Citrus Sinensis ID: 044837

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-----
KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALANSESRGVD
cccEEEEEEEEEcccccEEEEEcccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEcHHHHHHHHHcccccccHHHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHHHcccccccc
cEEEEcEEEEEEcccccEEEEEcccccccccHHHHHHHHHHHHHHHHHHHccccEEEEccHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccEEEEEEcHHHHHHHHHHHHHHHHcccccccc
KAVFAGLGciirncegavmvtatskkpclgdveITEVLAILGGLMLAaevtlsplviesdsnSVTKFILKGISCRGELDLIICEIRVLidqdnqyrVVYTSRSCKLVTHDLAKMALansesrgvd
kavfaglgciirncegavMVTAtskkpclgdVEITEVLAILGGLMLAAEVTLSPlviesdsnsVTKFILKGISCRGELDLIICEIRVlidqdnqyrVVYTSrscklvthdlakmalansesrgvd
KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALANSESRGVD
**VFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKM***********
*AVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMAL*********
KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALA********
KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALA********
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALANSESRGVD
no confident homologs detected

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 ?
Query125
38344244 541 OJ991113_30.21 [Oryza sativa Japonica Gr 0.936 0.216 0.307 5e-07
22711564 1888 Putative retroelement [Oryza sativa Japo 0.864 0.057 0.324 1e-06
222635388 393 hypothetical protein OsJ_20966 [Oryza sa 0.888 0.282 0.324 1e-06
110288692 1853 retrotransposon protein, putative, uncla 0.864 0.058 0.324 1e-06
45267888 1936 hypothetical protein [Oryza sativa Japon 0.928 0.059 0.347 3e-06
125532038207 hypothetical protein OsI_33699 [Oryza sa 0.944 0.570 0.327 4e-06
218197967 349 hypothetical protein OsI_22529 [Oryza sa 0.872 0.312 0.330 5e-06
62732851 816 retrotransposon protein, putative, uncla 0.888 0.136 0.279 7e-06
222630057 653 hypothetical protein OsJ_16976 [Oryza sa 0.888 0.169 0.279 7e-06
125550682 653 hypothetical protein OsI_18290 [Oryza sa 0.888 0.169 0.279 7e-06
>gi|38344244|emb|CAD41337.2| OJ991113_30.21 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
 Score = 58.5 bits (140), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 36/117 (30%), Positives = 58/117 (49%)

Query: 5   AGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSV 64
           A  G +IR+  G+V++T+       G  E  E  A   G+ LAAE    PL++E+D  ++
Sbjct: 401 ASAGFVIRDHTGSVLLTSWRIISHCGSAEEAEATACWEGVNLAAEWVKKPLILETDCANL 460

Query: 65  TKFILKGISCRGELDLIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALANSES 121
              +      R +L  ++  I++L+     +RV    R C  V HDLAK A+  + S
Sbjct: 461 VSMLTSSGFDRAQLCHVLRSIKLLLQALPDFRVQRIRRECNRVAHDLAKFAMRTNHS 517

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|22711564|gb|AAM01179.2|AC113336_31 Putative retroelement [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|222635388|gb|EEE65520.1| hypothetical protein OsJ_20966 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|110288692|gb|ABB46931.2| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|45267888|gb|AAS55787.1| hypothetical protein [Oryza sativa Japonica Group] gi|54291856|gb|AAV32224.1| hypothetical protein [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|125532038|gb|EAY78603.1| hypothetical protein OsI_33699 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|218197967|gb|EEC80394.1| hypothetical protein OsI_22529 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|62732851|gb|AAX94970.1| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group] gi|77550533|gb|ABA93330.1| retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|222630057|gb|EEE62189.1| hypothetical protein OsJ_16976 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|125550682|gb|EAY96391.1| hypothetical protein OsI_18290 [Oryza sativa Indica Group] Back     alignment and taxonomy information

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 Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query125
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 4e-17
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 2e-08
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information 
 Score = 70.3 bits (173), Expect = 4e-17
 Identities = 30/87 (34%), Positives = 44/87 (50%)

Query: 32  VEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLIICEIRVLIDQ 91
               E  A+L GL LA E+ +  L++ESDS  V + I      R  L  ++ EIR L+ +
Sbjct: 2   PLEAEAEALLEGLQLALELGIRRLIVESDSQLVVQQIQGEYEARSRLAALLREIRKLLKK 61

Query: 92  DNQYRVVYTSRSCKLVTHDLAKMALAN 118
            +   V +  R C  V   LAK+A A+
Sbjct: 62  FDSVSVSHVPRECNRVADALAKLASAS 88

