Citrus Sinensis ID: 038317

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-------
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
ccccEEEEcccccEEEEEEEEcccccEEEEccEEEcccccHHHHHHHHHHHHHHHHHHcccEEEEEEEcHHHHHHHHHcccccccHHHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHccc
ccccccEccccccEEEEEEEEcccccEEEEEEccccccccHHHHHHHHHHHHHHHHHHcccccEEEEccHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccEEEEEEEccHHHHHHHHHHHHHHcc
INVDATVDVEKQVAGLGvvirddkdnCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
invdatvdvekqvaglgvvirddkdnCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
******VDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKI***
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICK*
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICKR
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 ?
Query127
343887321166 hypothetical protein [Citrus unshiu] 0.795 0.608 0.435 2e-16
222622434 420 hypothetical protein OsJ_05904 [Oryza sa 0.944 0.285 0.325 6e-10
218190326 556 hypothetical protein OsI_06384 [Oryza sa 0.944 0.215 0.325 5e-09
255568641199 hypothetical protein RCOM_0581330 [Ricin 0.763 0.487 0.360 6e-07
302121705 593 retrotransposon protein [Hypericum perfo 0.937 0.200 0.308 7e-07
222635925 940 hypothetical protein OsJ_22054 [Oryza sa 0.944 0.127 0.3 2e-06
222625515 1145 hypothetical protein OsJ_12023 [Oryza sa 0.929 0.103 0.295 2e-06
53370641 855 F-box domain containing protein [Oryza s 0.929 0.138 0.295 3e-06
218193461 834 hypothetical protein OsI_12930 [Oryza sa 0.929 0.141 0.295 3e-06
218190093175 hypothetical protein OsI_05906 [Oryza sa 0.968 0.702 0.299 3e-06
>gi|343887321|dbj|BAK61867.1| hypothetical protein [Citrus unshiu] Back     alignment and taxonomy information
 Score = 90.5 bits (223), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 44/101 (43%), Positives = 64/101 (63%)

Query: 4   DATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVS 63
            A+V  E+Q+ GLGVVIR+ +   IVAA  S +   NV  A+A A+KWG+++AL+  L +
Sbjct: 45  PASVHAEQQLTGLGVVIRNSQGQVIVAAFKSTKFEDNVTAAKAEAVKWGLEMALEARLAA 104

Query: 64  ALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNF 104
            ++E+DC+EV  + NN  SS  EI W IS+I      FQ+ 
Sbjct: 105 VIIETDCIEVANLANNETSSRKEIVWTISDIHSYKEKFQSL 145

Source: Citrus unshiu

Species: Citrus unshiu

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|222622434|gb|EEE56566.1| hypothetical protein OsJ_05904 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|218190326|gb|EEC72753.1| hypothetical protein OsI_06384 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|255568641|ref|XP_002525294.1| hypothetical protein RCOM_0581330 [Ricinus communis] gi|223535452|gb|EEF37122.1| hypothetical protein RCOM_0581330 [Ricinus communis] Back     alignment and taxonomy information
>gi|302121705|gb|ADK92871.1| retrotransposon protein [Hypericum perforatum] Back     alignment and taxonomy information
>gi|222635925|gb|EEE66057.1| hypothetical protein OsJ_22054 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|222625515|gb|EEE59647.1| hypothetical protein OsJ_12023 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|53370641|gb|AAU89136.1| F-box domain containing protein [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|218193461|gb|EEC75888.1| hypothetical protein OsI_12930 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|218190093|gb|EEC72520.1| hypothetical protein OsI_05906 [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)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query127
TAIR|locus:1006230762257 AT1G04625 [Arabidopsis thalian 0.811 0.400 0.317 5.2e-06
TAIR|locus:2201941303 AT1G10000 [Arabidopsis thalian 0.960 0.402 0.293 0.00026
TAIR|locus:1006230762 AT1G04625 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 110 (43.8 bits), Expect = 5.2e-06, P = 5.2e-06
 Identities = 33/104 (31%), Positives = 47/104 (45%)

Query:    17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQI 76
             G ++RDD+   + AA     I TN   +E  A+   MQ     G      E D  EV +I
Sbjct:   107 GWLLRDDRGTFLGAAHAIGSITTNPMESELQALVMAMQHCWSRGYRKIYFEGDNKEVSEI 166

