254780431
hypothetical protein CLIBASIA_01580
GeneID in NCBI database: | 8209417 | Locus tag: | CLIBASIA_01580 |
Protein GI in NCBI database: | 254780431 | Protein Accession: | YP_003064844.1 |
Gene range: | -(337920, 338456) | Protein Length: | 178aa |
Gene description: | hypothetical protein | ||
COG prediction: | none | ||
KEGG prediction: | hypothetical protein; K13583 GcrA cell cycle regulator | ||
SEED prediction: | hypothetical protein | ||
Pathway involved in KEGG: | not defined | ||
Subsystem involved in SEED: | - none - | ||
sequence | sequence profile |
Prediction of Local Sequence Properties
Source | Summary | Result |
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Close Homologs Detected by BLAST or PSI-BLAST
Homolog within the Genome Detected by BLAST
Original result of BLAST against C. L. asiaticus genome
Identity | Alignment graph | Length | Definition | E-value | |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | |||
254780404 | 286 | inositol monophosphatase family protein [Candidatu | 0.038 |
>gi|254780404|ref|YP_003064817.1| inositol monophosphatase family protein [Candidatus Liberibacter asiaticus str. psy62] Length = 286 | Back alignment |
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Score = 29.3 bits (64), Expect = 0.038, Method: Compositional matrix adjust. Identities = 43/169 (25%), Positives = 72/169 (42%), Gaps = 22/169 (13%) Query: 2 VWTVERIDKLKKFWSEGLSASQIAVQLGGVTRNAVIGKLHRLFLSNRVKVNENKQSDGNR 61 ++ V+ ID + F EG + I+V + R VIG +H L V+ +S N Sbjct: 110 LFVVDPIDGTRAF-IEGRNEWCISVAVVHHGR-PVIGVVHASALGKEFFVSVGMKSTCNG 167 Query: 62 KNVTLGSTSPKTRQSSNVYICEPVLKGQLPVVRSKRKSKSMEKNNTISSGIVLPISRCLR 121 KN+++ +S + S + + LKG VR +R+S +IS S CLR Sbjct: 168 KNISV--SSNQMSDSLAIMASDVSLKGLDSYVRFRRQS-------SIS-------SLCLR 211 Query: 122 LMELTDNTCKWPLGDPFGKDFSFCGSDV---CNDSPYCDYHKK-LAYQR 166 ++ + + D D+ +D+ C+ D +K L Y R Sbjct: 212 ILMIASGEVDVLIVDRNANDWDLAAADLLLECSGGALVDIDRKLLTYNR 260 |
Close Homologs Detected BLAST or PSI-BLAST in the First 2 Iterations
Original result of PSI-BLAST first 2 iterations
Identity | Alignment graph | Length | Definition | Round | E-value |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | |||
315122121 | 180 | hypothetical protein CKC_01855 [Candidatus Liberibacter | 1 | 3e-69 | |
49473780 | 177 | hypothetical protein BQ01020 [Bartonella quintana str. | 1 | 3e-38 | |
15964269 | 173 | hypothetical protein SMc02139 [Sinorhizobium meliloti 1 | 1 | 2e-37 | |
319407975 | 177 | conserved hypothetical protein [Bartonella schoenbuchen | 1 | 2e-37 | |
163867404 | 177 | hypothetical protein Btr_0114 [Bartonella tribocorum CI | 1 | 3e-37 | |
49474928 | 177 | hypothetical protein BH01100 [Bartonella henselae str. | 1 | 1e-36 | |
240849778 | 177 | GcrA cell cycle regulator [Bartonella grahamii as4aup] | 1 | 2e-36 | |
222084785 | 178 | hypothetical protein Arad_0773 [Agrobacterium radiobact | 1 | 3e-36 | |
325291859 | 177 | hypothetical protein AGROH133_03707 [Agrobacterium sp. | 1 | 3e-36 | |
327190078 | 177 | hypothetical protein RHECNPAF_469002 [Rhizobium etli CN | 1 | 5e-36 |
>gi|315122121|ref|YP_004062610.1| hypothetical protein CKC_01855 [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 180 | Back alignment and organism information |
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Score = 265 bits (676), Expect = 3e-69, Method: Compositional matrix adjust. Identities = 129/180 (71%), Positives = 147/180 (81%), Gaps = 2/180 (1%) Query: 1 MVWTVERIDKLKKFWSEGLSASQIAVQLGGVTRNAVIGKLHRLFLSNRVKVNENKQSDG- 59 MVWT ERIDKLK+FWS+GLSASQIA QLGGVTRNAVIGK+HRLFLS RVK+NEN++S Sbjct: 1 MVWTDERIDKLKQFWSDGLSASQIATQLGGVTRNAVIGKVHRLFLSGRVKINENRKSAAE 60 Query: 60 -NRKNVTLGSTSPKTRQSSNVYICEPVLKGQLPVVRSKRKSKSMEKNNTISSGIVLPISR 118 RK+ G+ S K RQSS I E + KG++ V SKRKSK +EK + I SGIVLPISR Sbjct: 61 VGRKDSNSGNASAKIRQSSVACIPESMSKGRVSVAASKRKSKPLEKGDEIPSGIVLPISR 120 Query: 119 CLRLMELTDNTCKWPLGDPFGKDFSFCGSDVCNDSPYCDYHKKLAYQRVNDRRKVQANSE 178 CLRLMELT+NTCKWPLG+P GKDFSFCGSD NDSPYCDYHK LAYQRV DRRK+Q N++ Sbjct: 121 CLRLMELTENTCKWPLGNPLGKDFSFCGSDAHNDSPYCDYHKNLAYQRVQDRRKIQVNAK 180 |
Species: Candidatus Liberibacter solanacearum Genus: Candidatus Liberibacter Family: Rhizobiaceae Order: Rhizobiales Class: Alphaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
>gi|49473780|ref|YP_031822.1| hypothetical protein BQ01020 [Bartonella quintana str. Toulouse] Length = 177 | Back alignment and organism information |
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>gi|15964269|ref|NP_384622.1| hypothetical protein SMc02139 [Sinorhizobium meliloti 1021] Length = 173 | Back alignment and organism information |
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>gi|319407975|emb|CBI81629.1| conserved hypothetical protein [Bartonella schoenbuchensis R1] Length = 177 | Back alignment and organism information |
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>gi|163867404|ref|YP_001608599.1| hypothetical protein Btr_0114 [Bartonella tribocorum CIP 105476] Length = 177 | Back alignment and organism information |
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>gi|49474928|ref|YP_032969.1| hypothetical protein BH01100 [Bartonella henselae str. Houston-1] Length = 177 | Back alignment and organism information |
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>gi|240849778|ref|YP_002971166.1| GcrA cell cycle regulator [Bartonella grahamii as4aup] Length = 177 | Back alignment and organism information |
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>gi|222084785|ref|YP_002543314.1| hypothetical protein Arad_0773 [Agrobacterium radiobacter K84] Length = 178 | Back alignment and organism information |
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>gi|325291859|ref|YP_004277723.1| hypothetical protein AGROH133_03707 [Agrobacterium sp. H13-3] Length = 177 | Back alignment and organism information |
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>gi|327190078|gb|EGE57194.1| hypothetical protein RHECNPAF_469002 [Rhizobium etli CNPAF512] Length = 177 | Back alignment and organism information |
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Conserved Domains in CDD Database
Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
Original result of RPS-BLASTagainst CDD database part II
Identity | Alignment graph | Length | Definition | E-value |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | ||
pfam07750 | 162 | pfam07750, GcrA, GcrA cell cycle regulator | 2e-42 | |
COG5352 | 169 | COG5352, COG5352, Uncharacterized protein conserved in | 2e-38 |
>gnl|CDD|116364 pfam07750, GcrA, GcrA cell cycle regulator | Back alignment and domain information |
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>gnl|CDD|34927 COG5352, COG5352, Uncharacterized protein conserved in bacteria [Function unknown] | Back alignment and domain information |
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Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity | Alignment graph | Length | Definition | Probability |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | ||
pfam07750 | 162 | GcrA GcrA cell cycle regulator. GcrA is a master cell c | 100.0 | |
COG5352 | 169 | Uncharacterized protein conserved in bacteria [Function | 100.0 | |
cd00569 | 42 | HTH_Hin_like Helix-turn-helix domain of Hin and related | 95.77 | |
COG3415 | 138 | Transposase and inactivated derivatives [DNA replicatio | 94.19 | |
pfam02796 | 45 | HTH_7 Helix-turn-helix domain of resolvase. | 93.84 | |
pfam04297 | 101 | UPF0122 Putative helix-turn-helix protein, YlxM / p13 l | 92.7 | |
PRK02277 | 201 | orotate phosphoribosyltransferase-like protein; Provisi | 91.41 | |
PRK00118 | 105 | putative DNA-binding protein; Validated | 91.15 | |
PRK03975 | 139 | tfx putative transcriptional regulator; Provisional | 90.99 | |
COG2522 | 119 | Predicted transcriptional regulator [General function p | 90.85 | |
cd06170 | 57 | LuxR_C_like C-terminal DNA-binding domain of LuxR-like | 90.74 | |
cd00090 | 78 | HTH_ARSR Arsenical Resistance Operon Repressor and simi | 90.18 | |
PRK06930 | 170 | positive control sigma-like factor; Validated | 90.11 |
>pfam07750 GcrA GcrA cell cycle regulator | Back alignment and domain information |
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>COG5352 Uncharacterized protein conserved in bacteria [Function unknown] | Back alignment and domain information |
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>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella | Back alignment and domain information |
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>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair] | Back alignment and domain information |
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>pfam02796 HTH_7 Helix-turn-helix domain of resolvase | Back alignment and domain information |
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>pfam04297 UPF0122 Putative helix-turn-helix protein, YlxM / p13 like | Back alignment and domain information |
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>PRK02277 orotate phosphoribosyltransferase-like protein; Provisional | Back alignment and domain information |
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>PRK00118 putative DNA-binding protein; Validated | Back alignment and domain information |
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>PRK03975 tfx putative transcriptional regulator; Provisional | Back alignment and domain information |
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>COG2522 Predicted transcriptional regulator [General function prediction only] | Back alignment and domain information |
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>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins | Back alignment and domain information |
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>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors | Back alignment and domain information |
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>PRK06930 positive control sigma-like factor; Validated | Back alignment and domain information |
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Homologous Structures in PDB Database
Detected by PSI-BLAST, RPS-BLAST and HHsearch
Homologous Structures Detected by PSI-BLAST against Nonredundant Database
No homologous structure with e-value below 0.005
Homologous Structures in PDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
No hit with e-value below 0.005
Homologous Structures in PDB70 Database Detected by HHsearch
Original result of HHsearch against PDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | ||
1jko_C | 52 | HIN recombinase, DNA-invertase HIN; water-mediated reco | 95.5 | |
1u78_A | 141 | TC3 transposase, transposable element TC3 transposase; | 94.96 | |
1xsv_A | 113 | Hypothetical UPF0122 protein SAV1236; helix-turn-helix, | 92.64 | |
3c57_A | 95 | Two component transcriptional regulatory protein DEVR; | 91.69 | |
1je8_A | 82 | Nitrate/nitrite response regulator protein NARL; protei | 91.22 | |
2elh_A | 87 | CG11849-PA, LD40883P; structural genomics, NPPSFA, nati | 90.2 | |
1s7o_A | 113 | Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042 | 90.04 | |
2k27_A | 159 | Paired box protein PAX-8; paired domain, solution struc | 90.01 |
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C | Back alignment and structure |
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Probab=95.50 E-value=0.0072 Score=39.07 Aligned_cols=34 Identities=12% Similarity=0.329 Sum_probs=31.0 Q ss_pred CCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHH Q ss_conf 77899999999998186588999996785434666 Q gi|254780431|r 3 WTVERIDKLKKFWSEGLSASQIAVQLGGVTRNAVI 37 (178) Q Consensus 3 WTderve~LkkLW~eG~SasqIA~~lGgvtRNAVI 37 (178) -|||.|+.+++|-.+|.|.+|||+.+| |||.-+- T Consensus 6 Lt~~q~~~a~~l~~~G~s~~~iA~~~g-Vsr~TlY 39 (52) T 1jko_C 6 INKHEQEQISRLLEKGHPRQQLAIIFG-IGVSTLY 39 (52) T ss_dssp SCTTHHHHHHHHHHTTCCHHHHHHTTS-CCHHHHH T ss_pred CCHHHHHHHHHHHHCCCCHHHHHHHHC-CCHHHHH T ss_conf 999999999999997898999999979-7999999 |
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 | Back alignment and structure |
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>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 | Back alignment and structure |
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>3c57_A Two component transcriptional regulatory protein DEVR; response regulator, two-component regulatory system, DNA- binding protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A | Back alignment and structure |
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>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A | Back alignment and structure |
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>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} | Back alignment and structure |
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>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 | Back alignment and structure |
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>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} | Back alignment and structure |
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Homologous Domains in SCOP and MMDB Database
Detected by RPS-BLAST and HHsearch
Homologous Domains in SCOP70 (Version1.75) Database Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
No hit with e-value below 0.005
Homologous Domains in SCOP70 (Version 1.75) Database Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
Identity | Alignment graph | Length | Definition | Probability |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | ||
d1gdta1 | 43 | gamma,delta resolvase (C-terminal domain) {Escherichia | 97.0 | |
d1ijwc_ | 47 | HIN recombinase (DNA-binding domain) {Synthetic} | 95.7 | |
d1s7oa_ | 106 | Hypothetical protein SPy1201 {Streptococcus pyogenes [T | 92.75 | |
d1xsva_ | 106 | Hypothetical protein SAV1236 {Staphylococcus aureus, st | 92.58 | |
d1rp3a2 | 71 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: | 91.09 | |
d1a04a1 | 67 | Nitrate/nitrite response regulator (NarL) {Escherichia | 90.97 |
>d1gdta1 a.4.1.2 (A:141-183) gamma,delta resolvase (C-terminal domain) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Homeodomain-like family: Recombinase DNA-binding domain domain: gamma,delta resolvase (C-terminal domain) species: Escherichia coli [TaxId: 562] Probab=97.00 E-value=0.00029 Score=46.68 Aligned_cols=28 Identities=32% Similarity=0.676 Sum_probs=25.2 Q ss_pred HHHHHHHHHCCCCHHHHHHHHCCCCHHHH Q ss_conf 99999999818658899999678543466 Q gi|254780431|r 8 IDKLKKFWSEGLSASQIAVQLGGVTRNAV 36 (178) Q Consensus 8 ve~LkkLW~eG~SasqIA~~lGgvtRNAV 36 (178) ++..++|+.+|+++++||++|| ++|..| T Consensus 8 ~~~V~~L~~~G~gat~IAk~lg-I~R~SV 35 (43) T d1gdta1 8 RDAVLNMWQQGLGASHISKTMN-IARSTV 35 (43) T ss_dssp HHHHHHHHHTTCCHHHHHHHHT-CCHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHC-CCHHHH T ss_conf 9999999994898999999979-879999 |
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} | Back information, alignment and structure |
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>d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} | Back information, alignment and structure |
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>d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} | Back information, alignment and structure |
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>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
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>d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
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Homologous Domains in MMDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against MMDB70 database
No hit with e-value below 0.005
Homologous Domains in MMDB70 Database Detected by HHsearch
Original result of HHsearch against MMDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 178 | hypothetical protein CLIBASIA_01580 [Candidatus Liberib | ||
1gdt_A_142-183 | 42 | GD resolvase, protein (gamma delta resolvase); pro | 96.56 | |
1jko_C_ | 52 | HIN recombinase, DNA-invertase HIN; water-mediated | 95.98 | |
2r0q_C_151-209 | 59 | Putative transposon TN552 DNA-invertase BIN3; site | 94.97 | |
1pdn_C_17-69 | 53 | Protein (PRD paired); protein-DNA complex, double | 92.77 | |
2k27_A_1-75 | 75 | Paired box protein PAX-8; paired domain, solution | 91.6 | |
2cfx_A_1-55 | 55 | HTH-type transcriptional regulator LRPC; transcrip | 91.0 | |
2oqg_A_1-79 | 79 | Possible transcriptional regulator, ARSR family pr | 91.0 | |
1u78_A_1-53 | 53 | TC3 transposase, transposable element TC3 transpos | 90.56 | |
1rp3_A_90-239 | 150 | RNA polymerase sigma factor sigma-28 (FLIA); trans | 90.46 |
>1gdt_A (A:142-183) GD resolvase, protein (gamma delta resolvase); protein-DNA complex, double helix, overhanging base, DNA binding protein/DNA complex; 3.00A {Escherichia coli} | Back alignment and structure |
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Probab=96.56 E-value=0.0022 Score=43.44 Aligned_cols=29 Identities=31% Similarity=0.645 Sum_probs=25.3 Q ss_pred HHHHHHHHHCCCCHHHHHHHHCCCCHHHHH Q ss_conf 999999998186588999996785434666 Q gi|254780431|r 8 IDKLKKFWSEGLSASQIAVQLGGVTRNAVI 37 (178) Q Consensus 8 ve~LkkLW~eG~SasqIA~~lGgvtRNAVI 37 (178) .+....|+.+|+++++||++|| ++|..|- T Consensus 7 ~~~V~~L~~~G~g~t~IAk~Lg-I~R~sVY 35 (42) T 1gdt_A 7 RDAVLNMWQQGLGASHISKTMN-IARSTVY 35 (42) T ss_dssp HHHHHHHHHTTCCHHHHHHHHT-CCHHHHH T ss_pred HHHHHHHHHCCCCHHHHHHHHC-CCHHHHH T ss_conf 9999999987999999999989-2999999 |
>1jko_C (C:) HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} | Back alignment and structure |
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>2r0q_C (C:151-209) Putative transposon TN552 DNA-invertase BIN3; site-specific recombinase, resolvase, DNA-binding protein, protein-DNA complex, DNA integration, DNA invertase, DNA recombination; 3.20A {Staphylococcus aureus} | Back alignment and structure |
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>1pdn_C (C:17-69) Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} | Back alignment and structure |
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>2k27_A (A:1-75) Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} | Back alignment and structure |
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>2cfx_A (A:1-55) HTH-type transcriptional regulator LRPC; transcriptional regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis} | Back alignment and structure |
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>2oqg_A (A:1-79) Possible transcriptional regulator, ARSR family protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP} | Back alignment and structure |
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>1u78_A (A:1-53) TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} | Back alignment and structure |
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>1rp3_A (A:90-239) RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} | Back alignment and structure |
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