1538
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Largest and catalytic component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Forms the polymerase active center together with the second largest subunit. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB1 is part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template. At the start of transcription, a single stranded DNA template strand of the promoter is positioned within the central active site cleft of Pol II. A bridging helix emanates from RPB1 and crosses the cleft near the catalytic site and is thought to promote translocation of Pol II by acting as a ratchet that moves the RNA-DNA hybrid through the active site by switching from straight to bent conformations at each step of nucleotide addition. During transcription elongation, Pol II moves on the template as the transcript elongates. Elongation is influenced by the phosphorylation status of the C-terminal domain (CTD) of Pol II largest subunit (RPB1), which serves as a platform for assembly of factors that regulate transcription initiation, elongation, termination and mRNA processing. Drosophila melanogaster (taxid: 7227) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|P08775|RPB1_MOUSE DNA-directed RNA polymerase II subunit RPB1 OS=Mus musculus GN=Polr2a PE=1 SV=3 | Back alignment and function description |
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| >sp|P24928|RPB1_HUMAN DNA-directed RNA polymerase II subunit RPB1 OS=Homo sapiens GN=POLR2A PE=1 SV=2 | Back alignment and function description |
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| >sp|P16356|RPB1_CAEEL DNA-directed RNA polymerase II subunit RPB1 OS=Caenorhabditis elegans GN=ama-1 PE=1 SV=3 | Back alignment and function description |
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| >sp|P35074|RPB1_CAEBR DNA-directed RNA polymerase II subunit RPB1 OS=Caenorhabditis briggsae GN=rpb-1 PE=3 SV=2 | Back alignment and function description |
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| >sp|P35084|RPB1_DICDI DNA-directed RNA polymerase II subunit rpb1 OS=Dictyostelium discoideum GN=polr2a PE=2 SV=2 | Back alignment and function description |
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| >sp|P18616|RPB1_ARATH DNA-directed RNA polymerase II subunit RPB1 OS=Arabidopsis thaliana GN=RPB205 PE=1 SV=3 | Back alignment and function description |
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| >sp|P36594|RPB1_SCHPO DNA-directed RNA polymerase II subunit rpb1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpb1 PE=1 SV=1 | Back alignment and function description |
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| >sp|A5DCV3|RPB1_PICGU DNA-directed RNA polymerase II subunit RPB1 (Fragments) OS=Meyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) GN=RPB1 PE=3 SV=2 | Back alignment and function description |
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| >sp|P14248|RPB1_PLAFD DNA-directed RNA polymerase II subunit RPB1 OS=Plasmodium falciparum (isolate CDC / Honduras) GN=RPII PE=3 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 | 1764 | ||||||
| 324120564 | 1793 | RNA polymerase II largest subunit [Bemis | 0.160 | 0.158 | 0.823 | 1e-140 | |
| 324120548 | 1862 | RNA polymerase II largest subunit [Zorot | 0.157 | 0.148 | 0.818 | 1e-140 | |
| 324120540 | 1909 | RNA polymerase II largest subunit [Teleo | 0.157 | 0.145 | 0.829 | 1e-139 | |
| 324120558 | 1687 | RNA polymerase II largest subunit [Gynai | 0.158 | 0.165 | 0.825 | 1e-138 | |
| 324120516 | 1699 | RNA polymerase II largest subunit [Therm | 0.160 | 0.167 | 0.812 | 1e-138 | |
| 383857287 | 1904 | PREDICTED: DNA-directed RNA polymerase I | 0.154 | 0.142 | 0.833 | 1e-137 | |
| 324120546 | 1744 | RNA polymerase II largest subunit [Forfi | 0.154 | 0.156 | 0.819 | 1e-137 | |
| 324120572 | 1708 | RNA polymerase II largest subunit [Vespa | 0.154 | 0.159 | 0.833 | 1e-137 | |
| 380029407 | 1893 | PREDICTED: LOW QUALITY PROTEIN: DNA-dire | 0.154 | 0.143 | 0.830 | 1e-137 | |
| 324120518 | 1775 | RNA polymerase II largest subunit [Isole | 0.160 | 0.16 | 0.802 | 1e-137 |
| >gi|324120564|dbj|BAJ78673.1| RNA polymerase II largest subunit [Bemisia tabaci] | Back alignment and taxonomy information |
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Score = 506 bits (1303), Expect = e-140, Method: Compositional matrix adjust.
Identities = 242/294 (82%), Positives = 250/294 (85%), Gaps = 10/294 (3%)
Query: 1460 IRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK 1519
IRIMNSDD+K+QDEED VDKMEDDMFLRCIEANMLSDMTLQGIEAI KVYMHLPQTDSKK
Sbjct: 1253 IRIMNSDDNKLQDEEDTVDKMEDDMFLRCIEANMLSDMTLQGIEAISKVYMHLPQTDSKK 1312
Query: 1520 RIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSV 1579
RI++TE+GEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIF VLGIEAVRKSV
Sbjct: 1313 RIVVTETGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFAVLGIEAVRKSV 1372
Query: 1580 EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1639
EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV
Sbjct: 1373 EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1432
Query: 1640 LMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKDGIEIP--LATGMMGGP 1697
LMDAA+HAE DPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCK GIEIP + GMM G
Sbjct: 1433 LMDAASHAEVDPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKAGIEIPMNIGAGMMSG- 1491
Query: 1698 AGMFFGSAATPSSMIHNPLQTPHNTSLTNATHQSRDKAFA----PSELFLSPDS 1747
AGMFFGS ATPS +P TP N T A P SP
Sbjct: 1492 AGMFFGSMATPSM---SPQMTPWNVGATPGYGSVWSPAVGSGMTPGGPNFSPSG 1542
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Source: Bemisia tabaci Species: Bemisia tabaci Genus: Bemisia Family: Aleyrodidae Order: Hemiptera Class: Insecta Phylum: Arthropoda Superkingdom: Eukaryota |
| >gi|324120548|dbj|BAJ78665.1| RNA polymerase II largest subunit [Zorotypus sp. 154-1] | Back alignment and taxonomy information |
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| >gi|324120540|dbj|BAJ78661.1| RNA polymerase II largest subunit [Teleogryllus emma] | Back alignment and taxonomy information |
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| >gi|324120558|dbj|BAJ78670.1| RNA polymerase II largest subunit [Gynaikothrips ficorum] | Back alignment and taxonomy information |
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| >gi|324120516|dbj|BAJ78649.1| RNA polymerase II largest subunit [Thermobia domestica] | Back alignment and taxonomy information |
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| >gi|383857287|ref|XP_003704136.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB1-like [Megachile rotundata] | Back alignment and taxonomy information |
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| >gi|324120546|dbj|BAJ78664.1| RNA polymerase II largest subunit [Forficula hiromasai] | Back alignment and taxonomy information |
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| >gi|324120572|dbj|BAJ78677.1| RNA polymerase II largest subunit [Vespa analis insularis] | Back alignment and taxonomy information |
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| >gi|380029407|ref|XP_003698365.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase II subunit RPB1-like [Apis florea] | Back alignment and taxonomy information |
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| >gi|324120518|dbj|BAJ78650.1| RNA polymerase II largest subunit [Isolepisma japonica] | 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 | 1764 | ||||||
| FB|FBgn0003277 | 1887 | RpII215 "RNA polymerase II 215 | 0.138 | 0.129 | 0.873 | 1.1e-108 | |
| UNIPROTKB|J9NW09 | 1789 | POLR2A "DNA-directed RNA polym | 0.162 | 0.159 | 0.664 | 3e-92 | |
| UNIPROTKB|P24928 | 1970 | POLR2A "DNA-directed RNA polym | 0.162 | 0.145 | 0.664 | 3.6e-91 | |
| MGI|MGI:98086 | 1970 | Polr2a "polymerase (RNA) II (D | 0.162 | 0.145 | 0.664 | 3.6e-91 | |
| RGD|1587326 | 1970 | Polr2a "polymerase (RNA) II (D | 0.162 | 0.145 | 0.664 | 3.6e-91 | |
| UNIPROTKB|F1PGS0 | 1969 | POLR2A "DNA-directed RNA polym | 0.162 | 0.145 | 0.664 | 9.3e-91 | |
| ZFIN|ZDB-GENE-041008-78 | 1965 | polr2a "polymerase (RNA) II (D | 0.162 | 0.145 | 0.657 | 1.2e-90 | |
| WB|WBGene00000123 | 1856 | ama-1 [Caenorhabditis elegans | 0.159 | 0.151 | 0.627 | 1e-88 | |
| UNIPROTKB|P16356 | 1856 | ama-1 "DNA-directed RNA polyme | 0.159 | 0.151 | 0.627 | 1e-88 | |
| UNIPROTKB|G3MZY8 | 1970 | POLR2A "DNA-directed RNA polym | 0.162 | 0.145 | 0.631 | 4.8e-83 |
| FB|FBgn0003277 RpII215 "RNA polymerase II 215kD subunit" [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
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Score = 1113 (396.9 bits), Expect = 1.1e-108, Sum P(2) = 1.1e-108
Identities = 214/245 (87%), Positives = 230/245 (93%)
Query: 1444 LRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIE 1503
L CI + +D + IRIMN++++K QDE++AVDKMEDDMFLRCIEANMLSDMTLQGIE
Sbjct: 1235 LNCIFNDDNADKLVLRIRIMNNEENKFQDEDEAVDKMEDDMFLRCIEANMLSDMTLQGIE 1294
Query: 1504 AIGKVYMHLPQTDSKKRIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDI 1563
AIGKVYMHLPQTDSKKRI+ITE+GEFKAI +WLLETDGTS+MKVLSERDVDP+RT SNDI
Sbjct: 1295 AIGKVYMHLPQTDSKKRIVITETGEFKAIGEWLLETDGTSMMKVLSERDVDPIRTSSNDI 1354
Query: 1564 CEIFQVLGIEAVRKSVEKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQ 1623
CEIFQVLGIEAVRKSVEKEMN VLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQ
Sbjct: 1355 CEIFQVLGIEAVRKSVEKEMNAVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQ 1414
Query: 1624 DTGALMRCSFEETVDVLMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKD 1683
DTGALMRCSFEETVDVLMDAAAHAE DPMRGVSENIIMGQLP+MGTGCFDLLLDAEKC+
Sbjct: 1415 DTGALMRCSFEETVDVLMDAAAHAETDPMRGVSENIIMGQLPKMGTGCFDLLLDAEKCRF 1474
Query: 1684 GIEIP 1688
GIEIP
Sbjct: 1475 GIEIP 1479
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| UNIPROTKB|J9NW09 POLR2A "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P24928 POLR2A "DNA-directed RNA polymerase II subunit RPB1" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
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| MGI|MGI:98086 Polr2a "polymerase (RNA) II (DNA directed) polypeptide A" [Mus musculus (taxid:10090)] | Back alignment and assigned GO terms |
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| RGD|1587326 Polr2a "polymerase (RNA) II (DNA directed) polypeptide A" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
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| UNIPROTKB|F1PGS0 POLR2A "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
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| ZFIN|ZDB-GENE-041008-78 polr2a "polymerase (RNA) II (DNA directed) polypeptide A" [Danio rerio (taxid:7955)] | Back alignment and assigned GO terms |
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| WB|WBGene00000123 ama-1 [Caenorhabditis elegans (taxid:6239)] | Back alignment and assigned GO terms |
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| UNIPROTKB|P16356 ama-1 "DNA-directed RNA polymerase II subunit RPB1" [Caenorhabditis elegans (taxid:6239)] | Back alignment and assigned GO terms |
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| UNIPROTKB|G3MZY8 POLR2A "DNA-directed RNA polymerase" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
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Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
No confident hit for EC number transfering in SWISSPROT detected by BLAST
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | LOW CONFIDENCE prediction! |
| 4th Layer | 2.7.7.6 | LOW CONFIDENCE prediction! |
Prediction of Functionally Associated Proteins
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1764 | |||
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 1e-105 | |
| TIGR02389 | 367 | TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymer | 5e-42 | |
| cd06528 | 363 | cd06528, RNAP_A'', A'' subunit of Archaeal RNA Pol | 1e-40 | |
| PRK04309 | 383 | PRK04309, PRK04309, DNA-directed RNA polymerase su | 1e-39 | |
| cd02736 | 300 | cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) o | 1e-38 | |
| cd00630 | 158 | cd00630, RNAP_largest_subunit_C, Largest subunit o | 7e-36 | |
| pfam04998 | 447 | pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, do | 2e-33 | |
| PRK14898 | 858 | PRK14898, PRK14898, DNA-directed RNA polymerase su | 1e-31 | |
| PRK14897 | 509 | PRK14897, PRK14897, unknown domain/DNA-directed RN | 2e-31 | |
| cd02735 | 309 | cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of | 2e-27 | |
| PRK14977 | 1321 | PRK14977, PRK14977, bifunctional DNA-directed RNA | 1e-26 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 4e-20 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 8e-20 | |
| COG0086 | 808 | COG0086, RpoC, DNA-directed RNA polymerase, beta' | 2e-13 | |
| cd02655 | 204 | cd02655, RNAP_beta'_C, Largest subunit (beta') of | 8e-06 | |
| cd02737 | 381 | cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) | 1e-05 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 6e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| cd02584 | 410 | cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of | 7e-05 | |
| TIGR02386 | 1140 | TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, | 1e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| pfam04990 | 135 | pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, do | 2e-04 | |
| TIGR02388 | 1227 | TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase | 4e-04 | |
| PRK00566 | 1156 | PRK00566, PRK00566, DNA-directed RNA polymerase su | 0.001 | |
| PRK02597 | 1331 | PRK02597, rpoC2, DNA-directed RNA polymerase subun | 0.003 |
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
Score = 342 bits (880), Expect = e-105
Identities = 137/218 (62%), Positives = 168/218 (77%), Gaps = 11/218 (5%)
Query: 1460 IRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK 1519
IRI+N D+ K +D EDD+FL+ IE+NMLSDMTL+GIE I + ++KK
Sbjct: 204 IRIINDDEEKEED-------SEDDVFLKKIESNMLSDMTLKGIEGI---RKVFIREENKK 253
Query: 1520 RIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSV 1579
++ I E+GEFK +W+LETDG +L +VLS VDP RT SNDI EIF+VLGIEA RK++
Sbjct: 254 KVDI-ETGEFKKREEWVLETDGVNLREVLSHPGVDPTRTTSNDIVEIFEVLGIEAARKAL 312
Query: 1580 EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1639
KE+ V+ F G YVNYRHLALLCDVMT +GHLMAITRHGINRQDTG LMRCSFEETVD+
Sbjct: 313 LKELRNVISFDGSYVNYRHLALLCDVMTQRGHLMAITRHGINRQDTGPLMRCSFEETVDI 372
Query: 1640 LMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLD 1677
L++AAA E D ++GVSENI++GQL +GTGCFDLLLD
Sbjct: 373 LLEAAAFGETDDLKGVSENIMLGQLAPIGTGCFDLLLD 410
|
RNA polymerase II (RNAP II) is a large multi-subunit complex responsible for the synthesis of mRNA. RNAP II consists of a 10-subunit core enzyme and a peripheral heterodimer of two subunits. The largest core subunit (Rpb1) of yeast RNAP II is the best characterized member of this family. Structure studies suggest that RNAP complexes from different organisms share a crab-claw-shape structure. In yeast, Rpb1 and Rpb2, the largest and the second largest subunits, each makes up one clamp, one jaw, and part of the cleft. Rpb1 interacts with Rpb2 to form the DNA entry and RNA exit channels in addition to the catalytic center of RNA synthesis. The C-terminal domain of Rpb1 makes up part of the foot and jaw structures. Length = 410 |
| >gnl|CDD|233842 TIGR02389, RNA_pol_rpoA2, DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >gnl|CDD|132725 cd06528, RNAP_A'', A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >gnl|CDD|235277 PRK04309, PRK04309, DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|132723 cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132719 cd00630, RNAP_largest_subunit_C, Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|147266 pfam04998, RNA_pol_Rpb1_5, RNA polymerase Rpb1, domain 5 | Back alignment and domain information |
|---|
| >gnl|CDD|237854 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|237853 PRK14897, PRK14897, unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132722 cd02735, RNAP_I_Rpa1_C, Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|184940 PRK14977, PRK14977, bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|223164 COG0086, RpoC, DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|132721 cd02655, RNAP_beta'_C, Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132724 cd02737, RNAP_IV_NRPD1_C, Largest subunit (NRPD1) of Higher plant RNA polymerase IV, C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|132720 cd02584, RNAP_II_Rpb1_C, Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >gnl|CDD|233840 TIGR02386, rpoC_TIGR, DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|218366 pfam04990, RNA_pol_Rpb1_7, RNA polymerase Rpb1, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|233841 TIGR02388, rpoC2_cyan, DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >gnl|CDD|234794 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|235052 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1764 | |||
| KOG0260|consensus | 1605 | 100.0 | ||
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 100.0 | |
| TIGR02389 | 367 | RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit | 100.0 | |
| cd02737 | 381 | RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher | 100.0 | |
| PRK04309 | 383 | DNA-directed RNA polymerase subunit A''; Validated | 100.0 | |
| cd06528 | 363 | RNAP_A'' A'' subunit of Archaeal RNA Polymerase (R | 100.0 | |
| PRK14897 | 509 | unknown domain/DNA-directed RNA polymerase subunit | 100.0 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 100.0 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 100.0 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 100.0 | |
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 100.0 | |
| KOG0262|consensus | 1640 | 100.0 | ||
| KOG0261|consensus | 1386 | 100.0 | ||
| cd00630 | 158 | RNAP_largest_subunit_C Largest subunit of RNA poly | 100.0 | |
| cd02655 | 204 | RNAP_beta'_C Largest subunit (beta') of Bacterial | 99.96 | |
| PRK00566 | 1156 | DNA-directed RNA polymerase subunit beta'; Provisi | 99.92 | |
| PRK02597 | 1331 | rpoC2 DNA-directed RNA polymerase subunit beta'; P | 99.91 | |
| TIGR02386 | 1140 | rpoC_TIGR DNA-directed RNA polymerase, beta' subun | 99.91 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 99.9 | |
| TIGR02388 | 1227 | rpoC2_cyan DNA-directed RNA polymerase, beta'' sub | 99.89 | |
| CHL00117 | 1364 | rpoC2 RNA polymerase beta'' subunit; Reviewed | 99.88 | |
| PF04998 | 277 | RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; Int | 99.87 | |
| PRK14906 | 1460 | DNA-directed RNA polymerase subunit beta'/alpha do | 99.86 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 99.83 | |
| PF04990 | 135 | RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; Int | 99.76 | |
| KOG0260|consensus | 1605 | 99.69 | ||
| PF04990 | 135 | RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; Int | 99.5 | |
| COG0086 | 808 | RpoC DNA-directed RNA polymerase, beta' subunit/16 | 99.29 | |
| cd02584 | 410 | RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryoti | 99.2 | |
| cd02737 | 381 | RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher | 98.0 | |
| TIGR02389 | 367 | RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit | 97.61 | |
| PRK04309 | 383 | DNA-directed RNA polymerase subunit A''; Validated | 97.18 | |
| PRK14977 | 1321 | bifunctional DNA-directed RNA polymerase A'/A'' su | 96.76 | |
| cd06528 | 363 | RNAP_A'' A'' subunit of Archaeal RNA Polymerase (R | 96.76 | |
| PRK14898 | 858 | DNA-directed RNA polymerase subunit A''; Provision | 96.72 | |
| PRK14897 | 509 | unknown domain/DNA-directed RNA polymerase subunit | 96.71 | |
| cd02735 | 309 | RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic | 96.65 | |
| cd02736 | 300 | RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryot | 95.71 |
| >KOG0260|consensus | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.1e-71 Score=653.45 Aligned_cols=267 Identities=61% Similarity=0.957 Sum_probs=257.5
Q ss_pred CCCCChhHHhhccCcchhhhHhhhccccchhhHHHH-HHhcCCCCccchHHHHhc-cCCCCcEEEEeccCCccceEEEEE
Q psy6965 1384 SKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQFIR-IMNSDDSKMQDEEDAVDK-MEDDMFLRCIEANMLSDMTLQFIR 1461 (1764)
Q Consensus 1384 ~~m~DEE~al~k~~~~~~L~~iE~nm~~d~~l~~~R-~MiDkdLtM~~iaekI~~-f~dd~DL~VIfSDDNAEKLVIRIR 1461 (1764)
-+||||++. ++|| ||+||||+ | +|++++|+|++||++|+. |+++ ++|||+++||+|+|+|||
T Consensus 1165 ~e~pd~D~~--~isp--wlLrlelD----------r~~m~dk~ltm~~ia~~i~~~f~~d--~~~i~~ddna~klv~r~r 1228 (1605)
T KOG0260|consen 1165 YEMPDEDVG--RISP--WLLRLELD----------RASMTDKKLTMEQIAEKINRGFGSD--LACIFSDDNAEKLVLRLR 1228 (1605)
T ss_pred hcCcccchh--hcCh--HHHHhhhh----------hhhcccccccHHHHHHHHHhhccCC--CceeecccCCcceEEEEE
Confidence 379999998 9999 99999999 9 999999999999999999 9988 999999999999999999
Q ss_pred EecCCCCccchhhhhhhchhhhHHHHHHHHhhccCceeccccCcceEEecccccCCCceEEEcCCCcccccceEEEEeec
Q psy6965 1462 IMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKKRIIITESGEFKAIADWLLETDG 1541 (1764)
Q Consensus 1462 I~~ded~k~eeeee~vD~~EDDvFLRrIEanMLsdItLRGIPGIkKVfI~ePetdkKKRIVITEDGefkak~EWVLETDG 1541 (1764)
+.+++ ++|+||++||+++|.+++++||++|.||||+ ++++|+|+...||+|+|+|
T Consensus 1229 i~~~~--------------e~D~~l~~Ie~~ml~~~~l~G~~~i~kV~m~-----------~~~~G~f~~~~ew~LeTdg 1283 (1605)
T KOG0260|consen 1229 IAKEE--------------EDDVFLKCIEANMLGDMTLRGIPDIFKVYMS-----------PTEDGEFKPVDEWDLETDG 1283 (1605)
T ss_pred ecCcc--------------chhHHHHHHHHhhhhhcccCCccccceEEEe-----------ecCCCceeecceeEEecCc
Confidence 99852 3689999999999999999999999999997 3578889999999999999
Q ss_pred cchhhhccCCCcccccccccCHHHHHHHhcHHHHHHHHHHHHHHhhccCCcccchhhHHHHHHHHhccCeeccccccccc
Q psy6965 1542 TSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSVEKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGIN 1621 (1764)
Q Consensus 1542 TNL~EVLS~pgVDptRTySNDI~EILeVLGIEAARkAIInEIrnVFSfYGIYVNyRHLSLLADvMT~RG~LmgITRHGIN 1621 (1764)
+||.++++.++||+.||+|||+++|+++|||||+|+++++|+..|+.|+|+||||||++||||+||++|++++|||||+|
T Consensus 1284 ~~l~~v~s~~~vD~~rt~sn~l~ei~~vlgIea~r~a~~~e~~~vi~f~gsyVnyrhlaLl~dvmT~~g~lm~itRhg~n 1363 (1605)
T KOG0260|consen 1284 VNLRRVLSEPDVDPARTTSNDLVEIAEVLGIEAVRKALLRELLNVISFDGSYVNYRHLALLCDVMTARGHLMAITRHGIN 1363 (1605)
T ss_pred hhHHhhhccCCCCcccccccchhhhhhhhcHHHHHhhhhhhhhheEeecccchhHHHHHHHHHHHhcccceeeeeccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCChhhhhhhHHHHHHHHHHhhcCCCCCCCccccCeeccCCCCCCcceeEeecChhhhhccccccccc
Q psy6965 1622 RQDTGALMRCSFEETVDVLMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKDGIEIPLAT 1691 (1764)
Q Consensus 1622 R~dTSPLmRASFEETVEILtEAAIfGEvD~LRGVSENIILGQLIPVGTGsFDLLLD~ekLkdAiE~~~~~ 1691 (1764)
|..+|+|+||||||||++|++||+++++|.++|||||||+||++|.|||+|||++|.++|+.+++.+.++
T Consensus 1364 r~~tgaLmrcSfEetv~il~~aa~~~ekd~~rgvsEnImlgqlap~gTg~~d~~ld~e~l~~~~~~~~p~ 1433 (1605)
T KOG0260|consen 1364 RQDTGALMRCSFEETVDILMDAAAHAEKDPCRGVSENIMLGQLAPMGTGCFDLMLDAEKLKKGIEIPMPW 1433 (1605)
T ss_pred hhhccccccccHHHHHHHHHHHHhhhccCCCccceeeeeecccccCCCcceeeeccHHhhhccCccCCcc
Confidence 9999999999999999999999999999999999999999999999999999999999999999877655
|
|
| >cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >cd02737 RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher plant RNA polymerase IV, C-terminal domain | Back alignment and domain information |
|---|
| >PRK04309 DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
| >cd06528 RNAP_A'' A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | Back alignment and domain information |
|---|
| >cd02735 RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >KOG0262|consensus | Back alignment and domain information |
|---|
| >KOG0261|consensus | Back alignment and domain information |
|---|
| >cd00630 RNAP_largest_subunit_C Largest subunit of RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >cd02655 RNAP_beta'_C Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain | Back alignment and domain information |
|---|
| >PRK00566 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >PRK02597 rpoC2 DNA-directed RNA polymerase subunit beta'; Provisional | Back alignment and domain information |
|---|
| >TIGR02386 rpoC_TIGR DNA-directed RNA polymerase, beta' subunit, predominant form | Back alignment and domain information |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >TIGR02388 rpoC2_cyan DNA-directed RNA polymerase, beta'' subunit | Back alignment and domain information |
|---|
| >CHL00117 rpoC2 RNA polymerase beta'' subunit; Reviewed | Back alignment and domain information |
|---|
| >PF04998 RNA_pol_Rpb1_5: RNA polymerase Rpb1, domain 5; InterPro: IPR007081 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PRK14906 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >KOG0260|consensus | Back alignment and domain information |
|---|
| >PF04990 RNA_pol_Rpb1_7: RNA polymerase Rpb1, domain 7; InterPro: IPR007073 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >COG0086 RpoC DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >cd02584 RNAP_II_Rpb1_C Largest subunit (Rpb1) of Eukaryotic RNA polymerase II (RNAP II), C-terminal domain | Back alignment and domain information |
|---|
| >cd02737 RNAP_IV_NRPD1_C Largest subunit (NRPD1) of Higher plant RNA polymerase IV, C-terminal domain | Back alignment and domain information |
|---|
| >TIGR02389 RNA_pol_rpoA2 DNA-directed RNA polymerase, subunit A'' | Back alignment and domain information |
|---|
| >PRK04309 DNA-directed RNA polymerase subunit A''; Validated | Back alignment and domain information |
|---|
| >PRK14977 bifunctional DNA-directed RNA polymerase A'/A'' subunit; Provisional | Back alignment and domain information |
|---|
| >cd06528 RNAP_A'' A'' subunit of Archaeal RNA Polymerase (RNAP) | Back alignment and domain information |
|---|
| >PRK14898 DNA-directed RNA polymerase subunit A''; Provisional | Back alignment and domain information |
|---|
| >PRK14897 unknown domain/DNA-directed RNA polymerase subunit A'' fusion protein; Provisional | Back alignment and domain information |
|---|
| >cd02735 RNAP_I_Rpa1_C Largest subunit (Rpa1) of Eukaryotic RNA polymerase I (RNAP I), C-terminal domain | Back alignment and domain information |
|---|
| >cd02736 RNAP_III_Rpc1_C Largest subunit (Rpc1) of Eukaryotic RNA polymerase III (RNAP III), C-terminal domain | 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 | 1764 | ||||
| 3h0g_A | 1752 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 7e-61 | ||
| 1i3q_A | 1733 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 5e-52 | ||
| 4a3c_A | 1732 | Rna Polymerase Ii Initial Transcribing Complex With | 5e-52 | ||
| 3j0k_A | 1455 | Orientation Of Rna Polymerase Ii Within The Human V | 5e-52 | ||
| 2waq_C | 395 | The Complete Structure Of The Archaeal 13-Subunit D | 5e-22 | ||
| 2y0s_C | 395 | Crystal Structure Of Sulfolobus Shibatae Rna Polyme | 5e-22 | ||
| 2pmz_C | 392 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 8e-22 | ||
| 3hkz_C | 395 | The X-Ray Crystal Structure Of Rna Polymerase From | 9e-22 | ||
| 3iyd_D | 1413 | Three-Dimensional Em Structure Of An Intact Activat | 7e-04 | ||
| 3lu0_D | 1407 | Molecular Model Of Escherichia Coli Core Rna Polyme | 7e-04 |
| >pdb|3H0G|A Chain A, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1752 | Back alignment and structure |
|
| >pdb|1I3Q|A Chain A, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution Length = 1733 | Back alignment and structure |
| >pdb|4A3C|A Chain A, Rna Polymerase Ii Initial Transcribing Complex With A 5nt Dna-Rna Hybrid Length = 1732 | Back alignment and structure |
| >pdb|3J0K|A Chain A, Orientation Of Rna Polymerase Ii Within The Human Vp16-Mediator-Pol Ii-Tfiif Assembly Length = 1455 | Back alignment and structure |
| >pdb|2WAQ|C Chain C, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase Length = 395 | Back alignment and structure |
| >pdb|2Y0S|C Chain C, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In P21 Space Group Length = 395 | Back alignment and structure |
| >pdb|2PMZ|C Chain C, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 392 | Back alignment and structure |
| >pdb|3HKZ|C Chain C, The X-Ray Crystal Structure Of Rna Polymerase From Archaea Length = 395 | Back alignment and structure |
| >pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1413 | Back alignment and structure |
| >pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1407 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 | Back alignment and structure |
|---|
Score = 305 bits (783), Expect = 4e-84
Identities = 151/430 (35%), Positives = 213/430 (49%), Gaps = 34/430 (7%)
Query: 1346 DEEDAVDKMEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCI 1405
A + IE LS +T + D EED D +E +
Sbjct: 1124 MPWIAANMDLAKNVQTQIEHTTLSTVTSATEIHYDPDPQDTVIEED-KDFVEAFFAIPDE 1182
Query: 1406 EANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMF------LRCIEANMLSDMTLQF 1459
E ++ + D +KM D++ ++ + + L I + +D +
Sbjct: 1183 EVEENLYKQSPWLLRLELDRAKMLDKKLSMSDVAGKIAESFERDLFTIWSEDNADKLIIR 1242
Query: 1460 IRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKK 1519
RI+ DD K ED + +E+D+FL+ IE +ML ++L+G+ I +VYM K
Sbjct: 1243 CRIIRDDDRK---AEDDDNMIEEDVFLKTIEGHMLESISLRGVPNITRVYMM-----EHK 1294
Query: 1520 RIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSV 1579
+ E G F+ +W+LETDG +L + ++ VD RT+SN EI Q+LGIEA R ++
Sbjct: 1295 IVRQIEDGTFERADEWVLETDGINLTEAMTVEGVDATRTYSNSFVEILQILGIEATRSAL 1354
Query: 1580 EKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMRCSFEETVDV 1639
KE+ V++F G YVNYRHLALLCDVMT++GHLMAITRHGINR +TGALMRCSFEETV++
Sbjct: 1355 LKELRNVIEFDGSYVNYRHLALLCDVMTSRGHLMAITRHGINRAETGALMRCSFEETVEI 1414
Query: 1640 LMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCKD---GIEIPLATGMMGG 1696
LMDAAA E D +G+SENI++GQL MGTG FD+ LD + + G +P G G
Sbjct: 1415 LMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDMLMNYSLGTAVPTLAGSGMG 1474
Query: 1697 PAGMFFGSAATPSSMIHN---------------PLQTPHNTSLTNATHQSRDKAFAPSEL 1741
A TP PL + A +P +
Sbjct: 1475 T-SQLPEGAGTPYERSPMVDSGFVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKG 1533
Query: 1742 FLSPDSRYPY 1751
SP P+
Sbjct: 1534 VQSPGYTSPF 1543
|
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1752 | Back alignment and structure |
|---|
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 | Back alignment and structure |
|---|
| >4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C Length = 395 | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D Length = 1265 | Back alignment and structure |
|---|
| >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D Length = 1524 | Back alignment and structure |
|---|
| >3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D* Length = 1407 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1764 | |||
| 3h0g_A | 1752 | DNA-directed RNA polymerase II subunit RPB1; trans | 100.0 | |
| 1twf_A | 1733 | B220, DNA-directed RNA polymerase II largest subun | 100.0 | |
| 4ayb_C | 395 | DNA-directed RNA polymerase; transferase, multi-su | 100.0 | |
| 2a6h_D | 1524 | DNA-directed RNA polymerase beta' chain; RNA polym | 99.93 | |
| 1hqm_D | 1265 | DNA-directed RNA polymerase; transferase, transcri | 99.92 | |
| 3lu0_D | 1407 | DNA-directed RNA polymerase subunit beta'; E. coli | 99.92 | |
| 3h0g_A | 1752 | DNA-directed RNA polymerase II subunit RPB1; trans | 99.17 | |
| 1twf_A | 1733 | B220, DNA-directed RNA polymerase II largest subun | 98.81 | |
| 3qqc_A | 436 | DNA-directed RNA polymerase subunit B, DNA-direct | 96.28 | |
| 4ayb_C | 395 | DNA-directed RNA polymerase; transferase, multi-su | 80.74 |
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
Probab=100.00 E-value=1.1e-66 Score=647.56 Aligned_cols=275 Identities=48% Similarity=0.767 Sum_probs=247.6
Q ss_pred CCChhH--HhhccCcchhhhHhhhccccchhhHHHH-HHhcCCCCccchHHHHhc-cCCCCcEEEEeccCCccceEEEEE
Q psy6965 1386 MQDEED--AVDKMEDDMFLRCIEANMLSDMTLQFIR-IMNSDDSKMQDEEDAVDK-MEDDMFLRCIEANMLSDMTLQFIR 1461 (1764)
Q Consensus 1386 m~DEE~--al~k~~~~~~L~~iE~nm~~d~~l~~~R-~MiDkdLtM~~iaekI~~-f~dd~DL~VIfSDDNAEKLVIRIR 1461 (1764)
+|+|++ .++.+++ |++|||+| | +|.+++|++.+|+++|.+ |+.+ ++|+++++|+++++||||
T Consensus 1179 ~~~~~~~~~~~~~~~--~~~rl~l~----------~~~~~~~~l~~~~I~~~i~~~~~~~--~~v~~~d~~~~~~~i~i~ 1244 (1752)
T 3h0g_A 1179 IPDEEVEENLYKQSP--WLLRLELD----------RAKMLDKKLSMSDVAGKIAESFERD--LFTIWSEDNADKLIIRCR 1244 (1752)
T ss_dssp TTCSSTTCSSCSCCC--CEEEEECC----------TTSSTTTTCCHHHHTTSGGGSSTTS--CCEECCCTTCSSCEEEEC
T ss_pred cchhhhhcccccccc--eeEEEEec----------HHHHHHcCCCHHHHHHHHHhhccCC--eeEeecCCCccceeEEEE
Confidence 555543 3566888 99999999 8 999999999999999988 7765 999999999999999999
Q ss_pred EecCCCCccchhhhhhhchhhhHHHHHHHHhhccCceeccccCcceEEecccccCCCceEEEcCCCcccccceEEEEeec
Q psy6965 1462 IMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKKRIIITESGEFKAIADWLLETDG 1541 (1764)
Q Consensus 1462 I~~ded~k~eeeee~vD~~EDDvFLRrIEanMLsdItLRGIPGIkKVfI~ePetdkKKRIVITEDGefkak~EWVLETDG 1541 (1764)
+....+.+.++ + ....+++.||++++.++|.+++|+|||||+||++++ +++.+++++|++....+|+|.|+|
T Consensus 1245 ~~~~~~~~~~~-~--~~~~~~~~~l~~l~~~~l~~~~i~Gi~~I~rv~i~~-----~~~~~~~~~g~~~~~~~~~l~teG 1316 (1752)
T 3h0g_A 1245 IIRDDDRKAED-D--DNMIEEDVFLKTIEGHMLESISLRGVPNITRVYMME-----HKIVRQIEDGTFERADEWVLETDG 1316 (1752)
T ss_dssp CCCCSCCCCCS-S--CCCSCSCHHHHHHHHHHTTCCCSSCCTTCCCCCEEE-----EEEEEECSSSCEEEEEEEEEECCS
T ss_pred ecccccccccc-c--cccccHHHHHHHHHHhhccceEEecCCCccEEEEec-----ccceeecCCCcccccceEEEEecc
Confidence 87643221110 0 112346689999999999999999999999999975 234446777877777899999999
Q ss_pred cchhhhccCCCcccccccccCHHHHHHHhcHHHHHHHHHHHHHHhhccCCcccchhhHHHHHHHHhccCeeccccccccc
Q psy6965 1542 TSLMKVLSERDVDPVRTFSNDICEIFQVLGIEAVRKSVEKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGIN 1621 (1764)
Q Consensus 1542 TNL~EVLS~pgVDptRTySNDI~EILeVLGIEAARkAIInEIrnVFSfYGIYVNyRHLSLLADvMT~RG~LmgITRHGIN 1621 (1764)
+||++||++++||++||+||||+||++||||||||++|++||++||++||+|||||||+||||+||++|+++|||||||+
T Consensus 1317 ~nL~~v~~~~gVD~~rt~sNdI~ei~~vlGIEAAR~~Ii~Ei~~v~~~~G~~Vd~RHl~LlaD~MT~~G~~~~itR~Gi~ 1396 (1752)
T 3h0g_A 1317 INLTEAMTVEGVDATRTYSNSFVEILQILGIEATRSALLKELRNVIEFDGSYVNYRHLALLCDVMTSRGHLMAITRHGIN 1396 (1752)
T ss_dssp CCCSTTTSSSSCCTTTCCCSCHHHHHHHSCHHHHHHHHHHHHHTTSCSSSCCCCHHHHHHHHHHHTSSSSCCCCCTTSCS
T ss_pred cCHHHHhCcCCCccccCeeCCHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhccCCeEEeechhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCChhhhhhhHHHHHHHHHHhhcCCCCCCCccccCeeccCCCCCCcceeEeecChhhhh
Q psy6965 1622 RQDTGALMRCSFEETVDVLMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKCK 1682 (1764)
Q Consensus 1622 R~dTSPLmRASFEETVEILtEAAIfGEvD~LRGVSENIILGQLIPVGTGsFDLLLD~ekLk 1682 (1764)
+.++|||+|||||+|++||++||++|++|+|+|||||||+||++|+|||+|||+++.++|+
T Consensus 1397 ~~~~s~l~~aSFE~T~~~L~~Aa~~g~~D~l~gvse~Ii~G~~~~~GTG~fdll~~~~~l~ 1457 (1752)
T 3h0g_A 1397 RAETGALMRCSFEETVEILMDAAASGEKDDCKGISENIMLGQLAPMGTGAFDIYLDQDMLM 1457 (1752)
T ss_dssp CCCSHHHHHHHHSCCTHHHHHHGGGTCCBCCCCSTTGGGTCSCCCSBTTSCEECCCHHHHH
T ss_pred cCCCCHHHHhhHHHHHHHHHHHHHhcCcccccChhHHhhcCCCcCCccceEEEEeCHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999999
|
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... | Back alignment and structure |
|---|
| >4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C | Back alignment and structure |
|---|
| >2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2 PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D* 2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D* 3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D | Back alignment and structure |
|---|
| >1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D- structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB: 1i6v_D* 2gho_D | Back alignment and structure |
|---|
| >3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_D* | Back alignment and structure |
|---|
| >3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
| >1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... | Back alignment and structure |
|---|
| >3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase subunit A', DNA-directed...; transcription, fusion protein, chimera protein, multiprotein; 3.30A {Pyrococcus furiosus} | Back alignment and structure |
|---|
| >4ayb_C DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2y0s_C 4b1o_C 4b1p_Y 2waq_C 2wb1_C 3hkz_C 2pmz_C | 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 |
| 1764 | ||||
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 7e-65 | |
| d1twfa_ | 1449 | e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces c | 6e-06 | |
| d1smyd_ | 1504 | e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus t | 9e-29 |
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta-prime domain: RBP1 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Score = 241 bits (616), Expect = 7e-65
Identities = 151/592 (25%), Positives = 267/592 (45%), Gaps = 44/592 (7%)
Query: 1108 LRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCI---EANMLSDMTLQ 1164
L I + + + ++N+D + ++ ++ D+ L+ + E L
Sbjct: 882 LDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKF 941
Query: 1165 FIRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDA 1224
+ ++ + +++ I+ SD+T++ I K E
Sbjct: 942 LREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDI----VLGVKDLQENLL 997
Query: 1225 VDKMEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANML 1284
V + ++++ I+ +TL + + ++ +E + K D L IEA L
Sbjct: 998 VLRGKNEI----IQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFL 1053
Query: 1285 SDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKM 1344
+ M + E A + + + ++ + I+N +
Sbjct: 1054 RSVVHPGE--MVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMK 1111
Query: 1345 Q-------DEEDAVDKMEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKME 1397
+ A D+ + + IE L +T+ + D ED + ++
Sbjct: 1112 TPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDE-EIIQ 1170
Query: 1398 DDMFLRCIEANMLSDMTLQFIRIMNSDDSKMQDEEDAVDKMEDDMFLRCIEANMLSDMTL 1457
L EA D ++ + D + M D++ + ++ + I+ +D+
Sbjct: 1171 LHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGER-----IKQTFKNDL-- 1223
Query: 1458 QFIRIMNSDDSKMQD---------EEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKV 1508
I + D+ + DA + E+D L+ IE ML ++TL+G+E I +V
Sbjct: 1224 --FVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERV 1281
Query: 1509 YMHLPQTDSKKRIIITESGEFKAIADWLLETDGTSLMKVLSERDVDPVRTFSNDICEIFQ 1568
M R + + +GE+ +W+LETDG +L +V++ +DP R ++N +I +
Sbjct: 1282 VMM-----KYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIME 1336
Query: 1569 VLGIEAVRKSVEKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGAL 1628
VLGIEA R ++ KE+ V+ G YVNYRH+ALL DVMT +G L ++TRHG NR +TGAL
Sbjct: 1337 VLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGAL 1396
Query: 1629 MRCSFEETVDVLMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEK 1680
MRCSFEETV++L +A A AE D RGVSEN+I+GQ+ +GTG FD+++D E
Sbjct: 1397 MRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVMIDEES 1448
|
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1449 | Back information, alignment and structure |
|---|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} Length = 1504 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1764 | |||
| d1twfa_ | 1449 | RBP1 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 100.0 | |
| d1smyd_ | 1504 | RNA-polymerase beta-prime {Thermus thermophilus [T | 99.88 | |
| d1twfa_ | 1449 | RBP1 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 98.16 |
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta-prime domain: RBP1 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=8.6e-54 Score=522.38 Aligned_cols=264 Identities=41% Similarity=0.686 Sum_probs=236.3
Q ss_pred hhccCcchhhhHhhhccccchhhHHHH-HHhcCCCCccchHHHHhc-cCCCCcEEEEeccCCccceEEEEEEecCCCCcc
Q psy6965 1393 VDKMEDDMFLRCIEANMLSDMTLQFIR-IMNSDDSKMQDEEDAVDK-MEDDMFLRCIEANMLSDMTLQFIRIMNSDDSKM 1470 (1764)
Q Consensus 1393 l~k~~~~~~L~~iE~nm~~d~~l~~~R-~MiDkdLtM~~iaekI~~-f~dd~DL~VIfSDDNAEKLVIRIRI~~ded~k~ 1470 (1764)
+.+.+| |+.++|+| | .+..+++++.++..+|.+ +..+ +.++++++|++++++|+|+........
T Consensus 1184 ~~~~~~--~ilrl~l~----------~~~~~~k~i~~~~i~~~i~~~~~~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~ 1249 (1449)
T d1twfa_ 1184 FDQQSP--WLLRLELD----------RAAMNDKDLTMGQVGERIKQTFKND--LFVIWSEDNDEKLIIRCRVVRPKSLDA 1249 (1449)
T ss_dssp --CCCS--EEEEEEEC----------HHHHHHTTCCHHHHHHHHHHHHGGG--EEEEECCTTSSSCEEEEEEC-------
T ss_pred ecccCC--ceEEEEEc----------hhhcccCCCCHHHHHHHHHHhcCCC--eEEEecCCCcceEEEecccCCcccccc
Confidence 667788 99999999 7 899999999999999988 6666 999999999999999999887532111
Q ss_pred chhhhhhhchhhhHHHHHHHHhhccCceeccccCcceEEecccccCCCceEEEcCCCcccccceEEEEeeccchhhhccC
Q psy6965 1471 QDEEDAVDKMEDDMFLRCIEANMLSDMTLQGIEAIGKVYMHLPQTDSKKRIIITESGEFKAIADWLLETDGTSLMKVLSE 1550 (1764)
Q Consensus 1471 eeeee~vD~~EDDvFLRrIEanMLsdItLRGIPGIkKVfI~ePetdkKKRIVITEDGefkak~EWVLETDGTNL~EVLS~ 1550 (1764)
....+++..|++++..++.+++|+|+++|+||++.. ..+.+....|.+....+|+|+|+|+||.++|++
T Consensus 1250 ------~~~~~~~~~l~~i~~~~l~~~~v~Gi~~I~rv~i~~-----~~~~~~~~~~~~~~~~~~vl~teG~nl~~~l~~ 1318 (1449)
T d1twfa_ 1250 ------ETEAEEDHMLKKIENTMLENITLRGVENIERVVMMK-----YDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTV 1318 (1449)
T ss_dssp ---------CCTTHHHHHHHHHHHHHCEEESCTTCCCEEEEE-----EEEEEECTTSSEEEEEEEEEEEESCCHHHHTTS
T ss_pred ------ccccchHHHHHHHHhhccCCcEEeCCCCeEEEEEec-----ccceeeCCCCcCccCCcEEEEcCcCCHHHHhcc
Confidence 113346678999999999999999999999998865 234556677777777899999999999999999
Q ss_pred CCcccccccccCHHHHHHHhcHHHHHHHHHHHHHHhhccCCcccchhhHHHHHHHHhccCeecccccccccccCCChhhh
Q psy6965 1551 RDVDPVRTFSNDICEIFQVLGIEAVRKSVEKEMNTVLQFYGLYVNYRHLALLCDVMTAKGHLMAITRHGINRQDTGALMR 1630 (1764)
Q Consensus 1551 pgVDptRTySNDI~EILeVLGIEAARkAIInEIrnVFSfYGIYVNyRHLSLLADvMT~RG~LmgITRHGINR~dTSPLmR 1630 (1764)
++||++||+||||++|+++|||||||++|++||+.||+.||++||+|||+||||+||++|.++|||||||++.++|||++
T Consensus 1319 ~~iD~~~~~sNdI~dil~~lGIEAar~~ii~EI~~V~~~~Gi~Id~rHi~LIad~MT~~G~~~~i~R~gi~~~~~S~l~~ 1398 (1449)
T d1twfa_ 1319 PGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMR 1398 (1449)
T ss_dssp TTBCTTTCBCSCHHHHHHHHCHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTTTBSSCCCSSSCSSSCSSCCTTSS
T ss_pred CCcccccCccCcHHHHHHHHhHHHHHHHHHHHHHHHHHhcCcEECHHHHHHHHHHHCcCCeEeeccHHHhccCCcCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999988999999
Q ss_pred hhhHHHHHHHHHHhhcCCCCCCCccccCeeccCCCCCCcceeEeecChhhh
Q psy6965 1631 CSFEETVDVLMDAAAHAEADPMRGVSENIIMGQLPRMGTGCFDLLLDAEKC 1681 (1764)
Q Consensus 1631 ASFEETVEILtEAAIfGEvD~LRGVSENIILGQLIPVGTGsFDLLLD~ekL 1681 (1764)
||||||+++|++||++|++|+|+|||||||+|+++|+|||+|||++|.++|
T Consensus 1399 aSFEeT~~vL~~AAi~g~~D~L~G~senIi~G~~ip~GTG~fdll~d~~~l 1449 (1449)
T d1twfa_ 1399 CSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVMIDEESL 1449 (1449)
T ss_dssp CCSSCSHHHHHHHHHHTCEECCCSHHHHHHTTCCCSSGGGSSEEEECSCCC
T ss_pred hhchhHHHHHHHHHhcCCcccCCCcHHHeecCCCCCCcccccEEEechhhC
Confidence 999999999999999999999999999999999999999999999998764
|
| >d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|
| >d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|