Query:    77 VNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHAL 120
             VN R S+    +W I +I    + F+  +   T   +N AA AL
Sbjct:   167 VNGRSSNFAVFNW-IRDISAWRSKFEECKFTWTRRFSNMAADAL 209
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0005575 "cellular_component" evidence=ND
GO:0008150 "biological_process" evidence=ND
TAIR|locus:2201941 AT1G10000 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

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 ?
Query127
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 2e-13
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 2e-11
cd09279128 cd09279, RNase_HI_archaeal_like, RNAse HI family t 0.003
>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 
 Score = 61.6 bits (150), Expect = 2e-13
 Identities = 32/119 (26%), Positives = 56/119 (47%), Gaps = 1/119 (0%)

Query: 2   NVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGL 61
           N D +       AG G V+RD +   + A  +S    TN   AE  A+   +++AL  GL
Sbjct: 1   NTDGSCKGNPGPAGAGGVLRDHEGAWLFAGSLSIPAATNN-EAELLALLEALELALDLGL 59

Query: 62  VSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHAL 120
              ++E+D   VV ++N+      + + ++ +IL + + F + R +H     N  A  L
Sbjct: 60  KKLIIETDSKYVVDLINSWSKGWKKNNLLLWDILLLLSKFIDIRFEHVPREGNEVADRL 118

Ribonuclease H (RNase H) enzymes are divided into two major families, Type 1 and Type 2, based on amino acid sequence similarities and biochemical properties. RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner in the presence of divalent cations. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite the lack of amino acid sequence homology, Type 1 and type 2 RNase H share a main-chain fold and steric configurations of the four acidic active-site residues and have the same catalytic mechanism and functions in cells. RNase H is involved in DNA replication, repair and transcription. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription. Length = 123
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|187703 cd09279, RNase_HI_archaeal_like, RNAse HI family that includes Archaeal RNase HI Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 127
PRK13907128 rnhA ribonuclease H; Provisional 100.0
PRK07708219 hypothetical protein; Validated 99.96
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 99.96
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 99.95
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 99.94
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 99.94
PRK08719147 ribonuclease H; Reviewed 99.89
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 99.89
PRK00203150 rnhA ribonuclease H; Reviewed 99.88
PRK06548161 ribonuclease H; Provisional 99.87
KOG3752371 consensus Ribonuclease H [Replication, recombinati 99.58
KOG1812 384 consensus Predicted E3 ubiquitin ligase [Posttrans 97.87
COG0295134 Cdd Cytidine deaminase [Nucleotide transport and m 95.11
COG0590152 CumB Cytosine/adenosine deaminases [Nucleotide tra 94.05
cd01285109 nucleoside_deaminase Nucleoside deaminases include 92.75
TIGR01354127 cyt_deam_tetra cytidine deaminase, homotetrameric. 89.81
cd01284115 Riboflavin_deaminase-reductase Riboflavin-specific 89.59
PRK10860172 tRNA-specific adenosine deaminase; Provisional 89.43
cd01283112 cytidine_deaminase Cytidine deaminase zinc-binding 85.74
PRK14828 256 undecaprenyl pyrophosphate synthase; Provisional 84.68
cd0078696 cytidine_deaminase-like Cytidine and deoxycytidyla 84.32
PRK05578131 cytidine deaminase; Validated 81.05
PF00383102 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deam 80.71
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information 
Probab=100.00  E-value=2.9e-33  Score=176.68  Aligned_cols=123  Identities=16%  Similarity=0.132  Sum_probs=111.5

Q ss_pred             CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcC
Q 038317            1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNR   80 (127)
Q Consensus         1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~   80 (127)
                      +||||||.++++.+|+|+|+++..|.+...+  .. +..++++||++|++.||+.+.+.|+++|+|+|||+.+++++++.
T Consensus         4 iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~--~~-~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~   80 (128)
T PRK13907          4 VYIDGASKGNPGPSGAGVFIKGVQPAVQLSL--PL-GTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE   80 (128)
T ss_pred             EEEeeCCCCCCCccEEEEEEEECCeeEEEEe--cc-cccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence            5899999999999999999999888765432  22 45789999999999999999999999999999999999999998


Q ss_pred             CCCcchHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhhhc
Q 038317           81 CSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICK  126 (127)
Q Consensus        81 ~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~  126 (127)
                      +.....+..++++++.++++|+.+.+.||||++|+.||.||+.|+.
T Consensus        81 ~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~  126 (128)
T PRK13907         81 YAKNKMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAIL  126 (128)
T ss_pred             HhcChhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHh
Confidence            7655679999999999999999999999999999999999999874

>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B 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
>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
>PRK00203 rnhA ribonuclease H; Reviewed 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
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism] Back     alignment and domain information
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases Back     alignment and domain information
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric Back     alignment and domain information
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase 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
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional Back     alignment and domain information
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region Back     alignment and domain information
>PRK05578 cytidine deaminase; Validated 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

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 ?
Query127
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 100.0
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 100.0
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 99.97
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 99.95
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 99.94
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 99.93
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 99.93
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 99.93
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 99.93
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 99.92
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 99.92
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 99.9
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 99.82
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 99.81
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 99.8
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 99.77
1uwz_A136 Cytidine deaminase; CDD, tetramer, zinc binding, p 93.42
2fr5_A146 Cytidine deaminase; tetrahydrouridine, protein-inh 92.42
2z3g_A130 Blasticidin-S deaminase; hydrolase, cytidine deami 88.29
1r5t_A142 Cytidine deaminase; zinc dependent deaminase, RNA 88.06
2d30_A141 Cytidine deaminase; purines, pyrimidines, nucleosi 87.73
2nx8_A179 TRNA-specific adenosine deaminase; TAD, hydrolase; 87.27
2a8n_A144 Cytidine and deoxycytidylate deaminase; RNA editin 86.55
2b3j_A159 TRNA adenosine deaminase; mixed alpha-beta, protei 85.6
1wwr_A171 TRNA adenosine deaminase TADA; homodimer, riken st 85.5
1wkq_A164 Guanine deaminase; domain SWAP, the cytidine deami 83.46
3dh1_A189 TRNA-specific adenosine deaminase 2; zinc-binding 83.26
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 82.72
2g84_A197 Cytidine and deoxycytidylate deaminase zinc-bindi; 82.6
1z3a_A168 TRNA-specific adenosine deaminase; tRNA adenosine 82.17
3r2n_A138 Cytidine deaminase; structural genomics, seattle s 80.64
3mpz_A150 Cytidine deaminase; ssgcid, structu genomics, seat 80.36
>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=100.00  E-value=9.9e-33  Score=175.54  Aligned_cols=125  Identities=17%  Similarity=0.176  Sum_probs=112.6

Q ss_pred             CcccceeecCCCeeEEEEEEecCC-CcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhc
Q 038317            1 INVDATVDVEKQVAGLGVVIRDDK-DNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNN   79 (127)
Q Consensus         1 ~n~Dgs~~~~~~~~g~G~vi~~~~-g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~   79 (127)
                      +|||||+.++++.+|+|++++++. |.++...+..++ ..++++||+.|++.||+++.+.|.++|.|+|||+++++.+++
T Consensus         6 iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~a~~~~~~~v~i~tDS~~vv~~i~~   84 (141)
T 3hst_B            6 IEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIG-RATNNVAEYRGLIAGLDDAVKLGATEAAVLMDSKLVVEQMSG   84 (141)
T ss_dssp             EEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEEE-EECHHHHHHHHHHHHHHHHHHHTCSEEEEEESCHHHHHHHTT
T ss_pred             EEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccCC-CCchHHHHHHHHHHHHHHHHHCCCceEEEEeChHHHHHHHhC
Confidence            589999999999999999999987 666666666564 679999999999999999999999999999999999999999


Q ss_pred             CCCCc-chHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhhhc
Q 038317           80 RCSSM-VEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICK  126 (127)
Q Consensus        80 ~~~~~-~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~  126 (127)
                      .+... ..+..++.+|+.++++|..++|.||||++|+.||.|||.|++
T Consensus        85 ~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~~~N~~AD~LA~~a~~  132 (141)
T 3hst_B           85 RWKVKHPDLLKLYVQAQALASQFRRINYEWVPRARNTYADRLANDAMD  132 (141)
T ss_dssp             SSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCGGGCHHHHHHHHHHHH
T ss_pred             CcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCCcccHHHHHHHHHHHH
Confidence            76543 468889999999999999999999999999999999999875
>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
>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
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_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
>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
>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
>2nx8_A TRNA-specific adenosine deaminase; TAD, hydrolase; 2.00A {Streptococcus pyogenes serotype M6} 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
>1wkq_A Guanine deaminase; domain SWAP, the cytidine deaminase superfamily, substrate specificity, structural plasticity, hydrolase; 1.17A {Bacillus subtilis} SCOP: c.97.1.2 PDB: 1tiy_A Back     alignment and structure
>3dh1_A TRNA-specific adenosine deaminase 2; zinc-binding protein, TRA tRNA processing, hydrolase, structural genomics, structural consortium, SGC; 2.80A {Homo sapiens} Back     alignment and structure
>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
>2g84_A Cytidine and deoxycytidylate deaminase zinc-bindi; zinc-binding region, structural genomics, PSI, protein structure initiative; 1.40A {Nitrosomonas europaea} SCOP: c.97.1.2 Back     alignment and structure
>1z3a_A TRNA-specific adenosine deaminase; tRNA adenosine deaminase, dimer, zinc, metalloenzyme, structural genomics, PSI, protein structure initiative; 2.03A {Escherichia coli} SCOP: c.97.1.2 PDB: 3ocq_A Back     alignment and structure
>3r2n_A Cytidine deaminase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, tuberculosis; 2.30A {Mycobacterium leprae} SCOP: c.97.1.0 Back     alignment and structure
>3mpz_A Cytidine deaminase; ssgcid, structu genomics, seattle structural genomics center for infectious hydrolase; 1.70A {Mycobacterium smegmatis} PDB: 3ijf_X 4f3w_A 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 ?
Query127
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 99.87
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 99.87
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 99.85
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 99.79
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 99.76
d2g84a1189 Putative deaminase NE0047 {Nitrosomonas europaea [ 87.77
d1z3aa1156 tRNA adenosine deaminase TadA {Escherichia coli [T 87.29
d1wkqa_158 Guanine deaminase GuaD {Bacillus subtilis [TaxId: 86.21
d2d30a1124 mono-domain cytidine deaminase {Bacillus anthracis 85.97
d1r5ta_141 mono-domain cytidine deaminase {Baker's yeast (Sac 81.07
>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=99.87  E-value=1.8e-21  Score=120.07  Aligned_cols=113  Identities=17%  Similarity=0.052  Sum_probs=85.6

Q ss_pred             CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcC
Q 038317            1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNR   80 (127)
Q Consensus         1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~   80 (127)
                      ++||||+..+++.+|+|+++.+...  ..   ..++ ..|++.||+.|++.||+.    ...+|.|+|||+++++.+++.
T Consensus        10 ~YTDGS~~~n~~~~~~g~~~~~~~~--~~---~~~~-~~tnn~AEl~Ai~~al~~----~~~~i~I~tDS~~v~~~~~~~   79 (126)
T d1mu2a1          10 FYTDGSCNRQSKEGKAGYVTDRGKD--KV---KKLE-QTTNQQAELEAFAMALTD----SGPKVNIIVDSQYVMGIVASQ   79 (126)
T ss_dssp             EEEEEEECTTTCCEEEEEEETTSCE--EE---EEES-SCCHHHHHHHHHHHHHHT----SCSEEEEEESCHHHHHHHHTC
T ss_pred             EEEcCCCCCCCCcEEEEEEecCCCE--EE---EecC-CCcchHHHHHHHHHHhcc----CCcceEEEechHHHHHHHhcC
Confidence            4799999999999999998876432  22   2233 468999999999998864    568999999999999999987


Q ss_pred             CCCcchHHHHHHHHHHHhhcCCcEEEEEecC----CccHHHHHHHHhhh
Q 038317           81 CSSMVEISWMISEILEMNNSFQNFRAQHTAT----INNSAAHALRFKIC  125 (127)
Q Consensus        81 ~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r----~~N~~Ad~LA~~a~  125 (127)
                      ..... ...+.+.+..+. +...+.|.|||.    .+|+.||+||++|+
T Consensus        80 ~~~~~-~~~~~~~~~~~~-~~~~v~~~wV~gH~g~~gNe~AD~LA~~ai  126 (126)
T d1mu2a1          80 PTESE-SKIVNQIIEEMI-KKEAIYVAWVPAHKGIGGNQEVDHLVSQGI  126 (126)
T ss_dssp             CSEES-CHHHHHHHHHHH-HCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             Ccccc-chHHHHHHHHhh-hcceeEEEEEeCCCCCcchHHHHHHHHhhC
Confidence            54322 223334444444 456899999996    45999999999984
>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
>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
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} 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
>d1z3aa1 c.97.1.2 (A:13-168) tRNA adenosine deaminase TadA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wkqa_ c.97.1.2 (A:) Guanine deaminase GuaD {Bacillus subtilis [TaxId: 1423]} 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
>d1r5ta_ c.97.1.1 (A:) mono-domain cytidine deaminase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure