Psyllid ID: psy10264
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 | 426 | ||||||
| 125901787 | 1222 | pol-like protein [Biomphalaria glabrata] | 0.781 | 0.272 | 0.303 | 4e-37 | |
| 427791321 | 1210 | Putative tick transposon, partial [Rhipi | 0.821 | 0.289 | 0.305 | 9e-37 | |
| 427791807 | 1212 | Putative tick transposon, partial [Rhipi | 0.821 | 0.288 | 0.305 | 1e-36 | |
| 443710566 | 377 | hypothetical protein CAPTEDRAFT_186063 [ | 0.776 | 0.877 | 0.305 | 3e-31 | |
| 427791063 | 1035 | Putative tick transposon, partial [Rhipi | 0.805 | 0.331 | 0.290 | 1e-28 | |
| 427798889 | 1199 | Putative tick transposon, partial [Rhipi | 0.800 | 0.284 | 0.288 | 2e-27 | |
| 427798887 | 1199 | Putative tick transposon, partial [Rhipi | 0.800 | 0.284 | 0.291 | 5e-27 | |
| 328697220 | 1915 | PREDICTED: hypothetical protein LOC10016 | 0.856 | 0.190 | 0.284 | 7e-27 | |
| 427791981 | 1060 | Putative tick transposon, partial [Rhipi | 0.525 | 0.211 | 0.358 | 9e-26 | |
| 427798885 | 1199 | Putative tick transposon, partial [Rhipi | 0.800 | 0.284 | 0.286 | 1e-25 |
| >gi|125901787|gb|ABN58714.1| pol-like protein [Biomphalaria glabrata] | Back alignment and taxonomy information |
|---|
Score = 161 bits (408), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 114/376 (30%), Positives = 177/376 (47%), Gaps = 43/376 (11%)
Query: 1 MKILSNRNWGLRRETLRRLYYSFVLPILDYGSILYSSATEPTLKKLNVVHHTGVRLISGA 60
+++LS+ +WG R+TL LY S + LDYGSI+Y +A + LK L + + +RL GA
Sbjct: 766 LRVLSHTDWGADRDTLLLLYRSLIRSKLDYGSIIYGAARKSYLKILEPIQNAALRLCLGA 825
Query: 61 FRTSPIVSILAESGIPPLSVRRNILALNYVCNVSRNTTNPA--------HTVLFHKGPRI 112
FRTSPI S+ E+G P+ +R LA+ Y+ + N TNPA L+++ P +
Sbjct: 826 FRTSPIPSLHVEAGELPMDIRMKKLAMQYIVKLKSNPTNPAFDSIFNPTEVELYNRRPNV 885
Query: 113 QCSKYTKPLRFRVEDLPGVSELNVNSIAKYYL-RFAPWQVETPRTDYLVTSAKKNLSKEE 171
+PL R+ + ++ I+K + PW + P+ + + + KK +
Sbjct: 886 -----IQPLGLRMREPIQNLTQPIDQISKIETPQNPPWLMNKPKLNLSLLNFKKENTDPS 940
Query: 172 VVQ-HFLKFKDQHKFDTLCFTDGSKTSDHTGAAYIIGDEVCSMKLNPVCSIFTAELVAIE 230
++Q HF + ++ + +TDGSK A ++ S +L CSIFTAEL AI
Sbjct: 941 ILQVHFRELQESYGDCGTIYTDGSKMEGKVACACSFRNKTISRRLPDGCSIFTAELHAIL 1000
Query: 231 KCLEKIKDLIRTELISELVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHA 290
L +K R++ FIICSDSKS+LQAL +
Sbjct: 1001 LALMAVKASERSK---------------------------FIICSDSKSALQALGRMKTD 1033
Query: 291 SPLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCNDVPITKVCIS-DDY 349
PLV + + I V+F W+PSH+GI NE D A+ + ++ I D
Sbjct: 1034 IPLVHKSLKLLDLITADRRDVTFIWVPSHVGIEGNEAADREAKRALNHAVSGTQIPYSDL 1093
Query: 350 KIQFKKIQLNEWNHSW 365
+ EW + W
Sbjct: 1094 RQSIASATYREWQNRW 1109
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Source: Biomphalaria glabrata Species: Biomphalaria glabrata Genus: Biomphalaria Family: Planorbidae Order: Class: Gastropoda Phylum: Mollusca Superkingdom: Eukaryota |
| >gi|427791321|gb|JAA61112.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|427791807|gb|JAA61355.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|443710566|gb|ELU04776.1| hypothetical protein CAPTEDRAFT_186063 [Capitella teleta] | Back alignment and taxonomy information |
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| >gi|427791063|gb|JAA60983.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|427798889|gb|JAA64896.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|427798887|gb|JAA64895.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|328697220|ref|XP_001949504.2| PREDICTED: hypothetical protein LOC100162931 [Acyrthosiphon pisum] | Back alignment and taxonomy information |
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| >gi|427791981|gb|JAA61442.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|427798885|gb|JAA64894.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | 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
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 3.1.26.4 | LOW CONFIDENCE prediction! |
| 3rd Layer | 3.1.26 | 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 | 426 | |||
| cd09276 | 128 | cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom | 1e-32 | |
| pfam00075 | 126 | pfam00075, RNase_H, RNase H | 8e-11 | |
| cd06222 | 123 | cd06222, RNase_H, RNase H is an endonuclease that | 4e-06 | |
| cd09273 | 135 | cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase | 6e-05 | |
| cd09280 | 150 | cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase | 3e-04 |
| >gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases | Back alignment and domain information |
|---|
Score = 119 bits (300), Expect = 1e-32
Identities = 48/148 (32%), Positives = 69/148 (46%), Gaps = 28/148 (18%)
Query: 189 CFTDGSKTSDHTGAAYII---GDEVCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELI 245
+TDGSK TGA + I G S KL P CS+F AEL+AI + L+
Sbjct: 2 IYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLA--------- 52
Query: 246 SELVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHASPLVCNIISTIQDIR 305
+R + I SDS+++L+AL++ +SPLV I I+++
Sbjct: 53 ----------------LREGRRARKITIFSDSQAALKALRSPRSSSPLVLRIRKAIRELA 96
Query: 306 ELGTRVSFFWIPSHLGIRENENVDHAAR 333
G +V W+P H GI NE D A+
Sbjct: 97 NHGVKVRLHWVPGHSGIEGNERADRLAK 124
|
Ribonuclease H (RNase H) is classified into two families, type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type 2 (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). Ribonuclease HI (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes. RNase HI has also been observed as an adjunct domain to the reverse transcriptase gene in retroviruses, long-term repeat (LTR)-bearing retrotransposons and non-LTR retrotransposons. RNase HI in LTR retrotransposons perform degradation of the original RNA template, generation of a polypurine tract (the primer for plus-strand DNA synthesis), and final removal of RNA primers from newly synthesized minus and plus strands. The catalytic residues for RNase H enzymatic activity, three aspartatic acids and one glutamatic acid residue (DEDD), are unvaried across all RNase H domains. The position of the RNase domain of non-LTR and LTR transposons is at the carboxyl terminal of the reverse transcriptase (RT) domain and their RNase domains group together, indicating a common evolutionary origin. Many non-LTR transposons have lost the RNase domain because their activity is at the nucleus and cellular RNase may suffice; however LTR retotransposons always encode their own RNase domain because it requires RNase activity in RNA-protein particles in the cytoplasm. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription. Length = 128 |
| >gnl|CDD|215695 pfam00075, RNase_H, RNase H | Back alignment and domain information |
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| >gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner | Back alignment and domain information |
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| >gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term repeat retroelements | Back alignment and domain information |
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| >gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and more complex than their prokaryotic counterparts and unlike prokaryote, RNase H are essential in higher eukaryote | 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 | 426 | |||
| PRK08719 | 147 | ribonuclease H; Reviewed | 99.85 | |
| PRK06548 | 161 | ribonuclease H; Provisional | 99.85 | |
| PF00075 | 132 | RNase_H: RNase H; InterPro: IPR002156 The RNase H | 99.85 | |
| COG0328 | 154 | RnhA Ribonuclease HI [DNA replication, recombinati | 99.84 | |
| PRK00203 | 150 | rnhA ribonuclease H; Reviewed | 99.82 | |
| cd06222 | 130 | RnaseH RNase H (RNase HI) is an endonuclease that | 99.75 | |
| PRK13907 | 128 | rnhA ribonuclease H; Provisional | 99.65 | |
| KOG3752|consensus | 371 | 99.63 | ||
| PRK07708 | 219 | hypothetical protein; Validated | 99.5 | |
| PRK07238 | 372 | bifunctional RNase H/acid phosphatase; Provisional | 99.38 | |
| PF13456 | 87 | RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH | 99.09 | |
| PF02022 | 40 | Integrase_Zn: Integrase Zinc binding domain The st | 89.71 |
| >PRK08719 ribonuclease H; Reviewed | Back alignment and domain information |
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Probab=99.85 E-value=4.6e-21 Score=170.01 Aligned_cols=121 Identities=24% Similarity=0.347 Sum_probs=95.3
Q ss_pred CCceeeccCCCCCC-----cceEEEEEcce------eeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy10264 185 FDTLCFTDGSKTSD-----HTGAAYIIGDE------VCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEK 253 (426)
Q Consensus 185 ~~~~iytDgS~~~~-----~~G~g~v~~~~------~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~ 253 (426)
..+.||||||+..+ ..|+|+++... ..+..+....|+++||+.|+..||+.+.+
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~--------------- 67 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARD--------------- 67 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCC---------------
Confidence 46799999999753 35999987421 23445656689999999999999998742
Q ss_pred HHhhhhhhhhhhcccceEEEEecCHHHHHHH--------HccCCCC---HH-HHHHHHHHHHHHhcCCeEEEEEecCCCC
Q psy10264 254 CLEKIKDLIRTELILQNFIICSDSKSSLQAL--------QNVYHAS---PL-VCNIISTIQDIRELGTRVSFFWIPSHLG 321 (426)
Q Consensus 254 ~~~~~~~~~~~~~~~~~v~I~tDs~~al~~l--------~~~~~~s---~~-~~~i~~~~~~l~~~~~~v~~~WVPgH~g 321 (426)
...|+|||++|++++ ++++..+ ++ -.++++.+..|.. ...|+|.|||||+|
T Consensus 68 ----------------~~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g 130 (147)
T PRK08719 68 ----------------GDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSG 130 (147)
T ss_pred ----------------CCEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCC
Confidence 137999999999999 5666544 22 2677888877765 56799999999999
Q ss_pred CccchHHhHHHhcccC
Q psy10264 322 IRENENVDHAARHCND 337 (426)
Q Consensus 322 i~gNe~AD~lAk~a~~ 337 (426)
++|||.||+||+.|++
T Consensus 131 ~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 131 IEGNEAADMLAQAAAE 146 (147)
T ss_pred ChhHHHHHHHHHHHhh
Confidence 9999999999999874
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| >PRK06548 ribonuclease H; Provisional | Back alignment and domain information |
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| >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 |
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| >COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] | Back alignment and domain information |
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| >PRK00203 rnhA ribonuclease H; Reviewed | Back alignment and domain information |
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| >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 |
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| >PRK13907 rnhA ribonuclease H; Provisional | Back alignment and domain information |
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| >KOG3752|consensus | Back alignment and domain information |
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| >PRK07708 hypothetical protein; Validated | Back alignment and domain information |
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| >PRK07238 bifunctional RNase H/acid phosphatase; Provisional | Back alignment and domain information |
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| >PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B | Back alignment and domain information |
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| >PF02022 Integrase_Zn: Integrase Zinc binding domain The structure of the N-terminal zinc binding domain | Back alignment and domain information |
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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 = 46.8 bits (110), Expect = 1e-05
Identities = 77/555 (13%), Positives = 153/555 (27%), Gaps = 186/555 (33%)
Query: 9 WGLRRETLRRLYYSFVLPIL--DYGSILYSSATEPTLKKLNVVHHTGVRLISGAFRTSPI 66
W L + + FV +L +Y ++ TE + + R + + +
Sbjct: 69 WTLLSKQ-EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQR--DRLYNDNQV 125
Query: 67 VSILAESGIPPLSVRR--NILAL-NYVCNVSRNTTNPAHTVLFH--KGPRIQCSKYT--- 118
+V R L L + + PA VL G K
Sbjct: 126 --------FAKYNVSRLQPYLKLRQALLELR-----PAKNVLIDGVLG----SGKTWVAL 168
Query: 119 KPLR-FRVEDLP--GVSELNVNS----------IAKYYLRFAPWQVETPRTDYLVTSAKK 165
++V+ + LN+ + + K + P T R+D+ +
Sbjct: 169 DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP--NWTSRSDHSSNIKLR 226
Query: 166 NLSKEEVVQHFLKFKDQHK-----------------FDTLC---FTDGSKTSDHTGAAYI 205
S + ++ LK K ++ F+ C T T ++
Sbjct: 227 IHSIQAELRRLLKSK-PYENCLLVLLNVQNAKAWNAFNLSCKILLT----TRFKQVTDFL 281
Query: 206 IGDEVCSMKLNPVCSIFT----AELVAIEKCLE-KIKDLIRTE----------LISELV- 249
+ L+ T L+ K L+ + +DL E +I+E +
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLL--KYLDCRPQDL-PREVLTTNPRRLSIIAESIR 338
Query: 250 -------------------AIEKCLEKIK-DLIR---------------TELILQNF--- 271
IE L ++ R ++L
Sbjct: 339 DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFD 398
Query: 272 --------IICSDSKSSL---QALQNVYHASPLVCNIISTIQDIRELGTRVSFFWIPSHL 320
++ K SL Q ++ + + +++ L H
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL-----------HR 447
Query: 321 GIRENENVDHAARHCNDVPITKVCISDDYKIQF-----KKIQLNE---------WNHSW- 365
I ++ N+ +D+ + D Y K I+ E + +
Sbjct: 448 SIVDHYNI-PKTFDSDDLIPPYL---DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 366 ----RDNSTTGQKLTMLRDTAMTFRL---------PKYAFRM-TIKYNLRKFNKMNGIIH 411
R +ST + +T + PKY + I L K + +I
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN--LIC 561
Query: 412 GEIT--VQLGKSSEK 424
+ T +++ +E
Sbjct: 562 SKYTDLLRIALMAED 576
|
| >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 |
|---|
| >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 Length = 165 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 426 | |||
| 2qkb_A | 154 | Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy | 99.87 | |
| 3qio_A | 150 | GAG-POL polyprotein; RNAse H, inhibitor, nuclease, | 99.86 | |
| 2kq2_A | 147 | Ribonuclease H-related protein; PSI, NESG, protein | 99.85 | |
| 3h08_A | 146 | RNH (ribonuclease H); RNAse H, 3D-structure, endon | 99.84 | |
| 3p1g_A | 165 | Xenotropic murine leukemia virus-related virus (X | 99.83 | |
| 1jl1_A | 155 | Ribonuclease HI; RNAse HI, protein stability, ther | 99.83 | |
| 2e4l_A | 158 | Ribonuclease HI, RNAse HI; hydrolase, endoribonucl | 99.82 | |
| 1ril_A | 166 | Ribonuclease H; hydrolase(endoribonuclease); 2.80A | 99.8 | |
| 3hst_B | 141 | Protein RV2228C/MT2287; ribonuclease H1, RV2228C N | 99.77 | |
| 2lsn_A | 165 | Reverse transcriptase; RNAse H, viral protein; NMR | 99.76 | |
| 3u3g_D | 140 | Ribonuclease H, RNAse H1; hydrolase, cleave the RN | 99.76 | |
| 2ehg_A | 149 | Ribonuclease HI; RNAse HI, hyperthermophilic archa | 99.73 | |
| 1mu2_A | 555 | HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym | 99.72 | |
| 2zd1_A | 557 | Reverse transcriptase/ribonuclease H; P51/P66, het | 99.71 | |
| 1zbf_A | 142 | Ribonuclease H-related protein; RNAse H, RNA/DNA h | 99.11 | |
| 4htu_A | 134 | Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, | 98.8 |
| >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 |
|---|
Probab=99.87 E-value=1.7e-22 Score=179.31 Aligned_cols=127 Identities=20% Similarity=0.298 Sum_probs=97.5
Q ss_pred CCceeeccCCCCCC-----cceEEEEEcce---eeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Q psy10264 185 FDTLCFTDGSKTSD-----HTGAAYIIGDE---VCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLE 256 (426)
Q Consensus 185 ~~~~iytDgS~~~~-----~~G~g~v~~~~---~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~ 256 (426)
..+.||||||+..+ .+|+|+++.+. ..+..++..+|++.||+.|++.||+.+.....
T Consensus 6 ~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~--------------- 70 (154)
T 2qkb_A 6 DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNI--------------- 70 (154)
T ss_dssp TEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTC---------------
T ss_pred CeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCC---------------
Confidence 45799999998753 27899988542 23445555689999999999999999976432
Q ss_pred hhhhhhhhhcccceEEEEecCHHHHHHHHcc--------CCCC---HH-HHHHHHHHHHHHhcCCeEEEEEecCCCCCcc
Q psy10264 257 KIKDLIRTELILQNFIICSDSKSSLQALQNV--------YHAS---PL-VCNIISTIQDIRELGTRVSFFWIPSHLGIRE 324 (426)
Q Consensus 257 ~~~~~~~~~~~~~~v~I~tDs~~al~~l~~~--------~~~s---~~-~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~g 324 (426)
.++.|+|||+++++.|... +..+ +. ...+++.+.++.. +..|.|.|||||+|++|
T Consensus 71 ------------~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~ 137 (154)
T 2qkb_A 71 ------------NKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIG 137 (154)
T ss_dssp ------------CEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHH
T ss_pred ------------ceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHh
Confidence 7899999999999999872 2211 11 2455666666544 56799999999999999
Q ss_pred chHHhHHHhcccCCC
Q psy10264 325 NENVDHAARHCNDVP 339 (426)
Q Consensus 325 Ne~AD~lAk~a~~~~ 339 (426)
||.||+|||+|+..+
T Consensus 138 N~~AD~LA~~a~~~~ 152 (154)
T 2qkb_A 138 NEEADRLAREGAKQS 152 (154)
T ss_dssp HHHHHHHHHHHHTCC
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999998764
|
| >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 |
|---|
| >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 |
|---|
| >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 |
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| >2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A | Back alignment and structure |
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| >1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A | Back alignment and structure |
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| >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 |
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| >2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} | Back alignment and structure |
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| >3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} | Back alignment and structure |
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| >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 |
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| >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 |
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| >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 |
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| >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 |
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| >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 |
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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 |
| 426 | ||||
| d1mu2a1 | 126 | c.55.3.1 (A:430-555) HIV RNase H (Domain of revers | 1e-04 |
| >d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 126 | Back information, alignment and structure |
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class: Alpha and beta proteins (a/b) fold: Ribonuclease H-like motif superfamily: Ribonuclease H-like family: Ribonuclease H domain: HIV RNase H (Domain of reverse transcriptase) species: Human immunodeficiency virus type 2 [TaxId: 11709]
Score = 39.1 bits (90), Expect = 1e-04
Identities = 28/146 (19%), Positives = 44/146 (30%), Gaps = 35/146 (23%)
Query: 190 FTDGS--KTSDHTGAAYIIGDEVCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISE 247
+TDGS + S A Y+ +K + AEL A L
Sbjct: 11 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSG---------- 60
Query: 248 LVAIEKCLEKIKDLIRTELILQNFIICSDSKSSLQALQNVYHASPLVCNIISTIQDIREL 307
I DS+ + + + S I++ I +
Sbjct: 61 ---------------------PKVNIIVDSQYVMGIVASQPTESE--SKIVNQIIEEMIK 97
Query: 308 GTRVSFFWIPSHLGIRENENVDHAAR 333
+ W+P+H GI N+ VDH
Sbjct: 98 KEAIYVAWVPAHKGIGGNQEVDHLVS 123
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Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 426 | |||
| d1mu2a1 | 126 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.88 | |
| d1rila_ | 147 | RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 | 99.83 | |
| d1jl1a_ | 152 | RNase H (RNase HI) {Escherichia coli [TaxId: 562]} | 99.82 | |
| d1s1ta1 | 110 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.65 | |
| d1zbfa1 | 132 | BH0863-like Ribonuclease H {Bacillus halodurans [T | 99.31 | |
| d1e0ea_ | 46 | N-terminal Zn binding domain of HIV integrase {Hum | 90.7 | |
| d1k6ya1 | 46 | N-terminal Zn binding domain of HIV integrase {Hum | 84.06 |
| >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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class: Alpha and beta proteins (a/b) fold: Ribonuclease H-like motif superfamily: Ribonuclease H-like family: Ribonuclease H domain: HIV RNase H (Domain of reverse transcriptase) species: Human immunodeficiency virus type 2 [TaxId: 11709]
Probab=99.88 E-value=1.8e-23 Score=177.50 Aligned_cols=117 Identities=24% Similarity=0.263 Sum_probs=87.5
Q ss_pred CCCceeeccCCCCC--CcceEEEEEcce-eeeccCCCccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhh
Q psy10264 184 KFDTLCFTDGSKTS--DHTGAAYIIGDE-VCSMKLNPVCSIFTAELVAIEKCLEKIKDLIRTELISELVAIEKCLEKIKD 260 (426)
Q Consensus 184 ~~~~~iytDgS~~~--~~~G~g~v~~~~-~~~~~l~~~~~v~~AEl~Ai~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (426)
+....+|||||+.. +..|+|+++... .....++ ..|++.||+.||++||+..
T Consensus 5 ~~~~t~YTDGS~~~n~~~~~~g~~~~~~~~~~~~~~-~~tnn~AEl~Ai~~al~~~------------------------ 59 (126)
T d1mu2a1 5 PGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLE-QTTNQQAELEAFAMALTDS------------------------ 59 (126)
T ss_dssp TTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHTS------------------------
T ss_pred CCCcEEEEcCCCCCCCCcEEEEEEecCCCEEEEecC-CCcchHHHHHHHHHHhccC------------------------
Confidence 34568999999764 346677777542 2333333 5789999999999998742
Q ss_pred hhhhhcccceEEEEecCHHHHHHHHccCCCC--HHHHHHHHHHHHHHhcCCeEEEEEecCCCCCccchHHhHHHhccc
Q psy10264 261 LIRTELILQNFIICSDSKSSLQALQNVYHAS--PLVCNIISTIQDIRELGTRVSFFWIPSHLGIRENENVDHAARHCN 336 (426)
Q Consensus 261 ~~~~~~~~~~v~I~tDs~~al~~l~~~~~~s--~~~~~i~~~~~~l~~~~~~v~~~WVPgH~gi~gNe~AD~lAk~a~ 336 (426)
...+.|+|||++++..+.+.+..+ ..... .++.+ .....|.|.|||||+|++|||+||+||++|.
T Consensus 60 -------~~~i~I~tDS~~v~~~~~~~~~~~~~~~~~~---~~~~~-~~~~~v~~~wV~gH~g~~gNe~AD~LA~~ai 126 (126)
T d1mu2a1 60 -------GPKVNIIVDSQYVMGIVASQPTESESKIVNQ---IIEEM-IKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI 126 (126)
T ss_dssp -------CSEEEEEESCHHHHHHHHTCCSEESCHHHHH---HHHHH-HHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred -------CcceEEEechHHHHHHHhcCCccccchHHHH---HHHHh-hhcceeEEEEEeCCCCCcchHHHHHHHHhhC
Confidence 278999999999999999976544 33222 23333 3456899999999999999999999999874
|
| >d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} | 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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| >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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| >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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| >d1e0ea_ a.4.10.1 (A:) N-terminal Zn binding domain of HIV integrase {Human immunodeficiency virus type 2 [TaxId: 11709]} | Back information, alignment and structure |
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| >d1k6ya1 a.4.10.1 (A:1-46) N-terminal Zn binding domain of HIV integrase {Human immunodeficiency virus type 1 [TaxId: 11676]} | Back information, alignment and structure |
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