Psyllid ID: psy14646
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 | 366 | ||||||
| 427791321 | 1210 | Putative tick transposon, partial [Rhipi | 0.562 | 0.170 | 0.322 | 1e-20 | |
| 427791807 | 1212 | Putative tick transposon, partial [Rhipi | 0.562 | 0.169 | 0.322 | 1e-20 | |
| 443721618 | 471 | hypothetical protein CAPTEDRAFT_200496, | 0.592 | 0.460 | 0.301 | 2e-18 | |
| 125901787 | 1222 | pol-like protein [Biomphalaria glabrata] | 0.546 | 0.163 | 0.304 | 1e-16 | |
| 443693558 | 502 | hypothetical protein CAPTEDRAFT_189741, | 0.445 | 0.324 | 0.345 | 3e-16 | |
| 443695973 | 261 | hypothetical protein CAPTEDRAFT_23017, p | 0.445 | 0.624 | 0.340 | 7e-16 | |
| 11323019 | 1227 | pol [Drosophila melanogaster] | 0.551 | 0.164 | 0.305 | 2e-15 | |
| 443712830 | 397 | hypothetical protein CAPTEDRAFT_202466 [ | 0.445 | 0.410 | 0.340 | 3e-15 | |
| 443733872 | 400 | hypothetical protein CAPTEDRAFT_197082 [ | 0.420 | 0.385 | 0.306 | 3e-15 | |
| 427798889 | 1199 | Putative tick transposon, partial [Rhipi | 0.491 | 0.150 | 0.314 | 4e-15 |
| >gi|427791321|gb|JAA61112.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
|---|
Score = 106 bits (265), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 76/236 (32%), Positives = 114/236 (48%), Gaps = 30/236 (12%)
Query: 139 RKILIISDSLSSFQAISNLYHPNPLVKKI-QEEYSNSQA-NIKFLWCPSHVSISGNERAE 196
+K +I +DSLS+ +A+ PLV I NS+ +++F W PSHV I GNE+A+
Sbjct: 992 KKAIIYTDSLSALKALHIKSECEPLVGDILNMVLINSKVISMRFCWVPSHVGIPGNEKAD 1051
Query: 197 ECYSNYLASVETAIRSDPRFFWKYERSMRKDQSLPKNLHYGSDEATSVKWNTVWTSINPN 256
+C S T IR + +R++R A KW W S
Sbjct: 1052 KCASLAAHKTLTKIRIPLK---DSQRTIRL--------------ALLAKWQQQWDSCT-- 1092
Query: 257 ENKLRRIKNSITPWKTSSQKARLDEVCLMRLRIGHTKITHSHLFKREERPECDTCHEPVT 316
NKL +K ++ WK + R EV L RLRIGHT +TH+ L +EE+P C+ C EP+T
Sbjct: 1093 SNKLHLVKPTLGEWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLT 1152
Query: 317 VEHLLLHCNKLRFRPPSFLGNSLSNILSDNP------DSISTL---MRFLKRNNFL 363
+ H+L+ C + + + + +P D++ L + FLK NFL
Sbjct: 1153 LIHILILCPNIETQRQKYFSKLYKQYIPLHPTLLLGDDALVPLPDVLSFLKECNFL 1208
|
Source: Rhipicephalus pulchellus Species: Rhipicephalus pulchellus Genus: Rhipicephalus Family: Ixodidae Order: Ixodida Class: Arachnida Phylum: Arthropoda Superkingdom: Eukaryota |
| >gi|427791807|gb|JAA61355.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|443721618|gb|ELU10867.1| hypothetical protein CAPTEDRAFT_200496, partial [Capitella teleta] | Back alignment and taxonomy information |
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| >gi|125901787|gb|ABN58714.1| pol-like protein [Biomphalaria glabrata] | Back alignment and taxonomy information |
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| >gi|443693558|gb|ELT94903.1| hypothetical protein CAPTEDRAFT_189741, partial [Capitella teleta] | Back alignment and taxonomy information |
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| >gi|443695973|gb|ELT96755.1| hypothetical protein CAPTEDRAFT_23017, partial [Capitella teleta] | Back alignment and taxonomy information |
