Psyllid ID: psy15380
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
No hits with e-value below 0.001 by BLAST
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 | 1738 | ||||||
| 383847775 | 1010 | PREDICTED: uncharacterized protein LOC10 | 0.502 | 0.864 | 0.298 | 1e-104 | |
| 328716627 | 1734 | PREDICTED: hypothetical protein LOC10057 | 0.512 | 0.513 | 0.261 | 2e-89 | |
| 383847773 | 957 | PREDICTED: uncharacterized protein LOC10 | 0.332 | 0.603 | 0.337 | 6e-87 | |
| 270016778 | 1330 | hypothetical protein TcasGA2_TC010713 [T | 0.258 | 0.338 | 0.363 | 2e-82 | |
| 145220605 | 1752 | putative gag-pol protein [Drosophila ana | 0.517 | 0.513 | 0.262 | 3e-81 | |
| 270016776 | 500 | hypothetical protein TcasGA2_TC010711 [T | 0.248 | 0.864 | 0.390 | 9e-81 | |
| 7511879 | 1607 | hypothetical protein - fruit fly (Drosop | 0.515 | 0.557 | 0.261 | 9e-80 | |
| 328705502 | 1550 | PREDICTED: hypothetical protein LOC10057 | 0.339 | 0.380 | 0.311 | 1e-76 | |
| 383847064 | 1650 | PREDICTED: uncharacterized protein LOC10 | 0.331 | 0.349 | 0.312 | 8e-75 | |
| 68697272 | 1726 | BEL12_AG transposon polyprotein [Anophel | 0.332 | 0.334 | 0.301 | 4e-74 |
| >gi|383847775|ref|XP_003699528.1| PREDICTED: uncharacterized protein LOC100877006 [Megachile rotundata] | Back alignment and taxonomy information |
|---|
Score = 387 bits (995), Expect = e-104, Method: Compositional matrix adjust.
Identities = 315/1056 (29%), Positives = 475/1056 (44%), Gaps = 183/1056 (17%)
Query: 415 PAPTPA--PAPISPISCGIKLQPLEIPTFDGACIGNWPLFIEMYRINIHNRTDLTNAHKL 472
PA T +P + + L +EI FDG I W F + ++ +H +L K
Sbjct: 103 PASTSRLLESPTTVKTTSSLLSKIEIKPFDGNPI-EWHSFHDTFKSLVHENEELIGVQKF 161
Query: 473 QYLLSKLSGGALAVAAGIPPTEHNYQVIYDALLEKYDDKRNLATYYMDSLLNFKTQSGSL 532
L + L G A AV + TE NY V +D L ++ + R + ++ L +
Sbjct: 162 HLLKNALRGEASAVIESLNATEGNYLVAWDLLRKRCNKPRKIINAHLKILFD-------- 213
Query: 533 ETFIDYFGANVAQVIYDALLEKYDDKRNLATYYMDSLLNFKIQSGSLETFIDYFGANVAA 592
V ++ D SL + +V A
Sbjct: 214 ----------VPEITRDT-------------------------PASLRQLAEQAQVHVNA 238
Query: 593 LKALDLP-NLSEFFLFYLGNSKLDESTRKQFELSLGKHEIPTFHKLLEFAQNHNK----I 647
L+A++ P + L ++ ++KLD +TR+ +E +L EIP F +LLEF H + +
Sbjct: 239 LQAVNQPIEHWDTLLIHIISNKLDRNTRRAWERTLEDEEIPKFKQLLEFINKHARGDDLV 298
Query: 648 LNRLQCLNSGTGSCENSTRVRPKIQHTASKRGTSHTFVM---RGNMCVLCSEEHPLFKCN 704
L+ L + + S R+R K Q S +++ R CVLC EH ++ CN
Sbjct: 299 LDNL----NSSKSHGIQDRLRSKTQ------LRSQSYIATDDRKQHCVLCKGEHQIYLCN 348
Query: 705 KFLKLSPQERYGVVKQHDLCVNCLGTGHKANNCPSKSNCNICQFRHNTLLHFNRNGQVST 764
+FL+L +ER V++ LC+NCL H NC NC C +H+TLLHF Q T
Sbjct: 349 RFLQLPIRERLNTVRKTKLCLNCLRPSHTVANC-RLGNCRKCDKKHHTLLHFPTETQDVT 407
Query: 765 KSASACNNLVQPLSADNVPGTSATNVASQCMSLSLVVCLVDLKPVKPSKLGEWTGQLELC 824
PL+ P TSA V + V C
Sbjct: 408 NKT--------PLTP--TPSTSAEIVKTTLT----VSC---------------------- 431
Query: 825 SHQASPLYLGLLLAFGLSGLRRNIHYTSFTSQPKHYNGDQGTTQTTVLLGTVKILVLDVY 884
S + LG L L R Y D G+ + ++L LD
Sbjct: 432 ---ESEILLGTALITILDKYNREHTYRVLL--------DSGSQTHFITHKFAELLQLD-- 478
Query: 885 GKPHEMRFLLDCASMSNI-LSLSACKQLGLKTLFVATDLKGVGSISSPVQGQVTMRFGSR 943
NI LS S QL + + T + S P + QVT
Sbjct: 479 --------------KRNIDLSFSGLGQLNVNANY--TIEANIKSKIGPYKAQVTF----- 517
Query: 944 FDKRYNYTIKALVVNHVVDKLPVKSVDLSKLEYLQNIRHKLADDEFMEPGNICGILG-AQ 1002
+ + + +LP++ +D+ KL+ ++I LAD EF PG I ++G A
Sbjct: 518 -----------IALPSITGRLPLRQIDIRKLDLPRHIH--LADPEFHVPGEIDALIGNAL 564
Query: 1003 IYPYLVSGDPLLGKDCNQPAAI-NSTLGYVVLGNAPVLDTEHHEKQ----YCMFQCDLD- 1056
Y L +G +G N + N+ LG++V G +D H KQ C LD
Sbjct: 565 FYQLLETGQIKIG---NSSVILQNTQLGWIVTGE---VDNRTHNKQKATRVCHLATSLDA 618
Query: 1057 ---KFWELDSVPESKTGKLSPEEISCEQIYSDNVHRDKQGIYSVPLPFCEDPKQLGDSLN 1113
+FW ++ +PE + LS EE +CE + V R+++G Y V LPF + + LGDS
Sbjct: 619 QISRFWAMEEIPEQRF--LSLEERNCESYFVKTVTRNEEGRYVVRLPFNDRRESLGDSKT 676
Query: 1114 IALKRFSHLEKKLDSNINLRCDYNQAMTDLIDNGFMVKCASLDQGDLN-GYFIPHHVVTK 1172
+AL+RF LE+KL NI+L+ Y + + +D G M + Q D N GY++PHH V K
Sbjct: 677 MALRRFYSLERKLQLNIDLKTQYTAFLKEYLDLGHMTEI----QNDNNVGYYLPHHAVVK 732
Query: 1173 PDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYNDLFCILLKFRLFPYALNGDITKMF 1232
S ++K+R+V+DAS K+SSG SLN+ L G + + LF IL++FRL + DI KMF
Sbjct: 733 DSSVTTKVRVVFDASAKSSSGLSLNNTLLVGPTIQDTLFSILIRFRLHSIVIIADIEKMF 792
Query: 1233 LQIKLLSDYWKFQKILWRFSNKEKIDVYELRVVIFGTKASPYLAQRTVKQLIDDESKNFP 1292
QI + D ++QKILWR + E I ++L V +GT +P+LA R++ QL DE+ NFP
Sbjct: 793 RQILVHPDDREYQKILWRDNMDEAIRCFKLNTVTYGTAPAPFLATRSLVQLAVDEASNFP 852
Query: 1293 LACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIH 1352
+A Q + YMDD + + + A+E Q + L +GGF +W+SN +L ++
Sbjct: 853 IASQIFSKDFYMDDLLTGAENFEAALEVKRQCIGLAKAGGFNLRQWASNDIRLLAELESD 912
Query: 1353 DRLAEMVSWHTDDFSHKILGMLWNTSSDSLFFKINGL---SKPLTKR------GHTRVNF 1403
+ + T+ S K LG+ WN D + +K L L+KR
Sbjct: 913 TQRTSLCLDFTE--SRKTLGIHWNPLDDRISYKFKQLPTEDSQLSKRILLSQIAQLFDPL 970
Query: 1404 GLLAPVILWAKLLIRELCILKLDWDSIPPPHLVQLW 1439
GLL PVI+ AK++++EL L +DWD I P + Q W
Sbjct: 971 GLLGPVIIRAKIIMQELWKLAIDWDDIVPQSVKQAW 1006
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Source: Megachile rotundata Species: Megachile rotundata Genus: Megachile Family: Megachilidae Order: Hymenoptera Class: Insecta Phylum: Arthropoda Superkingdom: Eukaryota |
| >gi|328716627|ref|XP_003245995.1| PREDICTED: hypothetical protein LOC100570266 [Acyrthosiphon pisum] | Back alignment and taxonomy information |
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| >gi|383847773|ref|XP_003699527.1| PREDICTED: uncharacterized protein LOC100876895 [Megachile rotundata] | Back alignment and taxonomy information |
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| >gi|270016778|gb|EFA13224.1| hypothetical protein TcasGA2_TC010713 [Tribolium castaneum] | Back alignment and taxonomy information |
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| >gi|145220605|gb|ABP48078.1| putative gag-pol protein [Drosophila ananassae] | Back alignment and taxonomy information |
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| >gi|270016776|gb|EFA13222.1| hypothetical protein TcasGA2_TC010711 [Tribolium castaneum] | Back alignment and taxonomy information |
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| >gi|7511879|pir||T13250 hypothetical protein - fruit fly (Drosophila melanogaster) transposon BEL gi|733532|gb|AAB03640.1| unknown [Drosophila melanogaster] | Back alignment and taxonomy information |
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| >gi|328705502|ref|XP_003242831.1| PREDICTED: hypothetical protein LOC100572386 [Acyrthosiphon pisum] | Back alignment and taxonomy information |
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| >gi|383847064|ref|XP_003699175.1| PREDICTED: uncharacterized protein LOC100874762 [Megachile rotundata] | Back alignment and taxonomy information |
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| >gi|68697272|emb|CAJ14165.1| BEL12_AG transposon polyprotein [Anopheles gambiae] | 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)
No hits with e-value below 0.001 by BLAST
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
No EC number assignment, probably not an enzyme!
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 | 1738 | |||
| cd01644 | 213 | cd01644, RT_pepA17, RT_pepA17: Reverse transcripta | 5e-63 | |
| pfam05380 | 159 | pfam05380, Peptidase_A17, Pao retrotransposon pept | 8e-39 | |
| pfam03564 | 146 | pfam03564, DUF1759, Protein of unknown function (D | 1e-13 | |
| pfam05380 | 159 | pfam05380, Peptidase_A17, Pao retrotransposon pept | 9e-09 | |
| pfam00078 | 194 | pfam00078, RVT_1, Reverse transcriptase (RNA-depen | 8e-04 |
| >gnl|CDD|238822 cd01644, RT_pepA17, RT_pepA17: Reverse transcriptase (RTs) in retrotransposons | Back alignment and domain information |
|---|
Score = 213 bits (544), Expect = 5e-63
Identities = 77/219 (35%), Positives = 123/219 (56%), Gaps = 8/219 (3%)
Query: 1163 YFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYNDLFCILLKFRLFPY 1222
+++PHH V KP ++K+R+V+DAS + + G SLND+L G + N LF +LL+FR
Sbjct: 2 WYLPHHAVIKPSKTTTKLRVVFDASARYN-GVSLNDMLLKGPDLLNSLFGVLLRFRQGKI 60
Query: 1223 ALNGDITKMFLQIKLLSDYWKFQKILWRFS-NKEKIDVYELRVVIFGTKASPYLAQRTVK 1281
A++ DI KMF Q+K+ + + LWR ++ K Y + VV FG ++P+LA R +K
Sbjct: 61 AVSADIEKMFHQVKVRPEDRDVLRFLWRKDGDEPKPIEYRMTVVPFGAASAPFLANRALK 120
Query: 1282 QLIDDESKNFPLACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSN 1341
Q +D A + I + Y+DD ++S + EA+ + + L GGF KW+SN
Sbjct: 121 QHAEDH--PHEAAAKIIKRNFYVDDILVSTDTLNEAVNVAKRLIALLKKGGFNLRKWASN 178
Query: 1342 SPEILEQIPIHDRLAEMVSWHTDDFSHKILGMLWNTSSD 1380
S E+L+ +P ++ D + K LG+ WN +D
Sbjct: 179 SQEVLDDLPEER----VLLDRDSDVTEKTLGLRWNPKTD 213
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This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements. Length = 213 |
| >gnl|CDD|147520 pfam05380, Peptidase_A17, Pao retrotransposon peptidase | Back alignment and domain information |
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| >gnl|CDD|202685 pfam03564, DUF1759, Protein of unknown function (DUF1759) | Back alignment and domain information |
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| >gnl|CDD|147520 pfam05380, Peptidase_A17, Pao retrotransposon peptidase | Back alignment and domain information |
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| >gnl|CDD|215698 pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase) | Back alignment and domain information |
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Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1738 | |||
| cd01644 | 213 | RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) i | 100.0 | |
| PF05380 | 159 | Peptidase_A17: Pao retrotransposon peptidase ; Int | 100.0 | |
| cd03715 | 210 | RT_ZFREV_like RT_ZFREV_like: A subfamily of revers | 99.95 | |
| cd01645 | 213 | RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r | 99.93 | |
| PF05585 | 164 | DUF1758: Putative peptidase (DUF1758); InterPro: I | 99.9 | |
| PF03564 | 145 | DUF1759: Protein of unknown function (DUF1759); In | 99.87 | |
| cd01647 | 177 | RT_LTR RT_LTR: Reverse transcriptases (RTs) from r | 99.83 | |
| cd03714 | 119 | RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc | 99.63 | |
| PF05380 | 159 | Peptidase_A17: Pao retrotransposon peptidase ; Int | 99.54 | |
| PF00078 | 214 | RVT_1: Reverse transcriptase (RNA-dependent DNA po | 98.84 | |
| cd00304 | 98 | RT_like RT_like: Reverse transcriptase (RT, RNA-de | 98.6 | |
| cd05484 | 91 | retropepsin_like_LTR_2 Retropepsins_like_LTR, peps | 98.54 | |
| PF08284 | 135 | RVP_2: Retroviral aspartyl protease; InterPro: IPR | 98.4 | |
| PF00077 | 100 | RVP: Retroviral aspartyl protease The Prosite entr | 98.31 | |
| PF12384 | 177 | Peptidase_A2B: Ty3 transposon peptidase; InterPro: | 98.27 | |
| cd05479 | 124 | RP_DDI RP_DDI; retropepsin-like domain of DNA dama | 98.19 | |
| PF13650 | 90 | Asp_protease_2: Aspartyl protease | 98.12 | |
| PF09668 | 124 | Asp_protease: Aspartyl protease; InterPro: IPR0191 | 98.02 | |
| cd05481 | 93 | retropepsin_like_LTR_1 Retropepsins_like_LTR; peps | 97.96 | |
| cd01648 | 119 | TERT TERT: Telomerase reverse transcriptase (TERT) | 97.8 | |
| cd05483 | 96 | retropepsin_like_bacteria Bacterial aspartate prot | 97.72 | |
| cd06095 | 86 | RP_RTVL_H_like Retropepsin of the RTVL_H family of | 97.66 | |
| PF13975 | 72 | gag-asp_proteas: gag-polyprotein putative aspartyl | 97.64 | |
| TIGR02281 | 121 | clan_AA_DTGA clan AA aspartic protease, TIGR02281 | 97.53 | |
| cd05480 | 103 | NRIP_C NRIP_C; putative nuclear receptor interacti | 97.46 | |
| cd06094 | 89 | RP_Saci_like RP_Saci_like, retropepsin family. Ret | 97.1 | |
| cd01650 | 220 | RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea | 97.0 | |
| cd03487 | 214 | RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr | 96.9 | |
| cd00303 | 92 | retropepsin_like Retropepsins; pepsin-like asparta | 96.67 | |
| TIGR03698 | 107 | clan_AA_DTGF clan AA aspartic protease, AF_0612 fa | 96.5 | |
| KOG0012|consensus | 380 | 96.44 | ||
| PF02160 | 201 | Peptidase_A3: Cauliflower mosaic virus peptidase ( | 96.39 | |
| PF00098 | 18 | zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi | 96.05 | |
| cd01646 | 158 | RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip | 95.83 | |
| cd01651 | 226 | RT_G2_intron RT_G2_intron: Reverse transcriptases | 95.82 | |
| cd05482 | 87 | HIV_retropepsin_like Retropepsins, pepsin-like asp | 95.8 | |
| cd06222 | 130 | RnaseH RNase H (RNase HI) is an endonuclease that | 95.76 | |
| PF00075 | 132 | RNase_H: RNase H; InterPro: IPR002156 The RNase H | 95.56 | |
| COG0328 | 154 | RnhA Ribonuclease HI [DNA replication, recombinati | 95.49 | |
| PRK07708 | 219 | hypothetical protein; Validated | 95.34 | |
| COG5082 | 190 | AIR1 Arginine methyltransferase-interacting protei | 94.92 | |
| PF12382 | 137 | Peptidase_A2E: Retrotransposon peptidase; InterPro | 94.8 | |
| COG5082 | 190 | AIR1 Arginine methyltransferase-interacting protei | 94.75 | |
| PF14893 | 331 | PNMA: PNMA | 94.05 | |
| PF14223 | 119 | UBN2: gag-polypeptide of LTR copia-type | 94.01 | |
| PF09337 | 39 | zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR0 | 93.97 | |
| PTZ00368 | 148 | universal minicircle sequence binding protein (UMS | 93.65 | |
| PTZ00368 | 148 | universal minicircle sequence binding protein (UMS | 93.35 | |
| PF07727 | 246 | RVT_2: Reverse transcriptase (RNA-dependent DNA po | 92.67 | |
| PF14227 | 119 | UBN2_2: gag-polypeptide of LTR copia-type | 92.52 | |
| PF13456 | 87 | RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH | 92.5 | |
| PRK00203 | 150 | rnhA ribonuclease H; Reviewed | 92.44 | |
| .; GO: 0004523 ribonuclease H activity" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00336">PF00336 | 245 | DNA_pol_viral_C: DNA polymerase (viral) C-terminal | 92.01 | |
| cd06222 | 130 | RnaseH RNase H (RNase HI) is an endonuclease that | 89.2 | |
| PRK08719 | 147 | ribonuclease H; Reviewed | 88.43 | |
| PRK13907 | 128 | rnhA ribonuclease H; Provisional | 88.32 | |
| KOG4400|consensus | 261 | 88.31 | ||
| COG3577 | 215 | Predicted aspartyl protease [General function pred | 88.11 | |
| PRK06548 | 161 | ribonuclease H; Provisional | 86.04 | |
| PF00075 | 132 | RNase_H: RNase H; InterPro: IPR002156 The RNase H | 82.93 | |
| PF13456 | 87 | RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH | 82.57 | |
| PF14787 | 36 | zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: | 81.41 | |
| PRK07238 | 372 | bifunctional RNase H/acid phosphatase; Provisional | 80.52 |
| >cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons | Back alignment and domain information |
|---|
Probab=100.00 E-value=1e-46 Score=422.58 Aligned_cols=212 Identities=36% Similarity=0.670 Sum_probs=194.6
Q ss_pred ceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccCccccchhHHHhhhcccCcceeecccccceeeeEecccC
Q psy15380 1162 GYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYNDLFCILLKFRLFPYALNGDITKMFLQIKLLSDY 1241 (1738)
Q Consensus 1162 ~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~gp~~~~~l~~iL~r~r~~~~~~~~Dl~kaf~qv~l~~~d 1241 (1738)
.||+|||+|+|++|++||+|||+|||++. +|.+||+.+.+||+++|+|.++|++||+++||+++||++|||||+|+|+|
T Consensus 1 ~~y~ph~~V~~~~~~~~k~R~V~D~s~~~-~g~sLN~~l~~gp~~~~~l~~iL~~~R~~~~~~~~Di~~af~qI~i~~~d 79 (213)
T cd01644 1 VWYLPHHAVIKPSKTTTKLRVVFDASARY-NGVSLNDMLLKGPDLLNSLFGVLLRFRQGKIAVSADIEKMFHQVKVRPED 79 (213)
T ss_pred CcccCCceecCCCCCCCccEEEEeccccc-CCchhhHHhccCCccccchhhhheeeecCceeEehhHHHhhhheecCccc
Confidence 49999999999999899999999999984 89999999999999999999999999999999999999999999999999
Q ss_pred cceEEEEeccCCcccc-eEEEEEEeeeccccchHHHHHHHHHHHHhhhhcCcccccccccceeccceeeecCCHHHHHHH
Q psy15380 1242 WKFQKILWRFSNKEKI-DVYELRVVIFGTKASPYLAQRTVKQLIDDESKNFPLACQYIGESLYMDDCVISFPSQKEAIEF 1320 (1738)
Q Consensus 1242 r~~~~f~w~~~~~~~~-~~y~f~r~pFGl~~SP~~~~~~l~~~l~~~~~~~p~~~~~i~~~~YvDDili~~~s~ee~~~~ 1320 (1738)
+++++|+|+++++.+. +.|+|+|||||+++||++||++|++++.++.+. .+++.+...+|||||+++++|.+||.+.
T Consensus 80 ~~~~~F~w~~~~~~~~~~~Y~~~~~pFG~~~AP~~~~~~~~~~~~~~~~~--~~~~~i~~~~YvDDili~~~s~~e~~~~ 157 (213)
T cd01644 80 RDVLRFLWRKDGDEPKPIEYRMTVVPFGAASAPFLANRALKQHAEDHPHE--AAAKIIKRNFYVDDILVSTDTLNEAVNV 157 (213)
T ss_pred CceEEEEEeCCCCCCcceEEEEEEEccCCccchHHHHHHHHHHHhhcchh--hHHHHHHHeeecccceecCCCHHHHHHH
Confidence 9999999999876665 999999999999999999999999999988764 3566677889999999999999999999
Q ss_pred HHHHHHHHHhCCceEeeeccCChHhhhcCCCccchhhccccCCCCCCceEeeeEEeccCC
Q psy15380 1321 FNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHTDDFSHKILGMLWNTSSD 1380 (1738)
Q Consensus 1321 ~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~~~~~~~~~~~~~~~~k~LGi~W~~~~D 1380 (1738)
++++.++|+++||+++||+||+.++++.++++.. ..-.+.+..+|+||+.|++.+|
T Consensus 158 ~~~v~~~L~~~Gf~l~kw~sn~~~~l~~~~~~~~----~~~~~~~~~~k~LGl~W~~~~D 213 (213)
T cd01644 158 AKRLIALLKKGGFNLRKWASNSQEVLDDLPEERV----LLDRDSDVTEKTLGLRWNPKTD 213 (213)
T ss_pred HHHHHHHHHhCCccchhcccCchhhhhccccccc----ccccccccchhcccceeeccCC
Confidence 9999999999999999999999999999998631 1112344669999999999887
|
This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements. |
| >PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family | Back alignment and domain information |
|---|
| >cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT | Back alignment and domain information |
|---|
| >cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs) | Back alignment and domain information |
|---|
| >PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function [] | Back alignment and domain information |
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| >PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function | Back alignment and domain information |
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| >cd01647 RT_LTR RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template | Back alignment and domain information |
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| >cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons | Back alignment and domain information |
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| >PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family | Back alignment and domain information |
|---|
| >PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons | Back alignment and domain information |
|---|
| >cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family | Back alignment and domain information |
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| >cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases | Back alignment and domain information |
|---|
| >PF08284 RVP_2: Retroviral aspartyl protease; InterPro: IPR013242 This region defines single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses) | Back alignment and domain information |
|---|
| >PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families | Back alignment and domain information |
|---|
| >PF12384 Peptidase_A2B: Ty3 transposon peptidase; InterPro: IPR024650 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families | Back alignment and domain information |
|---|
| >cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein | Back alignment and domain information |
|---|
| >PF13650 Asp_protease_2: Aspartyl protease | Back alignment and domain information |
|---|
| >PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families | Back alignment and domain information |
|---|
| >cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats | Back alignment and domain information |
|---|
| >cd01648 TERT TERT: Telomerase reverse transcriptase (TERT) | Back alignment and domain information |
|---|
| >cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family | Back alignment and domain information |
|---|
| >cd06095 RP_RTVL_H_like Retropepsin of the RTVL_H family of human endogenous retrovirus-like elements | Back alignment and domain information |
|---|
| >PF13975 gag-asp_proteas: gag-polyprotein putative aspartyl protease | Back alignment and domain information |
|---|
| >TIGR02281 clan_AA_DTGA clan AA aspartic protease, TIGR02281 family | Back alignment and domain information |
|---|
| >cd05480 NRIP_C NRIP_C; putative nuclear receptor interacting protein | Back alignment and domain information |
|---|
| >cd06094 RP_Saci_like RP_Saci_like, retropepsin family | Back alignment and domain information |
|---|
| >cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT) | Back alignment and domain information |
|---|
| >cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons | Back alignment and domain information |
|---|
| >cd00303 retropepsin_like Retropepsins; pepsin-like aspartate proteases | Back alignment and domain information |
|---|
| >TIGR03698 clan_AA_DTGF clan AA aspartic protease, AF_0612 family | Back alignment and domain information |
|---|
| >KOG0012|consensus | Back alignment and domain information |
|---|
| >PF02160 Peptidase_A3: Cauliflower mosaic virus peptidase (A3); InterPro: IPR000588 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families | Back alignment and domain information |
|---|
| >PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule | Back alignment and domain information |
|---|
| >cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons | Back alignment and domain information |
|---|
| >cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin | Back alignment and domain information |
|---|
| >cd05482 HIV_retropepsin_like Retropepsins, pepsin-like aspartate proteases | Back alignment and domain information |
|---|
| >cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner | Back alignment and domain information |
|---|
| >PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site | Back alignment and domain information |
|---|
| >COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PRK07708 hypothetical protein; Validated | Back alignment and domain information |
|---|
| >COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] | Back alignment and domain information |
|---|
| >PF12382 Peptidase_A2E: Retrotransposon peptidase; InterPro: IPR024648 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families | Back alignment and domain information |
|---|
| >COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion] | Back alignment and domain information |
|---|
| >PF14893 PNMA: PNMA | Back alignment and domain information |
|---|
| >PF14223 UBN2: gag-polypeptide of LTR copia-type | Back alignment and domain information |
|---|
| >PF09337 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR015416 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule | Back alignment and domain information |
|---|
| >PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional | Back alignment and domain information |
|---|
| >PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional | Back alignment and domain information |
|---|
| >PF07727 RVT_2: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR013103 A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus | Back alignment and domain information |
|---|
| >PF14227 UBN2_2: gag-polypeptide of LTR copia-type | Back alignment and domain information |
|---|
| >PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B | Back alignment and domain information |
|---|
| >PRK00203 rnhA ribonuclease H; Reviewed | Back alignment and domain information |
|---|
| >PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein | Back alignment and domain information |
|---|
| >cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner | Back alignment and domain information |
|---|
| >PRK08719 ribonuclease H; Reviewed | Back alignment and domain information |
|---|
| >PRK13907 rnhA ribonuclease H; Provisional | Back alignment and domain information |
|---|
| >KOG4400|consensus | Back alignment and domain information |
|---|
| >COG3577 Predicted aspartyl protease [General function prediction only] | Back alignment and domain information |
|---|
| >PRK06548 ribonuclease H; Provisional | Back alignment and domain information |
|---|
| >PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site | Back alignment and domain information |
|---|
| >PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B | Back alignment and domain information |
|---|
| >PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A | Back alignment and domain information |
|---|
| >PRK07238 bifunctional RNase H/acid phosphatase; Provisional | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
No homologous structure with e-value below 0.005