This domain is found in plants and appears to be part of a retrotransposon. Length = 88
>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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 125
PRK13907128 rnhA ribonuclease H; Provisional 99.96
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 99.95
PRK07708219 hypothetical protein; Validated 99.92
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 99.92
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 99.88
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 99.88
PRK08719147 ribonuclease H; Reviewed 99.77
PRK00203150 rnhA ribonuclease H; Reviewed 99.72
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 99.69
PRK06548161 ribonuclease H; Provisional 99.68
KOG3752371 consensus Ribonuclease H [Replication, recombinati 99.12
KOG1812 384 consensus Predicted E3 ubiquitin ligase [Posttrans 97.99
cd01284115 Riboflavin_deaminase-reductase Riboflavin-specific 92.49
cd01285109 nucleoside_deaminase Nucleoside deaminases include 92.25
COG0590152 CumB Cytosine/adenosine deaminases [Nucleotide tra 92.07
COG0295134 Cdd Cytidine deaminase [Nucleotide transport and m 90.86
TIGR01354127 cyt_deam_tetra cytidine deaminase, homotetrameric. 89.82
cd0078696 cytidine_deaminase-like Cytidine and deoxycytidyla 89.62
PRK10860172 tRNA-specific adenosine deaminase; Provisional 88.0
cd01283112 cytidine_deaminase Cytidine deaminase zinc-binding 86.83
PF00383102 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deam 86.31
.; GO: 0004523 ribonuclease H activity" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00336">PF00336245 DNA_pol_viral_C: DNA polymerase (viral) C-terminal 86.01
TIGR02571151 ComEB ComE operon protein 2. This protein is found 85.59
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information 
Probab=99.96  E-value=7.1e-29  Score=158.17  Aligned_cols=115  Identities=18%  Similarity=0.180  Sum_probs=103.1

Q ss_pred             CCcceEEEEEEeCCCCCEEEEecccCCCCCChhHHHHHHHHHHHHHHHHhCcccEEEEeCcHHHHHHHHcCCCCcchHHH
Q 044837            1 KAVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDL   80 (125)
Q Consensus         1 ~~g~~g~G~vird~~g~~i~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~~~~~~~~   80 (125)
                      .||++|+|+||||+.|.+...+  . .+..|+++||++|+++||+++.++|+++|+|+|||+.|++++++.......+..
T Consensus        13 ~~g~~G~G~vi~~~~~~~~~~~--~-~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~~~~~~~~~   89 (128)
T PRK13907         13 NPGPSGAGVFIKGVQPAVQLSL--P-LGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKEYAKNKMFAP   89 (128)
T ss_pred             CCCccEEEEEEEECCeeEEEEe--c-ccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHHHhcChhHHH
Confidence            3789999999999998776543  2 346899999999999999999999999999999999999999987655567899


Q ss_pred             HHHHHHHHhhCCCceEEEEecCCcchHHHHHHhhhhcC
Q 044837           81 IICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALAN  118 (125)
Q Consensus        81 ~i~~i~~l~~~~~~~~~~~v~R~~N~~Ad~LAk~a~~~  118 (125)
                      ++++++.+++.|+.+.+.||||++|+.||.||+.|+..
T Consensus        90 l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~~  127 (128)
T PRK13907         90 LLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAILQ  127 (128)
T ss_pred             HHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHhc
Confidence            99999999999999999999999999999999999753

>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B Back     alignment and domain information
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional 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
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK08719 ribonuclease H; Reviewed Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed 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
>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair] Back     alignment and domain information
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase Back     alignment and domain information
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases Back     alignment and domain information
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric Back     alignment and domain information
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region Back     alignment and domain information
>PRK10860 tRNA-specific adenosine deaminase; Provisional Back     alignment and domain information
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain Back     alignment and domain information
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3 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
>TIGR02571 ComEB ComE operon protein 2 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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query125
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 99.95
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 99.95
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 99.94
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 99.89
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 99.85
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 99.85
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 99.83
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 99.83
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 99.82
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 99.78
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 99.78
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 99.77
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 99.62
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 99.6
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 99.58
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 99.5
1uwz_A136 Cytidine deaminase; CDD, tetramer, zinc binding, p 93.8
2fr5_A146 Cytidine deaminase; tetrahydrouridine, protein-inh 91.89
2z3g_A130 Blasticidin-S deaminase; hydrolase, cytidine deami 90.87
1r5t_A142 Cytidine deaminase; zinc dependent deaminase, RNA 86.05
2d30_A141 Cytidine deaminase; purines, pyrimidines, nucleosi 85.13
2a8n_A144 Cytidine and deoxycytidylate deaminase; RNA editin 83.58
2b3j_A159 TRNA adenosine deaminase; mixed alpha-beta, protei 83.52
1wwr_A171 TRNA adenosine deaminase TADA; homodimer, riken st 83.43
3b8f_A142 Putative blasticidin S deaminase; cytidine deamina 81.77
2nx8_A179 TRNA-specific adenosine deaminase; TAD, hydrolase; 81.48
2w4l_A178 DCMP deaminse, deoxycytidylate deaminase; pyrimidi 81.38
>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
Probab=99.95  E-value=7.1e-28  Score=154.45  Aligned_cols=118  Identities=15%  Similarity=0.167  Sum_probs=104.2

Q ss_pred             CcceEEEEEEeCCC-CCEEEEecccCCCCCChhHHHHHHHHHHHHHHHHhCcccEEEEeCcHHHHHHHHcCCC-CcchHH
Q 044837            2 AVFAGLGCIIRNCE-GAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGIS-CRGELD   79 (125)
Q Consensus         2 ~g~~g~G~vird~~-g~~i~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~-~~~~~~   79 (125)
                      ||++|+|+|++++. |.++...+..++ ..|++.||+.|++.||+++.++|.++|+|+|||+.|++++++... ....+.
T Consensus        16 ~g~~g~G~v~~~~~~~~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~a~~~~~~~v~i~tDS~~vv~~i~~~~~~~~~~l~   94 (141)
T 3hst_B           16 PGPAGYGAVVWTADHSTVLAESKQAIG-RATNNVAEYRGLIAGLDDAVKLGATEAAVLMDSKLVVEQMSGRWKVKHPDLL   94 (141)
T ss_dssp             SEEEEEEEEEEETTSCSEEEEEEEEEE-EECHHHHHHHHHHHHHHHHHHHTCSEEEEEESCHHHHHHHTTSSCCCSHHHH
T ss_pred             CCCcEEEEEEEeCCCCcEEEeeeccCC-CCchHHHHHHHHHHHHHHHHHCCCceEEEEeChHHHHHHHhCCcccCCHHHH
Confidence            78899999999987 677766665554 689999999999999999999999999999999999999998643 344577


Q ss_pred             HHHHHHHHHhhCCCceEEEEecCCcchHHHHHHhhhhcCCC
Q 044837           80 LIICEIRVLIDQDNQYRVVYTSRSCKLVTHDLAKMALANSE  120 (125)
Q Consensus        80 ~~i~~i~~l~~~~~~~~~~~v~R~~N~~Ad~LAk~a~~~~~  120 (125)
                      .++.+|+.+++.|..++|.||||+.|+.||.|||.|+....
T Consensus        95 ~~~~~i~~l~~~~~~v~~~~V~~~~N~~AD~LA~~a~~~~~  135 (141)
T 3hst_B           95 KLYVQAQALASQFRRINYEWVPRARNTYADRLANDAMDAAA  135 (141)
T ss_dssp             HHHHHHHHHHTTSSEEEEEECCGGGCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCeEEEEEcCCcccHHHHHHHHHHHHHhc
Confidence            88999999999999999999999999999999999987543
>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
>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
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} 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
>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
>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
>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
>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
>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
>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
>1uwz_A Cytidine deaminase; CDD, tetramer, zinc binding, pyrimidine metabolism, salvage, hydrolase; HET: THU; 1.99A {Bacillus subtilis} SCOP: c.97.1.1 PDB: 1ux0_A* 1jtk_A* 1ux1_A* Back     alignment and structure
>2fr5_A Cytidine deaminase; tetrahydrouridine, protein-inhibitor COM alternate conformation of Arg68, hydrolase; HET: TYU; 1.48A {Mus musculus} SCOP: c.97.1.1 PDB: 1zab_A* 2fr6_A* 1mq0_A* Back     alignment and structure
>2z3g_A Blasticidin-S deaminase; hydrolase, cytidine deaminase family, zinc, tetramer; HET: TRE; 1.50A {Aspergillus terreus} SCOP: c.97.1.1 PDB: 1wn6_A* 1wn5_A* 2z3h_A* 2z3j_A 2z3i_A* Back     alignment and structure
>1r5t_A Cytidine deaminase; zinc dependent deaminase, RNA editing, apobec-1 related protein, hydrolase; 2.00A {Saccharomyces cerevisiae} SCOP: c.97.1.1 Back     alignment and structure
>2d30_A Cytidine deaminase; purines, pyrimidines, nucleosides, nucleotides, salvage of nucleosides and nucleotides, structural genomics; 2.40A {Bacillus anthracis} SCOP: c.97.1.1 Back     alignment and structure
>2a8n_A Cytidine and deoxycytidylate deaminase; RNA editing, RNA binding protein; 1.60A {Agrobacterium tumefaciens} SCOP: c.97.1.2 Back     alignment and structure
>2b3j_A TRNA adenosine deaminase; mixed alpha-beta, protein-RNA complex, RNA stem-loop, hydrol complex; HET: P5P; 2.00A {Staphylococcus aureus subsp} SCOP: c.97.1.2 Back     alignment and structure
>1wwr_A TRNA adenosine deaminase TADA; homodimer, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.80A {Aquifex aeolicus} SCOP: c.97.1.2 Back     alignment and structure
>3b8f_A Putative blasticidin S deaminase; cytidine deaminase, structural genomics, MCSG, protein structure initiative; 1.90A {Bacillus anthracis} Back     alignment and structure
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A {Streptococcus pyogenes serotype M6} Back     alignment and structure
>2w4l_A DCMP deaminse, deoxycytidylate deaminase; pyrimidine metabolism, nucleotide biosynthesis, zinc, hexamer, hydrolase, metal-binding, phosphoprotein; 2.10A {Homo sapiens} 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 ?
Query125
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 99.67
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 99.66
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 99.66
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 99.5
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 99.46
d2g84a1189 Putative deaminase NE0047 {Nitrosomonas europaea [ 88.89
d2d30a1124 mono-domain cytidine deaminase {Bacillus anthracis 83.56
d1z3aa1156 tRNA adenosine deaminase TadA {Escherichia coli [T 83.1
d1r5ta_141 mono-domain cytidine deaminase {Baker's yeast (Sac 80.02
>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
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=99.67  E-value=8.5e-16  Score=95.16  Aligned_cols=103  Identities=13%  Similarity=0.054  Sum_probs=75.4

Q ss_pred             CcceEEEEEEeCCCCCEEEEecccCCCCCChhHHHHHHHHHHHHHHHHhCcccEEEEeCcHHHHHHHHcCCCCcchHHHH
Q 044837            2 AVFAGLGCIIRNCEGAVMVTATSKKPCLGDVEITEVLAILGGLMLAAEVTLSPLVIESDSNSVTKFILKGISCRGELDLI   81 (125)
Q Consensus         2 ~g~~g~G~vird~~g~~i~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~~esDs~~vv~~l~~~~~~~~~~~~~   81 (125)
                      |+.+|+|+++.+...  ....   ++ ..|++.||+.|++.||+.    ...+|.|.|||+.+++.+++....... ..+
T Consensus        20 ~~~~~~g~~~~~~~~--~~~~---~~-~~tnn~AEl~Ai~~al~~----~~~~i~I~tDS~~v~~~~~~~~~~~~~-~~~   88 (126)
T d1mu2a1          20 SKEGKAGYVTDRGKD--KVKK---LE-QTTNQQAELEAFAMALTD----SGPKVNIIVDSQYVMGIVASQPTESES-KIV   88 (126)
T ss_dssp             TCCEEEEEEETTSCE--EEEE---ES-SCCHHHHHHHHHHHHHHT----SCSEEEEEESCHHHHHHHHTCCSEESC-HHH
T ss_pred             CCcEEEEEEecCCCE--EEEe---cC-CCcchHHHHHHHHHHhcc----CCcceEEEechHHHHHHHhcCCccccc-hHH
Confidence            577899988876433  2221   22 478999999999999874    567999999999999999986543221 223


Q ss_pred             HHHHHHHhhCCCceEEEEecC----CcchHHHHHHhhhh
Q 044837           82 ICEIRVLIDQDNQYRVVYTSR----SCKLVTHDLAKMAL  116 (125)
Q Consensus        82 i~~i~~l~~~~~~~~~~~v~R----~~N~~Ad~LAk~a~  116 (125)
                      ...+..+.. ...+.|.|||.    ..|..||.||+.|+
T Consensus        89 ~~~~~~~~~-~~~v~~~wV~gH~g~~gNe~AD~LA~~ai  126 (126)
T d1mu2a1          89 NQIIEEMIK-KEAIYVAWVPAHKGIGGNQEVDHLVSQGI  126 (126)
T ss_dssp             HHHHHHHHH-CSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             HHHHHHhhh-cceeEEEEEeCCCCCcchHHHHHHHHhhC
Confidence            334444444 56899999995    55999999999874
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure
>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
>d2g84a1 c.97.1.2 (A:1-189) Putative deaminase NE0047 {Nitrosomonas europaea [TaxId: 915]} Back     information, alignment and structure
>d2d30a1 c.97.1.1 (A:1-124) mono-domain cytidine deaminase {Bacillus anthracis [TaxId: 1392]} Back     information, alignment and structure
>d1z3aa1 c.97.1.2 (A:13-168) tRNA adenosine deaminase TadA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1r5ta_ c.97.1.1 (A:) mono-domain cytidine deaminase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure