Citrus Sinensis ID: 048164

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--
Protein Sequence
MFRMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Secondary Structure (PSIPRED)
ccEEEEEEEEEcccccccccEEEEEEEEEEEccccEEEEHHHHHHcccEEEEEcccccccccEEEEEEEEcc
Secondary Structure Prediction (SSPRO)
cccEEEEEEEEcccccccccccEEEEEEEHHHHHHHHHHHHHHHHccccEcEccccccccccEEEEEEEEcc
Coil and Loop (DISEMBL)
mfrmcsiayfldshssysgrkldvNIYHSISLCCRMVMGWLRFLesgakfdcinspndvsgRMIYTFACISD
Flexible Loop (DISEMBL)
MFRMCSIAYfldshssysgRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCInspndvsgRMIYTFACISD
Low Complexity Region (SEG)
MFRMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Disordered region (IsUnstruct)
***MCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACI**
Disordered Region (DISOPRED)
**RMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Disordered Region (DISEMBL)
MFRMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Disordered Region (DISPRO)
*FRMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFRMCSIAYFLDSHSSYSGRKLDVNIYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYTFACISD
Positional Conservation
no confident homologs detected

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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	Length	Definition	Q cover	H cover	Identity	E-value
Query	72
10172604	357	DNA topoisomerase VI, subunit A [Arabido	0.513	0.103	0.578	3e-05
255563518	373	meiotic recombination protein spo11, put	0.513	0.099	0.594	8e-05
296089901	415	unnamed protein product [Vitis vinifera]	0.305	0.053	0.818	0.0007

>gi|10172604|dbj|BAB01408.1| DNA topoisomerase VI, subunit A [Arabidopsis thaliana]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/38 (57%), Positives = 30/38 (78%), Gaps = 1/38 (2%)

Query: 21  KLDVNIYHSISL-CCRMVMGWLRFLESGAKFDCINSPN 57
           + ++N+ H I L CCR+VMGWL+F E+G KFDC+NS N
Sbjct: 121 RYNLNVIHLIILLCCRLVMGWLKFREAGRKFDCLNSLN 158

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563518|ref|XP_002522761.1| meiotic recombination protein spo11, putative [Ricinus communis] gi|223537999|gb|EEF39612.1| meiotic recombination protein spo11, putative [Ricinus communis]

 Score = 51.2 bits (121), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 22/37 (59%), Positives = 28/37 (75%)

Query: 30  ISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYT 66
           +S+   +VMGWLRFLE+G KFDCINSPN+V    I+ 
Sbjct: 136 VSVGTGLVMGWLRFLEAGRKFDCINSPNNVHPIPIHV 172

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089901|emb|CBI39720.3| unnamed protein product [Vitis vinifera]

 Score = 48.1 bits (113), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 18/22 (81%), Positives = 20/22 (90%)

Query: 36  MVMGWLRFLESGAKFDCINSPN 57
           +VMGWLRFLE+G KFDCIN PN
Sbjct: 196 LVMGWLRFLEAGKKFDCINGPN 217

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

No confident hit detected by STRING

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	72
KOG2795	372	consensus Catalytic subunit of the meiotic double	98.13
PRK04342	367	DNA topoisomerase VI subunit A; Provisional	97.13
PLN00060	384	meiotic recombination protein SPO11-2; Provisional	96.89
COG1697	356	DNA topoisomerase VI, subunit A [DNA replication,	95.52

>KOG2795 consensus Catalytic subunit of the meiotic double strand break transesterase [Replication, recombination and repair]

Probab=98.13  E-value=2.1e-06  Score=68.23  Aligned_cols=41  Identities=27%  Similarity=0.327  Sum_probs=36.1

Q ss_pred             EeeeeeccceeEEEEEeee-cCeEEEeecCCCCcccceeeee
Q 048164           27 YHSISLCCRMVMGWLRFLE-SGAKFDCINSPNDVSGRMIYTF   67 (72)
Q Consensus        27 ~nVvsv~kGLVMGwLrF~E-ggr~iDCi~S~n~~~pIPV~ie   67 (72)
                      -||.|..||||+|||+|.| +|.++||.++...+.++|...+
T Consensus       143 LnI~a~~KGLV~G~l~~~~~ng~~id~~~~~~~~~~lp~d~~  184 (372)
T KOG2795|consen  143 LNILAASKGLVAGRLRFLEENGDVIDCTESGGGPKALPPDID  184 (372)
T ss_pred             CCeeeecCceEEeeEEEEEcCCcEEEeccCCCCCccCCCCHH
Confidence            3778999999999999955 9999999999999999997643

>PRK04342 DNA topoisomerase VI subunit A; Provisional

Probab=97.13  E-value=0.00042  Score=53.45  Aligned_cols=41  Identities=17%  Similarity=0.043  Sum_probs=35.3

Q ss_pred             EEeeeeeccceeEEEEEeeecCeEEEeecCCCCcccceeee
Q 048164           26 IYHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMIYT   66 (72)
Q Consensus        26 ~~nVvsv~kGLVMGwLrF~Eggr~iDCi~S~n~~~pIPV~i   66 (72)
                      -.||++..||+|.|.++|+++|.+|||.+....+..||...
T Consensus       140 ~L~I~a~~KGlv~G~i~i~~~~~~id~~~~g~~~~~ip~~~  180 (367)
T PRK04342        140 ELHIRPEEDGSVVGPLRIRDGTDEIDCSKLGEGGYSIPPNV  180 (367)
T ss_pred             HCCeeECCCeEEEeceEEEECCcEEEEeccCCCceeCCCch
Confidence            46899999999999999999999999998666777777543

>PLN00060 meiotic recombination protein SPO11-2; Provisional

Probab=96.89  E-value=0.00093  Score=52.66  Aligned_cols=40  Identities=13%  Similarity=0.006  Sum_probs=33.5

Q ss_pred             EeeeeeccceeEEEEEeee-cCeEEEeecCCCCcccceeee
Q 048164           27 YHSISLCCRMVMGWLRFLE-SGAKFDCINSPNDVSGRMIYT   66 (72)
Q Consensus        27 ~nVvsv~kGLVMGwLrF~E-ggr~iDCi~S~n~~~pIPV~i   66 (72)
                      .||+|..||+|.|.++|.+ ++..+||......|..||-.+
T Consensus       159 L~I~a~~KGlV~G~l~i~~~~~~~idcs~~g~~G~~Ip~~~  199 (384)
T PLN00060        159 LGIMASSRGALIGRLVLQEPNEEPVDCSILGISGHAITGDL  199 (384)
T ss_pred             CCeEecCCceEEeeeEEEecCCcEEEeeccCCCceeCCCcH
Confidence            5889999999999999976 668999987666788888543

>COG1697 DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]

Probab=95.52  E-value=0.011  Score=47.22  Aligned_cols=39  Identities=15%  Similarity=-0.112  Sum_probs=34.3

Q ss_pred             EeeeeeccceeEEEEEeee-cCeEEEeecCCCCcccceee
Q 048164           27 YHSISLCCRMVMGWLRFLE-SGAKFDCINSPNDVSGRMIY   65 (72)
Q Consensus        27 ~nVvsv~kGLVMGwLrF~E-ggr~iDCi~S~n~~~pIPV~   65 (72)
                      .|+.+--+|+|+|-|++++ |+.+|||.+..-.|-.||..
T Consensus       133 l~i~p~ekG~V~G~l~I~~~g~~~i~~sk~G~~~y~Ip~~  172 (356)
T COG1697         133 LGIRPEEKGLVYGPLRIREEGEDEIDASKLGGGGYLIPPD  172 (356)
T ss_pred             cCCCcccCceEEcceEEEecCCcEEEeeecCCCCCcCCCC
Confidence            4678889999999999988 99999999988888888843

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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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	72
1d3y_A	301	DNA topoisomerase VI A subunit; DNA binding protei	96.87
2zbk_A	389	Type II DNA topoisomerase VI subunit A; DNA bindin	96.7
2q2e_A	369	Type II DNA topoisomerase VI subunit A; DNA-bindin	95.73

>1d3y_A DNA topoisomerase VI A subunit; DNA binding protein, SPO11 homolog; HET: DNA; 2.00A {Methanocaldococcus jannaschii} SCOP: e.12.1.1

Probab=96.87  E-value=0.00025  Score=51.72  Aligned_cols=42  Identities=17%  Similarity=0.029  Sum_probs=35.0

Q ss_pred             EEeeeeeccc-eeEEEEEeee----cCeEEEeecCCCCcccceeeee
Q 048164           26 IYHSISLCCR-MVMGWLRFLE----SGAKFDCINSPNDVSGRMIYTF   67 (72)
Q Consensus        26 ~~nVvsv~kG-LVMGwLrF~E----ggr~iDCi~S~n~~~pIPV~ie   67 (72)
                      -.||++..|| +|+|.++|.+    +|+.|||.+....|.+||..++
T Consensus        68 ~L~i~a~~kG~lv~G~l~i~~~~~~~~~~id~~~~~~~g~~Ip~~~~  114 (301)
T 1d3y_A           68 HLGFIPEEDGSSVVGPLKIIEETPEGELVVDCTKLGTGAYNIPNDVT  114 (301)
T ss_dssp             GGTEECSSCCCEEESSCEEEEEETTEEEEEETTSCTTSEEECCSCCT
T ss_pred             HCCeeeCCCceEEEeeeEEEEeecCCCcEEEeecCCCCceecCccHH
Confidence            3578899999 9999999976    5899999976667888887654

>2zbk_A Type II DNA topoisomerase VI subunit A; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae}

Probab=96.70  E-value=0.00081  Score=50.96  Aligned_cols=38  Identities=16%  Similarity=0.015  Sum_probs=32.7

Q ss_pred             EeeeeeccceeEEEEEeeecCeEEEeecCCCCccccee
Q 048164           27 YHSISLCCRMVMGWLRFLESGAKFDCINSPNDVSGRMI   64 (72)
Q Consensus        27 ~nVvsv~kGLVMGwLrF~Eggr~iDCi~S~n~~~pIPV   64 (72)
                      .|+++..||+|.|.++|.++|++|||......|..||-
T Consensus       153 L~I~a~~kGlv~G~l~i~~~~~~id~~~~g~~g~~Ip~  190 (389)
T 2zbk_A          153 MLILSKEKGKVVGNLRIRSGNDVIDLSKTGHGAYAIEP  190 (389)
T ss_dssp             HTCCCCCCCCBEESEEEEETTEEEESSCCTTCCBCCCS
T ss_pred             cceEecCCcEEEeeeEEEeCCcEEEeecCCCCceeCCc
Confidence            57889999999999999999999999975556777774

>2q2e_A Type II DNA topoisomerase VI subunit A; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei}

Probab=95.73  E-value=0.0017  Score=48.38  Aligned_cols=40  Identities=10%  Similarity=0.055  Sum_probs=29.3

Q ss_pred             EEeeeeeccc-eeEEEEEeee----cCeEEEeec-CCCCcccceee
Q 048164           26 IYHSISLCCR-MVMGWLRFLE----SGAKFDCIN-SPNDVSGRMIY   65 (72)
Q Consensus        26 ~~nVvsv~kG-LVMGwLrF~E----ggr~iDCi~-S~n~~~pIPV~   65 (72)
                      -.|+++..+| +|.|.++|.+    +|++|||.. ....+..||..
T Consensus       139 ~L~I~a~~kG~lv~G~l~i~~~~~~~~~~id~~~~~g~~g~~Ip~~  184 (369)
T 2q2e_A          139 YFHMRPEEDGATMFGPIEITEQTKRGERNIHCQKDVGEGGYQIPFN  184 (369)
T ss_dssp             GGTEECSSCCCCEECSCCCCCCSSCC----CCCC-CCSSCCCCCSC
T ss_pred             HcceeccCCceEEEEeEEEEEEecCCCcEEEecccCCCCCeeCCcc
Confidence            4688899999 9999999976    689999996 34667788874

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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	Length	Definition	Probability
Query	72
d1d3ya_	298	DNA topoisomerase IV, alpha subunit {Archaeon Meth	84.73

>d1d3ya_ e.12.1.1 (A:) DNA topoisomerase IV, alpha subunit {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Multi-domain proteins (alpha and beta)
fold: DNA topoisomerase IV, alpha subunit
superfamily: DNA topoisomerase IV, alpha subunit
family: DNA topoisomerase IV, alpha subunit
domain: DNA topoisomerase IV, alpha subunit
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=84.73  E-value=0.13  Score=35.45  Aligned_cols=37  Identities=16%  Similarity=0.083  Sum_probs=25.6

Q ss_pred             Eeeeeecccee-EEEEEeee----cCeEEEeecCCCCcccce
Q 048164           27 YHSISLCCRMV-MGWLRFLE----SGAKFDCINSPNDVSGRM   63 (72)
Q Consensus        27 ~nVvsv~kGLV-MGwLrF~E----ggr~iDCi~S~n~~~pIP   63 (72)
                      -||+|..||+| .|++++.+    ++..+||..+...+..+|
T Consensus        66 L~v~as~KGlv~~g~~~~~~~~~~~~~~id~~~~~~~~~~~~  107 (298)
T d1d3ya_          66 LGFIPEEDGSSVVGPLKIIEETPEGELVVDCTKLGTGAYNIP  107 (298)
T ss_dssp             GTEECSSCCCEEESSCEEEEEETTEEEEEETTSCTTSEEECC
T ss_pred             CCeEecCCCeEEeCcEEEEEecCCCceEEEcccccCCCccCc
Confidence            37899999997 58888854    344899986544444443