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| >gi|11323019|emb|CAC16871.1| pol [Drosophila melanogaster] | Back alignment and taxonomy information |
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| >gi|443712830|gb|ELU05953.1| hypothetical protein CAPTEDRAFT_202466 [Capitella teleta] | Back alignment and taxonomy information |
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| >gi|443733872|gb|ELU18078.1| hypothetical protein CAPTEDRAFT_197082 [Capitella teleta] | 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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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 | 366 | |||
| cd09276 | 128 | cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom | 2e-12 | |
| pfam00075 | 126 | pfam00075, RNase_H, RNase H | 8e-06 |
| >gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases | Back alignment and domain information |
|---|
Score = 63.0 bits (154), Expect = 2e-12
Identities = 36/152 (23%), Positives = 54/152 (35%), Gaps = 44/152 (28%)
Query: 50 ETGVGCALTIPQLNETKR-FALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNK 108
E G I + R + L + S+F AEL +I
Sbjct: 10 EGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAI------------------------ 45
Query: 109 HELKDKLLQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLYHPNPLVKKIQ 168
+ LQ RKI I SDS ++ +A+ + +PLV +I+
Sbjct: 46 ----LEALQLALREGRR------------ARKITIFSDSQAALKALRSPRSSSPLVLRIR 89
Query: 169 ---EEYSNSQANIKFLWCPSHVSISGNERAEE 197
E +N ++ W P H I GNERA+
Sbjct: 90 KAIRELANHGVKVRLHWVPGHSGIEGNERADR 121
|
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 |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 366 | |||
| PF00075 | 132 | RNase_H: RNase H; InterPro: IPR002156 The RNase H | 99.77 | |
| PRK08719 | 147 | ribonuclease H; Reviewed | 99.72 | |
| PRK00203 | 150 | rnhA ribonuclease H; Reviewed | 99.69 | |
| COG0328 | 154 | RnhA Ribonuclease HI [DNA replication, recombinati | 99.69 | |
| PRK06548 | 161 | ribonuclease H; Provisional | 99.69 | |
| cd06222 | 130 | RnaseH RNase H (RNase HI) is an endonuclease that | 99.61 | |
| KOG3752|consensus | 371 | 99.39 | ||
| PRK13907 | 128 | rnhA ribonuclease H; Provisional | 99.34 | |
| PRK07708 | 219 | hypothetical protein; Validated | 99.17 | |
| PF13456 | 87 | RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH | 98.95 | |
| PRK07238 | 372 | bifunctional RNase H/acid phosphatase; Provisional | 98.91 | |
| PF13966 | 86 | zf-RVT: zinc-binding in reverse transcriptase | 96.17 |
| >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 |
|---|
Probab=99.77 E-value=3.1e-18 Score=145.23 Aligned_cols=117 Identities=25% Similarity=0.298 Sum_probs=88.3
Q ss_pred cceeeCCCcc--CCCCceeEEEEEecCCeeEEEEcCCCCChhHHHHHHHHHHhhcccccccCCCchhhhhccchhhhHHH
Q psy14646 38 FPICSSSPID--LDETGVGCALTIPQLNETKRFALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNKHELKDKL 115 (366)
Q Consensus 38 ~~~~~~~~~~--~~~~~~g~a~~~~~~~~~~~~~l~~~~~~~~ae~~ai~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (366)
..++|+ |+| ...+..|+|+++... ....+.++ ..|++.||+.||..||+.
T Consensus 3 ~~~iyt-DgS~~~~~~~~~~g~v~~~~-~~~~~~~~-~~s~~~aEl~Ai~~AL~~------------------------- 54 (132)
T PF00075_consen 3 AIIIYT-DGSCRPNPGKGGAGYVVWGG-RNFSFRLG-GQSNNRAELQAIIEALKA------------------------- 54 (132)
T ss_dssp SEEEEE-EEEECTTTTEEEEEEEEETT-EEEEEEEE-SECHHHHHHHHHHHHHHT-------------------------
T ss_pred cEEEEE-eCCccCCCCceEEEEEEECC-eEEEeccc-ccchhhhheehHHHHHHH-------------------------
Confidence 345666 555 334444667665444 45556676 899999999999999992
Q ss_pred HHHHHHHhHhHHHHHHhhhhcCCceEEEEeccHHHHHHHhc-----cCC---Cc-hHHHHHHHHHhcCCCcEEEEEeccc
Q psy14646 116 LQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISN-----LYH---PN-PLVKKIQEEYSNSQANIKFLWCPSH 186 (366)
Q Consensus 116 ~~~~~~~~~~~l~al~~~~~~~~~~i~I~sDS~sal~ai~~-----~~~---~~-~i~~~I~~~l~~~~~~V~~~WVPgH 186 (366)
+ ....++|+|||++++..+.. ... .. ++..+|.+++. .+..|.|.|||||
T Consensus 55 -----------------~---~~~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~~-~~~~v~~~~V~~H 113 (132)
T PF00075_consen 55 -----------------L---EHRKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELLS-RGIKVRFRWVPGH 113 (132)
T ss_dssp -----------------H---STSEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHHH-HSSEEEEEESSSS
T ss_pred -----------------h---hcccccccccHHHHHHHHHHhccccccccccccccchhheeeccc-cceEEeeeeccCc
Confidence 2 13899999999999998887 221 12 57778888774 4789999999999
Q ss_pred ccc-ccchhhHHHHHHHh
Q psy14646 187 VSI-SGNERAEECYSNYL 203 (366)
Q Consensus 187 ~Gi-~GNE~AD~lAk~A~ 203 (366)
+|+ .|||.||+|||+|+
T Consensus 114 ~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 114 SGVPQGNERADRLAKEAA 131 (132)
T ss_dssp SSSHHHHHHHHHHHHHHH
T ss_pred CCCchhHHHHHHHHHHhc
Confidence 999 69999999999987
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This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D .... |
| >PRK08719 ribonuclease H; Reviewed | Back alignment and domain information |
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| >PRK00203 rnhA ribonuclease H; Reviewed | 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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| >PRK06548 ribonuclease H; Provisional | 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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| >KOG3752|consensus | Back alignment and domain information |
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| >PRK13907 rnhA ribonuclease H; Provisional | Back alignment and domain information |
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| >PRK07708 hypothetical protein; Validated | Back alignment and domain information |
|---|
| >PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B | Back alignment and domain information |
|---|
| >PRK07238 bifunctional RNase H/acid phosphatase; Provisional | Back alignment and domain information |
|---|
| >PF13966 zf-RVT: zinc-binding in reverse transcriptase | 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
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 366 | |||
| 1vt4_I | 1221 | APAF-1 related killer DARK; drosophila apoptosome, | 1e-06 | |
| 2kq2_A | 147 | Ribonuclease H-related protein; PSI, NESG, protein | 6e-04 |
| >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 = 49.9 bits (118), Expect = 1e-06
Identities = 58/349 (16%), Positives = 91/349 (26%), Gaps = 111/349 (31%)
Query: 117 QQIAYVDINSLQSLNHVKELDTRKIL-----IISDS-----LSSFQAISNLY-------- 158
Q Y DI S+ V D + + I+S + S A+S
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 159 HPNPLVKKIQEEYSNSQANIKFLWCPSHVSISGNERAEECYSNYLASVETAIRSDPRFFW 218
+V+K EE + N KFL P Y + +D + F
Sbjct: 74 KQEEMVQKFVEEVL--RINYKFLMSPIKTEQRQPSMMTRMYIEQR----DRLYNDNQVFA 127
Query: 219 KYERSMRKDQ--SLPKNLH----------YG--------------SDEAT------SVKW 246
KY S R L + L G + W
Sbjct: 128 KYNVS-RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 247 NTVWTSINPNE--NKLRRIKNSITPWKTSSQKARLDEVCLMRLRIGHTKITHSHLFKREE 304
+ +P L+++ I P + +R D ++LRI + L K +
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDP----NWTSRSDHSSNIKLRIHSIQAELRRLLKSKP 242
Query: 305 RPEC-----DTCHEPVTVEHLLLHCNKL---R------------------------FRPP 332
C + + L C L R P
Sbjct: 243 YENCLLVLLNVQN-AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 333 ---SFLGNSLSNILSD--------NPDSISTLMRFLK----RNNFLKHM 366
S L L D NP +S + ++ + KH+
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
|
| >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 Length = 147 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 366 | |||
| 2qkb_A | 154 | Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy | 99.8 | |
| 3h08_A | 146 | RNH (ribonuclease H); RNAse H, 3D-structure, endon | 99.77 | |
| 2kq2_A | 147 | Ribonuclease H-related protein; PSI, NESG, protein | 99.76 | |
| 1jl1_A | 155 | Ribonuclease HI; RNAse HI, protein stability, ther | 99.75 | |
| 3qio_A | 150 | GAG-POL polyprotein; RNAse H, inhibitor, nuclease, | 99.75 | |
| 2e4l_A | 158 | Ribonuclease HI, RNAse HI; hydrolase, endoribonucl | 99.75 | |
| 3p1g_A | 165 | Xenotropic murine leukemia virus-related virus (X | 99.72 | |
| 1ril_A | 166 | Ribonuclease H; hydrolase(endoribonuclease); 2.80A | 99.69 | |
| 2lsn_A | 165 | Reverse transcriptase; RNAse H, viral protein; NMR | 99.64 | |
| 1mu2_A | 555 | HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym | 99.57 | |
| 2zd1_A | 557 | Reverse transcriptase/ribonuclease H; P51/P66, het | 99.57 | |
| 2ehg_A | 149 | Ribonuclease HI; RNAse HI, hyperthermophilic archa | 99.55 | |
| 3u3g_D | 140 | Ribonuclease H, RNAse H1; hydrolase, cleave the RN | 99.55 | |
| 3hst_B | 141 | Protein RV2228C/MT2287; ribonuclease H1, RV2228C N | 99.55 | |
| 1zbf_A | 142 | Ribonuclease H-related protein; RNAse H, RNA/DNA h | 98.57 | |
| 4htu_A | 134 | Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, | 97.67 |
| >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=99.80 E-value=2e-19 Score=156.89 Aligned_cols=124 Identities=14% Similarity=0.155 Sum_probs=92.2
Q ss_pred cceeeCCCccC-CCC----ceeEEEEEecCCe-eEEEEcCCCCChhHHHHHHHHHHhhcccccccCCCchhhhhccchhh
Q psy14646 38 FPICSSSPIDL-DET----GVGCALTIPQLNE-TKRFALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNKHEL 111 (366)
Q Consensus 38 ~~~~~~~~~~~-~~~----~~g~a~~~~~~~~-~~~~~l~~~~~~~~ae~~ai~~~l~~~~~~~~~~~~~~~~~~~~~~~ 111 (366)
...+|+ |++- .++ ..|+|+++..... .....++..+|++.||+.|+..||++
T Consensus 7 ~~~iyt-DGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~--------------------- 64 (154)
T 2qkb_A 7 FVVVYT-DGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQ--------------------- 64 (154)
T ss_dssp EEEEEE-EEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHH---------------------
T ss_pred eEEEEE-ccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHH---------------------
Confidence 345666 4443 333 2688888765332 34556766789999999999999993
Q ss_pred hHHHHHHHHHHhHhHHHHHHhhhhcCCceEEEEeccHHHHHHHhccC---------C-------CchHHHHHHHHHhcCC
Q psy14646 112 KDKLLQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLY---------H-------PNPLVKKIQEEYSNSQ 175 (366)
Q Consensus 112 ~~~~~~~~~~~~~~~l~al~~~~~~~~~~i~I~sDS~sal~ai~~~~---------~-------~~~i~~~I~~~l~~~~ 175 (366)
+.+.+..+|.|+|||++++++|..+. . ..+++++|.+++. +
T Consensus 65 ---------------------~~~~~~~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~--~ 121 (154)
T 2qkb_A 65 ---------------------AKTQNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ--G 121 (154)
T ss_dssp ---------------------HHHTTCCEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT--T
T ss_pred ---------------------HHhCCCceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc--C
Confidence 33345789999999999999998741 1 1145666666655 3
Q ss_pred CcEEEEEeccccccccchhhHHHHHHHhccc
Q psy14646 176 ANIKFLWCPSHVSISGNERAEECYSNYLASV 206 (366)
Q Consensus 176 ~~V~~~WVPgH~Gi~GNE~AD~lAk~A~~~~ 206 (366)
..|.|.|||||+|++|||.||+|||+|+..+
T Consensus 122 ~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~~ 152 (154)
T 2qkb_A 122 MDIQWMHVPGHSGFIGNEEADRLAREGAKQS 152 (154)
T ss_dssp CEEEEEECCTTSSCHHHHHHHHHHHHHHTCC
T ss_pred CceEEEEccCCCCCHhHHHHHHHHHHHHHhc
Confidence 5799999999999999999999999999864
|
| >3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A | 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 |
|---|
| >1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A | Back alignment and structure |
|---|
| >2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} | 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 |
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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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| >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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| >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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| >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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| >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
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 | 366 | |||
| d1mu2a1 | 126 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.82 | |
| d1jl1a_ | 152 | RNase H (RNase HI) {Escherichia coli [TaxId: 562]} | 99.72 | |
| d1rila_ | 147 | RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 | 99.71 | |
| d1s1ta1 | 110 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.46 | |
| d1zbfa1 | 132 | BH0863-like Ribonuclease H {Bacillus halodurans [T | 98.86 |
| >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=99.82 E-value=5.1e-20 Score=153.63 Aligned_cols=117 Identities=20% Similarity=0.204 Sum_probs=85.8
Q ss_pred CcceeeCCCcc-CCCCceeEEEEEecCCeeEEEEcCCCCChhHHHHHHHHHHhhcccccccCCCchhhhhccchhhhHHH
Q psy14646 37 EFPICSSSPID-LDETGVGCALTIPQLNETKRFALNKHSSIFHAELFSIPLHLSLTNCTIDRDSSIDIFFNNKHELKDKL 115 (366)
Q Consensus 37 ~~~~~~~~~~~-~~~~~~g~a~~~~~~~~~~~~~l~~~~~~~~ae~~ai~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 115 (366)
+...+|+ |++ ..+++.|.+.+....+......++ ..|++.||+.||.+||+.
T Consensus 6 ~~~t~YT-DGS~~~n~~~~~~g~~~~~~~~~~~~~~-~~tnn~AEl~Ai~~al~~------------------------- 58 (126)
T d1mu2a1 6 GAETFYT-DGSCNRQSKEGKAGYVTDRGKDKVKKLE-QTTNQQAELEAFAMALTD------------------------- 58 (126)
T ss_dssp TCEEEEE-EEEECTTTCCEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHT-------------------------
T ss_pred CCcEEEE-cCCCCCCCCcEEEEEEecCCCEEEEecC-CCcchHHHHHHHHHHhcc-------------------------
Confidence 3456777 554 555555544444445555555665 679999999999999882
Q ss_pred HHHHHHHhHhHHHHHHhhhhcCCceEEEEeccHHHHHHHhccCCCc--hH-HHHHHHHHhcCCCcEEEEEeccccccccc
Q psy14646 116 LQQIAYVDINSLQSLNHVKELDTRKILIISDSLSSFQAISNLYHPN--PL-VKKIQEEYSNSQANIKFLWCPSHVSISGN 192 (366)
Q Consensus 116 ~~~~~~~~~~~l~al~~~~~~~~~~i~I~sDS~sal~ai~~~~~~~--~i-~~~I~~~l~~~~~~V~~~WVPgH~Gi~GN 192 (366)
....+.|+|||+++++.+.++...+ .. ...++.+.+ ...|.|.|||||+|++||
T Consensus 59 ---------------------~~~~i~I~tDS~~v~~~~~~~~~~~~~~~~~~~~~~~~~--~~~v~~~wV~gH~g~~gN 115 (126)
T d1mu2a1 59 ---------------------SGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIK--KEAIYVAWVPAHKGIGGN 115 (126)
T ss_dssp ---------------------SCSEEEEEESCHHHHHHHHTCCSEESCHHHHHHHHHHHH--CSEEEEEECCSSSCCTTH
T ss_pred ---------------------CCcceEEEechHHHHHHHhcCCccccchHHHHHHHHhhh--cceeEEEEEeCCCCCcch
Confidence 3568999999999999999965432 33 333444433 358999999999999999
Q ss_pred hhhHHHHHHHh
Q psy14646 193 ERAEECYSNYL 203 (366)
Q Consensus 193 E~AD~lAk~A~ 203 (366)
|.||+||++|+
T Consensus 116 e~AD~LA~~ai 126 (126)
T d1mu2a1 116 QEVDHLVSQGI 126 (126)
T ss_dssp HHHHHHHHTTC
T ss_pred HHHHHHHHhhC
Confidence 99999999874
|
| >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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| >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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