Psyllid ID: psy11598
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 | 457 | ||||||
| 427791321 | 1210 | Putative tick transposon, partial [Rhipi | 0.700 | 0.264 | 0.238 | 3e-15 | |
| 427791807 | 1212 | Putative tick transposon, partial [Rhipi | 0.700 | 0.264 | 0.238 | 3e-15 | |
| 125901787 | 1222 | pol-like protein [Biomphalaria glabrata] | 0.474 | 0.177 | 0.301 | 7e-15 | |
| 427791981 | 1060 | Putative tick transposon, partial [Rhipi | 0.470 | 0.202 | 0.283 | 2e-12 | |
| 328720146 | 164 | PREDICTED: hypothetical protein LOC10056 | 0.201 | 0.560 | 0.393 | 2e-11 | |
| 427798887 | 1199 | Putative tick transposon, partial [Rhipi | 0.698 | 0.266 | 0.240 | 3e-11 | |
| 427798885 | 1199 | Putative tick transposon, partial [Rhipi | 0.733 | 0.279 | 0.236 | 6e-11 | |
| 443730613 | 233 | hypothetical protein CAPTEDRAFT_206814 [ | 0.350 | 0.686 | 0.302 | 6e-11 | |
| 443710566 | 377 | hypothetical protein CAPTEDRAFT_186063 [ | 0.494 | 0.599 | 0.249 | 7e-11 | |
| 51950578 | 1219 | putative ORF2 [Drosophila melanogaster] | 0.654 | 0.245 | 0.244 | 3e-10 |
| >gi|427791321|gb|JAA61112.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 100/419 (23%), Positives = 161/419 (38%), Gaps = 99/419 (23%)
Query: 81 KLNVVHHTALRIVTGAFRTSPIVSLLAECGQPTLQVRRNIRCVNYMSNVARNPNHPCYLL 140
+L+ VH+ LR+ +GA+RTSP+ SL +C +P L RR ++Y+ + +P H CY
Sbjct: 789 RLDPVHNLGLRLSSGAYRTSPVESLYVDCNEPPLSHRRASLTLSYVLRIRSSPQHICY-- 846
Query: 141 LFNDKLRINIRSEKYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPRYPLNIRLR 200
+I R + Y L +IK LL Y +
Sbjct: 847 -----------------DIATRCSSRLHY-LNKSNLIKP------LLLRFEEYCRTYVIS 882
Query: 201 AEAMDDYKLEVRCVIKQQKEEPQWL-LHQPKVTMLISGKKDEELPSEINNKYLEFKNENK 259
E +D V ++ P W L Q L K P I ++ + + +
Sbjct: 883 EETLD--------VARKPPRIPPWFDLAQLCDISLSHINKKVTPPELIIQEFRALQEKYR 934
Query: 260 NKILCYTDGSKNDNFTGGAYILNETIEQFQLNQIASIYTAELMA---------------- 303
+ YTDGSK + G + E+ ++ Q SI+TAE+ A
Sbjct: 935 DYAEFYTDGSKTRDHVGIGIVTGESAFSVRVPQCISIFTAEVYALYEAARKIIAGKHKKA 994
Query: 304 ----------------------IDLCLNAILT---YVQNNFCF------------KDFVI 326
+ LN +L + FC+ D
Sbjct: 995 IIYTDSLSALKALHIKSECEPLVGDILNMVLINSKVISMRFCWVPSHVGIPGNEKADKCA 1054
Query: 327 CSDSKSSLQALKFNLNDS--------FKRWEEIWTQNAVLGRQLRQIKTDVRKWKSSNRN 378
+ +L ++ L DS +W++ W ++ +L +K + +WK+
Sbjct: 1055 SLAAHKTLTKIRIPLKDSQRTIRLALLAKWQQQW--DSCTSNKLHLVKPTLGEWKNCRHQ 1112
Query: 379 IRQEEVVLCRLRIGHCLATHKHLLERKDPPACEFCRQTPVYLNHWLTECHALANLRRQH 437
R EV+LCRLRIGH TH LL +++ P CE C Q P+ L H L C + R+++
Sbjct: 1113 ERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKC-QEPLTLIHILILCPNIETQRQKY 1170
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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|125901787|gb|ABN58714.1| pol-like protein [Biomphalaria glabrata] | 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|328720146|ref|XP_003246964.1| PREDICTED: hypothetical protein LOC100568990, partial [Acyrthosiphon pisum] | 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|427798885|gb|JAA64894.1| Putative tick transposon, partial [Rhipicephalus pulchellus] | Back alignment and taxonomy information |
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| >gi|443730613|gb|ELU16038.1| hypothetical protein CAPTEDRAFT_206814 [Capitella teleta] | 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|51950578|gb|AAA70222.2| putative ORF2 [Drosophila melanogaster] | 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 | 457 | |||
| cd09276 | 128 | cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom | 1e-15 | |
| pfam00075 | 126 | pfam00075, RNase_H, RNase H | 5e-04 | |
| cd06222 | 123 | cd06222, RNase_H, RNase H is an endonuclease that | 0.001 | |
| cd09273 | 135 | cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase | 0.001 |
| >gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases | Back alignment and domain information |
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Score = 72.7 bits (179), Expect = 1e-15
Identities = 28/105 (26%), Positives = 47/105 (44%), Gaps = 8/105 (7%)
Query: 264 CYTDGSKNDNFTGGA---YILNETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFC 320
YTDGSK + TG ++L S++ AEL+AI L L +
Sbjct: 2 IYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGRRA-- 59
Query: 321 FKDFVICSDSKSSLQALK--FNLNDSFKRWEEIWTQNAVLGRQLR 363
+ I SDS+++L+AL+ + + R + + A G ++R
Sbjct: 60 -RKITIFSDSQAALKALRSPRSSSPLVLRIRKAIRELANHGVKVR 103
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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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Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 457 | |||
| PF00075 | 132 | RNase_H: RNase H; InterPro: IPR002156 The RNase H | 99.47 | |
| PRK08719 | 147 | ribonuclease H; Reviewed | 99.43 | |
| PRK06548 | 161 | ribonuclease H; Provisional | 99.43 | |
| PRK00203 | 150 | rnhA ribonuclease H; Reviewed | 99.42 | |
| COG0328 | 154 | RnhA Ribonuclease HI [DNA replication, recombinati | 99.23 | |
| cd06222 | 130 | RnaseH RNase H (RNase HI) is an endonuclease that | 99.14 | |
| KOG3752|consensus | 371 | 98.97 | ||
| PRK13907 | 128 | rnhA ribonuclease H; Provisional | 98.86 | |
| PRK07708 | 219 | hypothetical protein; Validated | 98.28 | |
| PRK07238 | 372 | bifunctional RNase H/acid phosphatase; Provisional | 98.28 | |
| PF13456 | 87 | RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH | 97.29 | |
| PF13966 | 86 | zf-RVT: zinc-binding in reverse transcriptase | 96.36 | |
| PF05380 | 159 | Peptidase_A17: Pao retrotransposon peptidase ; Int | 85.16 |
| >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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Probab=99.47 E-value=1.2e-13 Score=121.16 Aligned_cols=94 Identities=29% Similarity=0.329 Sum_probs=69.2
Q ss_pred CceEEEecCCCCC--CceeeEEEe-CCcchhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHH
Q psy11598 260 NKILCYTDGSKND--NFTGGAYIL-NETIEQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQA 336 (457)
Q Consensus 260 ~~i~IyTDGSk~~--~~vG~a~v~-~~~~~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~a 336 (457)
..+.||||||... +..|+|++. .+....+.++ ..+++.||+.||.+||+.+ .. ..+.|+|||++++..
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~~-------~~v~I~tDS~~v~~~ 72 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL-EH-------RKVTIYTDSQYVLNA 72 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH-ST-------SEEEEEES-HHHHHH
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh-hc-------ccccccccHHHHHHH
Confidence 5789999999653 335666655 3333334555 8999999999999999954 32 779999999999998
Q ss_pred hhc-----cCCCC--c--------------cceEEEeeccc--c-cchhh
Q psy11598 337 LKF-----NLNDS--F--------------KRWEEIWTQNA--V-LGRQL 362 (457)
Q Consensus 337 i~~-----~~~~s--~--------------q~i~l~WvPgH--I-~GNE~ 362 (457)
+.. ..... + ..|.|.||||| + .|||.
T Consensus 73 l~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~ 122 (132)
T PF00075_consen 73 LNKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNER 122 (132)
T ss_dssp HHTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHH
T ss_pred HHHhccccccccccccccchhheeeccccceEEeeeeccCcCCCchhHHH
Confidence 877 22111 1 17999999999 8 69997
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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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| >PRK06548 ribonuclease H; Provisional | 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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| >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 |
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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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| >PF13966 zf-RVT: zinc-binding in reverse transcriptase | 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 |
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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
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 457 | |||
| 1vt4_I | 1221 | APAF-1 related killer DARK; drosophila apoptosome, | 2e-13 |
| >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 |
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Score = 71.4 bits (174), Expect = 2e-13
Identities = 71/475 (14%), Positives = 141/475 (29%), Gaps = 138/475 (29%)
Query: 41 SLLAECGQPTLQVRRNIRCVNYMSNVARNPNHPCYLQELDKLNVV---HHTALRIVTGAF 97
+ E QP++ R I + + N Q K NV + LR
Sbjct: 97 PIKTEQRQPSMMTRMYIEQRDRLYNDN---------QVFAKYNVSRLQPYLKLRQALLEL 147
Query: 98 RTSPIVSL--LAECGQPTL--QVRRNIRCVNYMSN-----VARNPNHPCYLLLFNDKLRI 148
R + V + + G+ + V + + M +N N P +L KL
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207
Query: 149 NIRSEKYPLNIRLRAEAMDDYKLEVRCVIKQQKEEPQWLLHQPRYP--LNIRLR------ 200
I N R++ + KL I + E + LL Y L + L
Sbjct: 208 QIDP-----NWTSRSDHSSNIKLR----IHSIQAELRRLLKSKPYENCLLV-LLNVQNAK 257
Query: 201 -AEAMDDYKLEVRC---VIKQQK----------------EEPQWLLHQPKVTMLIS---G 237
A + + C + + K + L +V L+
Sbjct: 258 AWNAFN-----LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 238 KKDEELPSE---INNKYL----EFKNENKNKILCYTDGSKNDNFTGGAYILNETIEQFQL 290
+ ++LP E N + L E + DN+ +
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIAESIRDGLATW---------DNW-----------KHVNC 352
Query: 291 NQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVIC-SDSKSSLQALKFNLNDSFKRWE 349
+++ +I I+ LN + F + + L + W
Sbjct: 353 DKLTTI-------IESSLNVLEPAEYRK-MFDRLSVFPPSAHIPTILLSL-I------WF 397
Query: 350 EIWTQNA-VLGRQLRQIKTDVRKWKSSNR----NIRQEEVVLCRLRIGHCLATHKHLLER 404
++ + V+ +L + + V K + +I E ++++ + A H+ +++
Sbjct: 398 DVIKSDVMVVVNKLHK-YSLVEKQPKESTISIPSIYLEL----KVKLENEYALHRSIVDH 452
Query: 405 KDPPACEFCRQTPV----------YLNHWLTECHALANLRRQHQIGNSMKFILQD 449
+ P F + ++ H H L N+ + + + D
Sbjct: 453 YNIPKT-FDSDDLIPPYLDQYFYSHIGH-----H-LKNI-EHPERMTLFRMVFLD 499
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Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 457 | |||
| 2qkb_A | 154 | Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy | 99.51 | |
| 3h08_A | 146 | RNH (ribonuclease H); RNAse H, 3D-structure, endon | 99.43 | |
| 2kq2_A | 147 | Ribonuclease H-related protein; PSI, NESG, protein | 99.4 | |
| 1jl1_A | 155 | Ribonuclease HI; RNAse HI, protein stability, ther | 99.39 | |
| 2e4l_A | 158 | Ribonuclease HI, RNAse HI; hydrolase, endoribonucl | 99.38 | |
| 1ril_A | 166 | Ribonuclease H; hydrolase(endoribonuclease); 2.80A | 99.36 | |
| 3qio_A | 150 | GAG-POL polyprotein; RNAse H, inhibitor, nuclease, | 99.36 | |
| 3p1g_A | 165 | Xenotropic murine leukemia virus-related virus (X | 99.33 | |
| 3hst_B | 141 | Protein RV2228C/MT2287; ribonuclease H1, RV2228C N | 99.19 | |
| 3u3g_D | 140 | Ribonuclease H, RNAse H1; hydrolase, cleave the RN | 99.18 | |
| 2ehg_A | 149 | Ribonuclease HI; RNAse HI, hyperthermophilic archa | 99.15 | |
| 2zd1_A | 557 | Reverse transcriptase/ribonuclease H; P51/P66, het | 99.15 | |
| 2lsn_A | 165 | Reverse transcriptase; RNAse H, viral protein; NMR | 99.12 | |
| 1mu2_A | 555 | HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym | 99.11 | |
| 1zbf_A | 142 | Ribonuclease H-related protein; RNAse H, RNA/DNA h | 98.28 | |
| 4htu_A | 134 | Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, | 98.27 | |
| 1rw3_A | 455 | POL polyprotein; RNA and DNA dependent DNA polymer | 85.51 |
| >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=99.51 E-value=2.7e-14 Score=128.40 Aligned_cols=99 Identities=15% Similarity=0.124 Sum_probs=76.7
Q ss_pred CCceEEEecCCCCCCc-----eeeEEEeCCcc---hhhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEecc
Q psy11598 259 KNKILCYTDGSKNDNF-----TGGAYILNETI---EQFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDS 330 (457)
Q Consensus 259 ~~~i~IyTDGSk~~~~-----vG~a~v~~~~~---~~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS 330 (457)
.+.+.||||||...++ .|+|+|..+.. ....++..++++.||+.|+..||+.+.+. .. .++.|+|||
T Consensus 5 ~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~--~~---~~v~i~tDS 79 (154)
T 2qkb_A 5 GDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQ--NI---NKLVLYTNS 79 (154)
T ss_dssp TTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHT--TC---CEEEEEESC
T ss_pred CCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhC--CC---ceEEEEECc
Confidence 4678999999987543 68888874321 23345557899999999999999999764 33 789999999
Q ss_pred HHHHHHhhccC---------CCCc------------------cceEEEeeccc--ccchhh
Q psy11598 331 KSSLQALKFNL---------NDSF------------------KRWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 331 ~sal~ai~~~~---------~~s~------------------q~i~l~WvPgH--I~GNE~ 362 (457)
+.+++.|.+.. ..++ ..|.|.||||| ++|||.
T Consensus 80 ~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v~~~~V~~H~g~~~N~~ 140 (154)
T 2qkb_A 80 MFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWMHVPGHSGFIGNEE 140 (154)
T ss_dssp HHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHHHHH
T ss_pred HHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCceEEEEccCCCCCHhHHH
Confidence 99999998731 1111 17999999999 999997
|
| >3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} | Back alignment and structure |
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| >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 |
|---|
| >2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_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 |
|---|
| >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 |
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| >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 |
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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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| >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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| >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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| >2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} | 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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| >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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| >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 |
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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 | 457 | |||
| d1mu2a1 | 126 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.57 | |
| d1s1ta1 | 110 | HIV RNase H (Domain of reverse transcriptase) {Hum | 99.45 | |
| d1rila_ | 147 | RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 | 99.43 | |
| d1jl1a_ | 152 | RNase H (RNase HI) {Escherichia coli [TaxId: 562]} | 99.38 | |
| d1zbfa1 | 132 | BH0863-like Ribonuclease H {Bacillus halodurans [T | 98.66 |
| >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=99.57 E-value=1.9e-15 Score=129.47 Aligned_cols=93 Identities=22% Similarity=0.220 Sum_probs=70.3
Q ss_pred CceEEEecCCCCCC-c-eeeEEEeCCcch-hhccCcccchhHHHHHHHHHHHHHHHHhhhccCCcceEEEEeccHHHHHH
Q psy11598 260 NKILCYTDGSKNDN-F-TGGAYILNETIE-QFQLNQIASIYTAELMAIDLCLNAILTYVQNNFCFKDFVICSDSKSSLQA 336 (457)
Q Consensus 260 ~~i~IyTDGSk~~~-~-vG~a~v~~~~~~-~~~L~~~~svy~AEl~AI~~AL~~~~~~~~~~~~~~~i~I~sDS~sal~a 336 (457)
+...||||||+..+ + .|+|++...... ...+ ...|++.||+.||.+||+. .. .++.|+|||+.++..
T Consensus 6 ~~~t~YTDGS~~~n~~~~~~g~~~~~~~~~~~~~-~~~tnn~AEl~Ai~~al~~------~~---~~i~I~tDS~~v~~~ 75 (126)
T d1mu2a1 6 GAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKL-EQTTNQQAELEAFAMALTD------SG---PKVNIIVDSQYVMGI 75 (126)
T ss_dssp TCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-SSCCHHHHHHHHHHHHHHT------SC---SEEEEEESCHHHHHH
T ss_pred CCcEEEEcCCCCCCCCcEEEEEEecCCCEEEEec-CCCcchHHHHHHHHHHhcc------CC---cceEEEechHHHHHH
Confidence 45689999997654 4 455555543322 2233 4679999999999999874 23 679999999999999
Q ss_pred hhccCCCCcc--------------ceEEEeeccc--ccchhh
Q psy11598 337 LKFNLNDSFK--------------RWEEIWTQNA--VLGRQL 362 (457)
Q Consensus 337 i~~~~~~s~q--------------~i~l~WvPgH--I~GNE~ 362 (457)
+.+....+.. .|.|.||||| ++|||.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~wV~gH~g~~gNe~ 117 (126)
T d1mu2a1 76 VASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQE 117 (126)
T ss_dssp HHTCCSEESCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHH
T ss_pred HhcCCccccchHHHHHHHHhhhcceeEEEEEeCCCCCcchHH
Confidence 9886544321 8999999999 999997
|
| >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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| >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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| >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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