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >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 |
|---|
Score = 72.2 bits (176), Expect = 1e-12
Identities = 95/627 (15%), Positives = 163/627 (25%), Gaps = 202/627 (32%)
Query: 1039 LDTEHHEKQYC---MFQCDLDKFWE-LD--SVPESKTGKLSPEEISCEQIYSDNVHRDKQ 1092
+D E E QY + D F + D V + LS EE + I
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEE--IDHII--MSKDAVS 62
Query: 1093 GIYSVPLPFCEDPKQLGDSLNIALKRFSHLEKKLDSNIN-----LRCDYNQAMTDLIDNG 1147
G + ++ +++F +E+ L N ++ + Q ++
Sbjct: 63 GTLRLFWTLLSKQEE-------MVQKF--VEEVLRINYKFLMSPIKTEQRQ--PSMMTRM 111
Query: 1148 FMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILH--AGSK 1205
+ ++ D N F ++ V++ P K+R A + K++ ++ GS
Sbjct: 112 Y-IEQRDRLYND-NQVFAKYN-VSRLQ-PYLKLR---QALLELRPAKNV--LIDGVLGS- 161
Query: 1206 MYNDLFCILLKFRLFPYALNGDITKMFLQIKLLSDYWKFQ-----KILW-RFSNKEKIDV 1259
G K ++ + + Y K Q KI W N +
Sbjct: 162 --------------------G---KTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPET 197
Query: 1260 YELRVVIFGTKASPYLAQRTVKQLIDDESKNFPLACQYIGESL--------Y------MD 1305
+ + P R D S N L I L Y +
Sbjct: 198 VLEMLQKLLYQIDPNWTSR------SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 1306 DCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHTDD 1365
+ V +A FN + K+ + T++ + + H L T D
Sbjct: 252 N-V----QNAKAWNAFNLSCKILLT-----TRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 1366 FSHKILGMLWNTSSDSL---FFKINGLSKPLT--------KRGHTRVNFGLLAPVILWAK 1414
+L + L N P + G + V
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTN----PRRLSIIAESIRDGLATWDN--WKHVNCDKL 355
Query: 1415 LLIRELCILKLDWDS----------------IPPPHLVQLWQTFQAQLP----------- 1447
I E + L+ IP L +W
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS 415
Query: 1448 LLESLAFPRHIGVY---------------LRRK--NKMGKPQNVDKDDKILMNGFSKPRR 1490
L+E I + L R + P+ D DD P
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD------LIPPYL 469
Query: 1491 N-------GRHFVILLRRLVEKTGGLKIQFKNTSSSTNLFRF-----REVGS-------- 1530
+ G H + E+ ++ F + FRF R +
Sbjct: 470 DQYFYSHIGHHLKNI--EHPERMTLFRMVFLD-------FRFLEQKIRHDSTAWNASGSI 520
Query: 1531 ------LVYYDSYF--NEIYISRRERE 1549
L +Y Y N+ R
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNA 547
|
| >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 |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1738 | |||
| 1rw3_A | 455 | POL polyprotein; RNA and DNA dependent DNA polymer | 100.0 | |
| 2zd1_A | 557 | Reverse transcriptase/ribonuclease H; P51/P66, het | 100.0 | |
| 1mu2_A | 555 | HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym | 100.0 | |
| 2zd1_B | 428 | P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid | 99.97 | |
| 3fsi_A | 255 | RT, reverse transcriptase domain; transferase/DNA | 99.97 | |
| 3s8i_A | 148 | Protein DDI1 homolog 1; protease, structural genom | 97.92 | |
| 2i1a_A | 148 | DNA damage-inducible protein DDI1; acid protease f | 97.77 | |
| 1fmb_A | 104 | EIAV protease; hydrolase (acid proteinase), RNA-di | 97.17 | |
| 2a51_A | 39 | Nucleocapsid protein; sivlhoest, structure, NCP8, | 96.85 | |
| 2ec7_A | 49 | GAG polyprotein (PR55GAG); nucleocapsid protein, H | 96.85 | |
| 2bl6_A | 37 | Nucleocapsid protein P11; lentivirus, polyprotein, | 96.75 | |
| 2cqf_A | 63 | RNA-binding protein LIN-28; CCHC zinc-finger, stru | 96.57 | |
| 1a1t_A | 55 | Nucleocapsid protein; stem-loop RNA, viral protein | 96.56 | |
| 2li8_A | 74 | Protein LIN-28 homolog A; zinc finger, micro RNA, | 96.47 | |
| 2ihx_A | 61 | Nucleocapsid (NC) protein; protein-RNA complex, vi | 96.46 | |
| 2bl6_A | 37 | Nucleocapsid protein P11; lentivirus, polyprotein, | 96.46 | |
| 3hst_B | 141 | Protein RV2228C/MT2287; ribonuclease H1, RV2228C N | 96.4 | |
| 1cl4_A | 60 | Protein (GAG polyprotein); nucleocapsid protein, R | 96.28 | |
| 2lli_A | 124 | Protein AIR2; RNA surveillance, RNA degradation, R | 96.16 | |
| 3nyb_B | 83 | Protein AIR2; polya RNA polymerase, zinc knuckle p | 96.08 | |
| 3u3g_D | 140 | Ribonuclease H, RNAse H1; hydrolase, cleave the RN | 96.0 | |
| 2li8_A | 74 | Protein LIN-28 homolog A; zinc finger, micro RNA, | 95.99 | |
| 2a51_A | 39 | Nucleocapsid protein; sivlhoest, structure, NCP8, | 95.96 | |
| 2hs1_A | 99 | HIV-1 protease; ultra-high resolution active site | 95.82 | |
| 2ec7_A | 49 | GAG polyprotein (PR55GAG); nucleocapsid protein, H | 95.54 | |
| 2lli_A | 124 | Protein AIR2; RNA surveillance, RNA degradation, R | 95.39 | |
| 4htu_A | 134 | Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, | 95.37 | |
| 1a1t_A | 55 | Nucleocapsid protein; stem-loop RNA, viral protein | 95.32 | |
| 3slz_A | 132 | GAG-Pro-POL polyprotein; beta sheet and dimer, pro | 95.29 | |
| 3ec0_A | 99 | Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1 | 95.24 | |
| 1dsq_A | 26 | Nucleic acid binding protein P14; CCHC type zinc f | 95.24 | |
| 3ts2_A | 148 | Protein LIN-28 homolog A; microrna biogenesis, pro | 95.2 | |
| 2kq2_A | 147 | Ribonuclease H-related protein; PSI, NESG, protein | 95.14 | |
| 1zbf_A | 142 | Ribonuclease H-related protein; RNAse H, RNA/DNA h | 95.1 | |
| 2cqf_A | 63 | RNA-binding protein LIN-28; CCHC zinc-finger, stru | 95.09 | |
| 2ehg_A | 149 | Ribonuclease HI; RNAse HI, hyperthermophilic archa | 95.08 | |
| 1nc8_A | 29 | Nucleocapsid protein; HIV-2, RNA recognition, zinc | 95.03 | |
| 2ihx_A | 61 | Nucleocapsid (NC) protein; protein-RNA complex, vi | 94.91 | |
| 2hah_A | 116 | Protease, retropepsin; retroviral, aspartyl, hydro | 94.49 | |
| 1cl4_A | 60 | Protein (GAG polyprotein); nucleocapsid protein, R | 94.48 | |
| 3ts2_A | 148 | Protein LIN-28 homolog A; microrna biogenesis, pro | 93.54 | |
| 1a6b_B | 40 | Momulv, zinc finger protein NCP10; nucleocapsid pr | 93.48 | |
| 3nyb_B | 83 | Protein AIR2; polya RNA polymerase, zinc knuckle p | 93.4 | |
| 2e4l_A | 158 | Ribonuclease HI, RNAse HI; hydrolase, endoribonucl | 93.14 | |
| 3h08_A | 146 | RNH (ribonuclease H); RNAse H, 3D-structure, endon | 93.08 | |
| 3p1g_A | 165 | Xenotropic murine leukemia virus-related virus (X | 92.77 | |
| 1jl1_A | 155 | Ribonuclease HI; RNAse HI, protein stability, ther | 92.32 | |
| 2qkb_A | 154 | Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy | 92.23 | |
| 2rsp_A | 124 | RSV protease; hydrolase(aspartyl proteinase); 2.00 | 92.16 | |
| 1u6p_A | 56 | GAG polyprotein; MLV, A-minor K-turn, stem loop, b | 91.25 | |
| 3ka2_A | 203 | [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro | 91.13 | |
| 3hst_B | 141 | Protein RV2228C/MT2287; ribonuclease H1, RV2228C N | 90.87 | |
| 1ril_A | 166 | Ribonuclease H; hydrolase(endoribonuclease); 2.80A | 90.63 | |
| 3qio_A | 150 | GAG-POL polyprotein; RNAse H, inhibitor, nuclease, | 90.56 | |
| 3u3g_D | 140 | Ribonuclease H, RNAse H1; hydrolase, cleave the RN | 89.87 | |
| 2ehg_A | 149 | Ribonuclease HI; RNAse HI, hyperthermophilic archa | 88.44 | |
| 3ka2_A | 203 | [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydro | 87.45 | |
| 3sqf_A | 114 | Protease; folded monomer, retropepsin, D-type retr | 87.03 | |
| 2ysa_A | 55 | Retinoblastoma-binding protein 6; zinc finger, CCH | 85.39 | |
| 2lsn_A | 165 | Reverse transcriptase; RNAse H, viral protein; NMR | 82.49 |
| >1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2 | Back alignment and structure |
|---|
Probab=100.00 E-value=1.2e-40 Score=418.92 Aligned_cols=376 Identities=16% Similarity=0.148 Sum_probs=279.0
Q ss_pred chhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccCccccc
Q psy15380 1129 NINLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYN 1208 (1738)
Q Consensus 1129 ~p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~gp~~~~ 1208 (1738)
+|+.+++|+++|++|++.|+|+++.++ |++|+++|.|++ ++++|+|+|+|. ||+.+.++++++|
T Consensus 48 ~~~~~~~~~~~i~~ll~~G~I~~~~sp-------~~spv~~V~Kk~--~g~~R~~~D~r~-------LN~~~~~~~~~lp 111 (455)
T 1rw3_A 48 SQEARLGIKPHIQRLLDQGILVPCQSP-------WNTPLLPVKKPG--TNDYRPVQDLRE-------VNKRVEDIHPTVP 111 (455)
T ss_dssp CTTHHHHSHHHHHHHHHTTSEEEECCS-------CBBCEECCCCSS--SSCCCCEECTHH-------HHHTBCCCCCCCC
T ss_pred CHHHHHHHHHHHHHHHhCCCEEecCCc-------ccCceEEEeccC--CCcEEEchhHHH-------HHhhccCCCCCCC
Confidence 478899999999999999999999775 999999999873 349999999964 8999999999999
Q ss_pred hhHHHhhhcc-cCcceeecccccceeeeEecccCcceEEEEeccCCcccceEEEEEEeeeccccchHHHHHHHHHHHHhh
Q psy15380 1209 DLFCILLKFR-LFPYALNGDITKMFLQIKLLSDYWKFQKILWRFSNKEKIDVYELRVVIFGTKASPYLAQRTVKQLIDDE 1287 (1738)
Q Consensus 1209 ~l~~iL~r~r-~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l~~~ 1287 (1738)
.+.++|.+++ ++++|+++|+++|||||+|+|+|+++|+|.|+....++.+.|+|+|||||+++||++||++|+.++.+.
T Consensus 112 ~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~taF~~~~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~ 191 (455)
T 1rw3_A 112 NPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADF 191 (455)
T ss_dssp CHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGGCEEECTTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHH
T ss_pred CHHHHhhhhccCCceEEecchhhhheeEeccccccceeEEeecCCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHh
Confidence 9999999997 999999999999999999999999999999985555678899999999999999999999999999988
Q ss_pred hhcCcccccccccceeccceeeecCCHHHHHHHHHHHHHHHHhCCceEeeeccCChHhhhcCCCccchhhccccCCCCCC
Q psy15380 1288 SKNFPLACQYIGESLYMDDCVISFPSQKEAIEFFNQTVKLFASGGFRFTKWSSNSPEILEQIPIHDRLAEMVSWHTDDFS 1367 (1738)
Q Consensus 1288 ~~~~p~~~~~i~~~~YvDDili~~~s~ee~~~~~~~v~~~l~~~Gf~l~k~~SN~~~vl~~i~~~~~~~~~~~~~~~~~~ 1367 (1738)
...++. ..+..|||||+|+++|.+||.+++++++++|+++||.++ ++ +.. .....
T Consensus 192 ~~~~~~----~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~~~gl~l~------~~-------K~~--------f~~~~ 246 (455)
T 1rw3_A 192 RIQHPD----LILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRAS------AK-------KAQ--------ICQKQ 246 (455)
T ss_dssp HHTCTT----CEEEEETTEEEEEESSHHHHHHHHHHHHHHHHHHTCCBC------GG-------GCC--------CSBSS
T ss_pred hhhCCC----ceEEEEcCCEEEecCCHHHHHHHHHHHHHHHHHcCCccC------cc-------chh--------hhccc
Confidence 765542 235679999999999999999999999999999999982 11 110 11245
Q ss_pred ceEeeeEEeccCCeEEEEec------CCCCCCCccccccc--ccccchhHHHHHHHHHHHHHhhccCCCCCCCchhhhHH
Q psy15380 1368 HKILGMLWNTSSDSLFFKIN------GLSKPLTKRGHTRV--NFGLLAPVILWAKLLIRELCILKLDWDSIPPPHLVQLW 1439 (1738)
Q Consensus 1368 ~k~LGi~W~~~~D~l~~~~~------~~~~~~TkR~vls~--plG~~~p~~l~~k~~ls~l~~~~~~Wd~~l~~~~~~~w 1439 (1738)
.++||+.|+... +..... ....+.|++++.+. .+|++.+.+-.+.
T Consensus 247 ~~fLG~~i~~~g--i~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~------------------------- 299 (455)
T 1rw3_A 247 VKYLGYLLKEGQ--RWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFA------------------------- 299 (455)
T ss_dssp CEETTEEESSSE--ECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCG-------------------------
T ss_pred eeEeeeeccCCe--eEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhh-------------------------
Confidence 799999987543 222111 11145566666443 2333333222211
Q ss_pred HHHhhhcccccccccCcccchhhhccccCCCCCCCCchhhhhccCCCCCCCCCchhhHHHHHHHhhcCCcccccccCCCC
Q psy15380 1440 QTFQAQLPLLESLAFPRHIGVYLRRKNKMGKPQNVDKDDKILMNGFSKPRRNGRHFVILLRRLVEKTGGLKIQFKNTSSS 1519 (1738)
Q Consensus 1440 ~~~~~~~~~~~~~~~pr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1519 (1738)
.+.-| +- .++.+
T Consensus 300 -----------~~~~p--L~-------------------------------------~llkk------------------ 311 (455)
T 1rw3_A 300 -----------EMAAP--LY-------------------------------------PLTKT------------------ 311 (455)
T ss_dssp -----------GGCCT--TC-------------------------------------C----------------------
T ss_pred -----------hhccc--HH-------------------------------------HHhcC------------------
Confidence 11122 10 00000
Q ss_pred cccccccccCceeeecccchhhhhhhcccccccccccCccccchhHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHH
Q psy15380 1520 TNLFRFREVGSLVYYDSYFNEIYISRRERENSCIESSTGRGLLAPVILWAKLLIRELCILKLDWDSIPPHHLVQLWQTFQ 1599 (1738)
Q Consensus 1520 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~plg~~~~~~~~~k~l~q~l~~~~~~WD~~l~~~~~~~w~~~~ 1599 (1738)
.....|++.. ...|..+.
T Consensus 312 ----------------------------------------------------------~~~~~W~~~~----~~af~~lK 329 (455)
T 1rw3_A 312 ----------------------------------------------------------GTLFNWGPDQ----QKAYQEIK 329 (455)
T ss_dssp --------------------------------------------------------------CCCCCC----SSSCCHHH
T ss_pred ----------------------------------------------------------CCCcCchHHH----HHHHHHHH
Confidence 0123455432 23344555
Q ss_pred HhcCCCCcEEEeeeeeccCCCceeeeeecccccccceeEEEEEEecCCCcEEEEEEeeccccccCCCCccchhhHHHHHH
Q psy15380 1600 AQLPLLESLAFPRHIGVYKDCKFQLIGFSDASEKGYGALIFSRVSLPNGSIVIQLICAKSRVSPLKVESIPRLELCAILL 1679 (1738)
Q Consensus 1600 ~~l~~l~~~~ipR~~~~~~~~~~~L~~F~DAS~~ayga~vy~r~~~~~g~~~~~l~~aKsrv~p~k~~tIprlEL~a~~~ 1679 (1738)
+.|.....+..| +...++++|||||..|+|||++-+ .+|...+...+||....+.++++++++||+|++.
T Consensus 330 ~~l~~~pvL~~p-------~~~~~~~l~~DAS~~~~gavL~q~---~~~~~~~i~y~Sk~l~~~e~~ys~~ekEllAi~~ 399 (455)
T 1rw3_A 330 QALLTAPALGLP-------DLTKPFELFVDEKQGYAKGVLTQK---LGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAV 399 (455)
T ss_dssp HHTCSSCCSCCS-------SSCCTTSCEEEEEECSSSBEECCB---CTTTTCCCCCCCBCSCSSCSSSCCSSHHHHHHHH
T ss_pred HHhhcCcccccC-------CCCCcEEEEEeccCCcceeEEEEe---cCCcEEEEEEEcccCCccccccchHHHHHHHHHH
Confidence 555553222222 234578999999999999987743 3566667778888888888899999999999999
Q ss_pred HHHHHHHHHHhcCCCCCcccEEEEechhhhHHhhcCCCccc
Q psy15380 1680 MSSLLKVVIDSYTPRYPIDSIYCFTDSSVALCWAHSPSHLF 1720 (1738)
Q Consensus 1680 ~~~l~~~~~~~l~~~~~~~~~~~~tDS~i~l~~i~~~~~~~ 1720 (1738)
|++...... . -..+.++||+. +++|++++..+|
T Consensus 400 a~~~~~~yl---~----g~~~~v~tDh~-~~~~l~~~~~~~ 432 (455)
T 1rw3_A 400 LTKDAGKLT---M----GQPLVIKAPHA-VEALVKQPPDRW 432 (455)
T ss_dssp HHHHHHGGG---C----SSCEEEECSSC-TTTTSSSTTTTT
T ss_pred HHHHHHHHc---C----CCcEEEEecCh-HHHHhCCCcccc
Confidence 987665432 2 24789999998 999999876544
|
| >2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ... | Back alignment and structure |
|---|
| >1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B | Back alignment and structure |
|---|
| >2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ... | Back alignment and structure |
|---|
| >3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ... | Back alignment and structure |
|---|
| >3s8i_A Protein DDI1 homolog 1; protease, structural genomics, structural genomics consortiu retropepsin-like domain, protein turnover, hydrolase; 1.70A {Homo sapiens} | Back alignment and structure |
|---|
| >2i1a_A DNA damage-inducible protein DDI1; acid protease fold, dimer, retroviral protease domain, protein turnover; HET: DNA; 2.30A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1fmb_A EIAV protease; hydrolase (acid proteinase), RNA-directed DNA polymerase, AS protease, endonuclease, polyprotein; HET: HYB; 1.80A {Equine infectious anemia virus} SCOP: b.50.1.1 PDB: 2fmb_A* | Back alignment and structure |
|---|
| >2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} | Back alignment and structure |
|---|
| >2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} | Back alignment and structure |
|---|
| >2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A | Back alignment and structure |
|---|
| >2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} | Back alignment and structure |
|---|
| >2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} | Back alignment and structure |
|---|
| >3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
| >1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A | Back alignment and structure |
|---|
| >2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} | Back alignment and structure |
|---|
| >2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} | Back alignment and structure |
|---|
| >2hs1_A HIV-1 protease; ultra-high resolution active site surface binding site, HYDR; HET: 017; 0.84A {Human immunodeficiency virus 1} PDB: 3nu4_A* 3tl9_A* 3tkw_A* 3tkg_A* 3ndu_A* 3ndt_A* 3k4v_A* 3a2o_A* 1fgc_C* 2a1e_A* 2aod_A* 2aoi_A* 2aoj_A* 2hb3_A* 2ien_A* 1sdt_A* 2z4o_A* 2zye_A* 2nmw_A* 3b7v_A* ... | Back alignment and structure |
|---|
| >2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A | Back alignment and structure |
|---|
| >1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A | Back alignment and structure |
|---|
| >3slz_A GAG-Pro-POL polyprotein; beta sheet and dimer, protease, peptide inhibitor, TL-3 PEPS virus, hydrolase-hydrolase inhibitor complex; HET: 3TL; 1.40A {Dg-75 murine leukemia virus} PDB: 3nr6_A* 3sm1_A* 3sm2_A* 4exh_A* | Back alignment and structure |
|---|
| >3ec0_A Protease; HIV-2, inhibitor, hydrolase; HET: GRL; 1.18A {Human immunodeficiency virus type 2} SCOP: b.50.1.1 PDB: 1hii_A* 1hsi_A 1hsh_A* 1idb_A* 1jld_A* 2mip_A 1ida_A* 3ebz_A* 3ecg_A* 3s45_A* 4upj_A* 1ivq_A* 1ivp_A 2hpf_A 3upj_A* 2hpe_A* 5upj_A* 6upj_A* 1sip_A 1tcw_A* ... | Back alignment and structure |
|---|
| >1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A* | Back alignment and structure |
|---|
| >2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A | Back alignment and structure |
|---|
| >1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A* | Back alignment and structure |
|---|
| >2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A | Back alignment and structure |
|---|
| >1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A | Back alignment and structure |
|---|
| >2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} | Back alignment and structure |
|---|
| >2hah_A Protease, retropepsin; retroviral, aspartyl, hydrolase-hydrolase complex; HET: 3TL; 1.70A {Feline immunodeficiency virus} PDB: 3ogp_A* 3ogq_A* 2fiv_A* 6fiv_A* 3fiv_A* 5fiv_A* 4fiv_A* 1fiv_A* 1b11_A* | Back alignment and structure |
|---|
| >1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A | Back alignment and structure |
|---|
| >3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A* | Back alignment and structure |
|---|
| >1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A | Back alignment and structure |
|---|
| >3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} | Back alignment and structure |
|---|
| >3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A | Back alignment and structure |
|---|
| >1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ... | Back alignment and structure |
|---|
| >2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* | Back alignment and structure |
|---|
| >2rsp_A RSV protease; hydrolase(aspartyl proteinase); 2.00A {Rous sarcoma virus} SCOP: b.50.1.1 PDB: 1mvp_A 1bai_A* | Back alignment and structure |
|---|
| >1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A | Back alignment and structure |
|---|
| >3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ... | Back alignment and structure |
|---|
| >3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
| >1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A | Back alignment and structure |
|---|
| >3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A | Back alignment and structure |
|---|
| >3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} | Back alignment and structure |
|---|
| >2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A | Back alignment and structure |
|---|
| >3ka2_A [L-Ala51;Gly51']HIV-1 protease; beta-barrel, hydrolase-hydrolase inhibitor complex; HET: YCM 2NC; 1.40A {Synthetic} PDB: 3fsm_A* 3gi0_A* 2o40_A* 3hzc_A* 3hlo_A* 3iaw_A* 3nxe_A* 3nxn_A* 4epj_A 4ep2_A 4ep3_A 4eq0_A 4eqj_A 1hvc_A* 1g6l_A 2whh_A* 1lv1_A* 3dox_A 3kt5_A 3kt2_A ... | Back alignment and structure |
|---|
| >3sqf_A Protease; folded monomer, retropepsin, D-type retrovirus; 1.63A {Mason-pfizer monkey virus} SCOP: b.50.1.1 PDB: 1nso_A | Back alignment and structure |
|---|
| >2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
No hit with e-value below 0.005
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1738 | |||
| d2zd1b1 | 424 | HIV-1 reverse transcriptase {Human immunodeficienc | 99.97 | |
| d1ztwa1 | 255 | MMLV reverse transcriptase {Moloney murine leukemi | 99.96 | |
| d1hara_ | 216 | HIV-1 reverse transcriptase {Human immunodeficienc | 99.96 | |
| d1mu2a2 | 427 | HIV-1 reverse transcriptase {Human immunodeficienc | 99.96 | |
| d2exfa1 | 42 | HIV nucleocapsid {Human immunodeficiency virus typ | 97.2 | |
| d1nc8a_ | 29 | HIV nucleocapsid {Human immunodeficiency virus typ | 96.79 | |
| d2exfa1 | 42 | HIV nucleocapsid {Human immunodeficiency virus typ | 96.47 | |
| d2fmba_ | 104 | EIAV protease {Equine infectious anemia virus [Tax | 96.09 | |
| d1nsoa_ | 107 | Mason-Pfizer monkey virus protease {Simian retrovi | 94.78 | |
| d2nmza1 | 99 | Human immunodeficiency virus type 1 protease {Huma | 94.77 | |
| d4fiva_ | 113 | Feline immunodeficiency virus (FIV) protease {Feli | 94.7 | |
| d3ecga1 | 99 | Human immunodeficiency virus type 2 (HIV-2) protea | 94.48 | |
| d1s1ta1 | 110 | HIV RNase H (Domain of reverse transcriptase) {Hum | 93.85 | |
| d1dsqa_ | 26 | Nucleic acid binding protein p14 {Mouse mammary tu | 93.12 | |
| d2rspa_ | 124 | Rous sarcoma virus protease {Rous sarcoma virus, s | 93.02 | |
| d1mu2a1 | 126 | HIV RNase H (Domain of reverse transcriptase) {Hum | 92.44 | |
| d1zbfa1 | 132 | BH0863-like Ribonuclease H {Bacillus halodurans [T | 92.41 | |
| d1hvca_ | 203 | Human immunodeficiency virus type 1 protease {Huma | 92.29 | |
| d1jl1a_ | 152 | RNase H (RNase HI) {Escherichia coli [TaxId: 562]} | 84.02 | |
| d1rila_ | 147 | RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 | 82.91 | |
| d1mu2a1 | 126 | HIV RNase H (Domain of reverse transcriptase) {Hum | 81.22 |
| >d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA/RNA polymerases superfamily: DNA/RNA polymerases family: Reverse transcriptase domain: HIV-1 reverse transcriptase species: Human immunodeficiency virus type 1 [TaxId: 11676]
Probab=99.97 E-value=8.9e-31 Score=315.73 Aligned_cols=187 Identities=18% Similarity=0.119 Sum_probs=164.3
Q ss_pred hhhHHHHHHHHHHHHhcCCeeecCCCCCCCCCceeeccccccCCCCCCCceEEeecCCccccCCCCcccccccCccccch
Q psy15380 1130 INLRCDYNQAMTDLIDNGFMVKCASLDQGDLNGYFIPHHVVTKPDSPSSKMRIVYDASTKTSSGKSLNDILHAGSKMYND 1209 (1738)
Q Consensus 1130 p~l~~~y~~~i~e~l~~G~ie~v~~~~~~~~~~~y~Ph~~V~k~~~~ttk~Riv~D~sa~~~~~~sLN~~l~~gp~~~~~ 1209 (1738)
++.+++.+++|++|++.|+|+++.+. + .|.+|.++|.|+|+ +|+|+|+|+|. ||+.+ .+.++++.
T Consensus 24 ~ek~~al~~~i~~ll~~G~I~~~~s~--S---p~~sPvf~V~KKdg--~k~R~~iDyR~-------LN~~t-~d~~~~~~ 88 (424)
T d2zd1b1 24 EEKIKALVEICTEMEKEGKISKIGPE--N---PYNTPVFAIKKKDS--TKWRKLVDFRE-------LNKRT-QDFWEVQL 88 (424)
T ss_dssp HHHHHHHHHHHHHHHHTTSEEECCTT--C---CCBBCEEEECCTTC--SSCEEEECTHH-------HHHHB-CCCCCTTS
T ss_pred HHHHHHHHHHHHHHHHCCeeEecCCC--C---CCcCCeEEEEeCCC--CceEEEEccHH-------HHHhc-CCCCCCCC
Confidence 57788999999999999999997542 1 49999999999875 48999999964 79998 57788888
Q ss_pred hHHHhhhcccCcceeecccccceeeeEecccCcceEEEEeccC-CcccceEEEEEEeeeccccchHHHHHHHHHHHHhhh
Q psy15380 1210 LFCILLKFRLFPYALNGDITKMFLQIKLLSDYWKFQKILWRFS-NKEKIDVYELRVVIFGTKASPYLAQRTVKQLIDDES 1288 (1738)
Q Consensus 1210 l~~iL~r~r~~~~~~~~Dl~kaf~qv~l~~~dr~~~~f~w~~~-~~~~~~~y~f~r~pFGl~~SP~~~~~~l~~~l~~~~ 1288 (1738)
..+++.++.++++|+++||.+||+||+|+|+||++|+|.+... ..++.+.|+|+|||||+++||++||++|+.++.+..
T Consensus 89 ~~~~~~~L~~~~~ft~lDl~~ay~qIpl~e~~r~~tAF~~p~~~f~T~~g~y~~~vlPfGl~nsPa~Fqr~m~~il~~~~ 168 (424)
T d2zd1b1 89 GIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFK 168 (424)
T ss_dssp CCCCCTTGGGSSEEEEEECGGGGGGSBCCTTTGGGGCEEECCGGGCSCCEEEEESBCCTTCTHHHHHHHHHHHHHHHHHH
T ss_pred cCcChHHhcCCceEeeccccccccccCCChhhccceeccccCcccccCCceEEEEecCCcccCcHHHHHHHHHHHccccc
Confidence 8899999999999999999999999999999999999998765 357888999999999999999999999999999887
Q ss_pred hcCcccccccccceeccceeeecC-CHHHHHHHHHHHHHHHHhCCceE
Q psy15380 1289 KNFPLACQYIGESLYMDDCVISFP-SQKEAIEFFNQTVKLFASGGFRF 1335 (1738)
Q Consensus 1289 ~~~p~~~~~i~~~~YvDDili~~~-s~ee~~~~~~~v~~~l~~~Gf~l 1335 (1738)
..+++ +.+..|||||+|+++ +.+||.+++++|+++|+++||.+
T Consensus 169 ~~~~~----~~i~~Y~DDIlI~S~~~~eeH~~~l~~vl~~L~~~gl~l 212 (424)
T d2zd1b1 169 KQNPD----IVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTT 212 (424)
T ss_dssp HHCTT----CEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHHHHC--
T ss_pred ccCcc----eeEEeccceEEEecCchhHHHHHHHHHHHHHHHHhCCcc
Confidence 65442 235679999999998 48999999999999999999987
|
| >d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} | Back information, alignment and structure |
|---|
| >d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
|---|
| >d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
|---|
| >d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} | Back information, alignment and structure |
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| >d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
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| >d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} | Back information, alignment and structure |
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| >d2fmba_ b.50.1.1 (A:) EIAV protease {Equine infectious anemia virus [TaxId: 11665]} | Back information, alignment and structure |
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| >d1nsoa_ b.50.1.1 (A:) Mason-Pfizer monkey virus protease {Simian retrovirus 1, SRV-1 [TaxId: 11942]} | Back information, alignment and structure |
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| >d2nmza1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
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| >d4fiva_ b.50.1.1 (A:) Feline immunodeficiency virus (FIV) protease {Feline immunodeficiency virus [TaxId: 11673]} | Back information, alignment and structure |
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| >d3ecga1 b.50.1.1 (A:1-99) Human immunodeficiency virus type 2 (HIV-2) protease {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
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| >d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
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| >d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]} | Back information, alignment and structure |
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| >d2rspa_ b.50.1.1 (A:) Rous sarcoma virus protease {Rous sarcoma virus, strain pr-C [TaxId: 11886]} | Back information, alignment and structure |
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| >d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
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| >d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} | Back information, alignment and structure |
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| >d1hvca_ b.50.1.1 (A:) Human immunodeficiency virus type 1 protease {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
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| >d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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| >d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
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| >d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
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