254781190
hypothetical protein CLIBASIA_05485
GeneID in NCBI database: | 8210215 | Locus tag: | CLIBASIA_05485 |
Protein GI in NCBI database: | 254781190 | Protein Accession: | YP_003065603.1 |
Gene range: | -(1189297, 1189998) | Protein Length: | 233aa |
Gene description: | hypothetical protein | ||
COG prediction: | none | ||
KEGG prediction: | hypothetical protein | ||
SEED prediction: | DR0530-like primase | ||
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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | |||
254781225 | 789 | P4 family phage/plasmid primase [Candidatus Liberi | 3e-81 |
>gi|254781225|ref|YP_003065638.1| P4 family phage/plasmid primase [Candidatus Liberibacter asiaticus str. psy62] Length = 789 | Back alignment |
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Score = 292 bits (748), Expect = 3e-81, Method: Compositional matrix adjust. Identities = 132/233 (56%), Positives = 169/233 (72%) Query: 1 MVATDVDHYVYNGFGILCGIGTHPVYAFDVDVLDEQVVDRFNNEFQSCCGKPISRVGQAP 60 + + +D GFG +CG+G P+YAFD+D DE+ + F + F+ G PI R+GQ P Sbjct: 41 LSSEKIDKLPACGFGFVCGVGEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKP 100 Query: 61 KTLMLFRMQETNLKKQKSEEKIQGHLEFLAYGQQFVAYNIHPKTQRAYTWSIAPHALKVE 120 K L+ FRM + +KK+K+ E QGHL+ L GQ FVAYNIHPKT++ YTW+ PH KVE Sbjct: 101 KILIPFRMNKEGIKKKKTTESTQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVE 160 Query: 121 ELPLLTPDEVEYFFEFFDTITTPRDKEKSYRKLSKIWKSHNNRRYTNIEIRAFLSCFGEE 180 + PLL+ ++VEY F+FF IT P K+K SK W ++NNR+YTN EI AFLSCFGEE Sbjct: 161 DTPLLSEEDVEYLFKFFQEITVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEE 220 Query: 181 FYNGSHDEWIPVVMAIHYETRGSAEGKEIVREWCKLGRTYDEKSFNAKWDSFD 233 FYNGSHDEWIPVVMA+H+ETRGS++GKEI R W K G TYDE++FN KWD+FD Sbjct: 221 FYNGSHDEWIPVVMAVHHETRGSSKGKEIARRWSKQGSTYDEENFNYKWDTFD 273 |
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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | |||
254781225 | 789 | P4 family phage/plasmid primase [Candidatus Liberibacte | 1 | 2e-77 | |
317120690 | 790 | phage associated primase [Liberibacter phage SC1] Lengt | 1 | 3e-77 | |
317120732 | 790 | phage associated primase/P4 family phage/plasmid primas | 1 | 2e-66 | |
315121955 | 686 | P4 family phage/plasmid primase [Candidatus Liberibacte | 1 | 2e-51 | |
315122923 | 356 | P4 family phage/plasmid primase [Candidatus Liberibacte | 1 | 3e-51 | |
41179390 | 854 | Bbp29 [Bordetella phage BPP-1] Length = 854 | 1 | 7e-23 | |
91214217 | 843 | DR0530-like primase [Burkholderia phage BcepNazgul] Len | 1 | 9e-16 | |
254463719 | 890 | Primase C terminal 2 family [Rhodobacterales bacterium | 1 | 2e-15 | |
269975282 | 554 | primase [Staphylococcus phage SA1] Length = 554 | 1 | 2e-14 | |
150396564 | 793 | hypothetical protein Smed_1346 [Sinorhizobium medicae W | 1 | 1e-12 |
>gi|254781225|ref|YP_003065638.1| P4 family phage/plasmid primase [Candidatus Liberibacter asiaticus str. psy62] Length = 789 | Back alignment and organism information |
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Score = 292 bits (748), Expect = 2e-77, Method: Compositional matrix adjust. Identities = 132/233 (56%), Positives = 169/233 (72%) Query: 1 MVATDVDHYVYNGFGILCGIGTHPVYAFDVDVLDEQVVDRFNNEFQSCCGKPISRVGQAP 60 + + +D GFG +CG+G P+YAFD+D DE+ + F + F+ G PI R+GQ P Sbjct: 41 LSSEKIDKLPACGFGFVCGVGEQPLYAFDIDSKDEKTANTFKDTFEILHGTPIVRIGQKP 100 Query: 61 KTLMLFRMQETNLKKQKSEEKIQGHLEFLAYGQQFVAYNIHPKTQRAYTWSIAPHALKVE 120 K L+ FRM + +KK+K+ E QGHL+ L GQ FVAYNIHPKT++ YTW+ PH KVE Sbjct: 101 KILIPFRMNKEGIKKKKTTESTQGHLDILGCGQYFVAYNIHPKTKKEYTWTTPPHRFKVE 160 Query: 121 ELPLLTPDEVEYFFEFFDTITTPRDKEKSYRKLSKIWKSHNNRRYTNIEIRAFLSCFGEE 180 + PLL+ ++VEY F+FF IT P K+K SK W ++NNR+YTN EI AFLSCFGEE Sbjct: 161 DTPLLSEEDVEYLFKFFQEITVPLVKDKKSIIPSKTWTNNNNRQYTNREITAFLSCFGEE 220 Query: 181 FYNGSHDEWIPVVMAIHYETRGSAEGKEIVREWCKLGRTYDEKSFNAKWDSFD 233 FYNGSHDEWIPVVMA+H+ETRGS++GKEI R W K G TYDE++FN KWD+FD Sbjct: 221 FYNGSHDEWIPVVMAVHHETRGSSKGKEIARRWSKQGSTYDEENFNYKWDTFD 273 |
Species: Candidatus Liberibacter asiaticus Genus: Candidatus Liberibacter Family: Rhizobiaceae Order: Rhizobiales Class: Alphaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
>gi|317120690|gb|ADV02513.1| phage associated primase [Liberibacter phage SC1] Length = 790 | Back alignment and organism information |
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>gi|317120732|gb|ADV02554.1| phage associated primase/P4 family phage/plasmid primase [Liberibacter phage SC2] Length = 790 | Back alignment and organism information |
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>gi|315121955|ref|YP_004062444.1| P4 family phage/plasmid primase [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 686 | Back alignment and organism information |
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>gi|315122923|ref|YP_004063412.1| P4 family phage/plasmid primase [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 356 | Back alignment and organism information |
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>gi|41179390|ref|NP_958698.1| Bbp29 [Bordetella phage BPP-1] Length = 854 | Back alignment and organism information |
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>gi|91214217|ref|NP_919008.2| DR0530-like primase [Burkholderia phage BcepNazgul] Length = 843 | Back alignment and organism information |
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>gi|254463719|ref|ZP_05077130.1| Primase C terminal 2 family [Rhodobacterales bacterium Y4I] Length = 890 | Back alignment and organism information |
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>gi|269975282|gb|ACZ55506.1| primase [Staphylococcus phage SA1] Length = 554 | Back alignment and organism information |
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>gi|150396564|ref|YP_001327031.1| hypothetical protein Smed_1346 [Sinorhizobium medicae WSM419] Length = 793 | 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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | ||
pfam08707 | 74 | pfam08707, PriCT_2, Primase C terminal 2 (PriCT-2) | 1e-04 |
>gnl|CDD|149686 pfam08707, PriCT_2, Primase C terminal 2 (PriCT-2) | 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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | ||
cd04859 | 152 | Prim_Pol Prim_Pol: Primase-polymerase (primpol) domain | 99.85 | |
pfam09250 | 161 | Prim-Pol Bifunctional DNA primase/polymerase, N-termina | 99.78 | |
cd00525 | 136 | AE_Prim_S_like AE_Prim_S_like: primase domain similar t | 99.09 | |
pfam08707 | 74 | PriCT_2 Primase C terminal 2 (PriCT-2). This alpha heli | 99.7 | |
pfam08800 | 136 | VirE_N VirE N-terminal domain. This presumed domain is | 90.01 |
>cd04859 Prim_Pol Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol) | Back alignment and domain information |
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>pfam09250 Prim-Pol Bifunctional DNA primase/polymerase, N-terminal | Back alignment and domain information |
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>cd00525 AE_Prim_S_like AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases | Back alignment and domain information |
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>pfam08707 PriCT_2 Primase C terminal 2 (PriCT-2) | Back alignment and domain information |
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>pfam08800 VirE_N VirE N-terminal domain | 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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | ||
1ro2_A | 216 | Hypothetical protein ORF904; DNA polymerase, primase, r | 99.68 | |
3m1m_A | 335 | ORF904; primase, polymerase, plasmid, replication; 1.85 | 99.56 | |
3h20_A | 323 | Replication protein B; primase, nucleotidyltransferase, | 96.22 |
>1ro2_A Hypothetical protein ORF904; DNA polymerase, primase, replication, polymerization, evolution of nucleic acid polymerizing enzymes; 1.60A {Sulfolobus islandicus} SCOP: d.264.1.2 PDB: 1ro0_A 1rni_A | Back alignment and structure |
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Probab=99.68 E-value=1.5e-17 Score=119.01 Aligned_cols=105 Identities=9% Similarity=0.080 Sum_probs=68.7 Q ss_pred HHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHH---HHHHHHHCCCCEEEECCCCCEEEEEECCCCCCCCCCC Q ss_conf 3787518616-88997078848889999548984678999---9977640898629867889539998447431243357 Q gi|254781190|r 3 ATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRF---NNEFQSCCGKPISRVGQAPKTLMLFRMQETNLKKQKS 78 (233) Q Consensus 3 a~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~---~~~~~~~~~~~~~~~g~~~~~~~lfr~~~~~~~~~~~ 78 (233) ..+++++|.+ ||||+||+ + ++++||||.. .....+ ..+.+.+..+++++++ .++.|+||+.++.+..+... T Consensus 47 ~~w~~~~p~~~NiGI~tG~-s-glvViDiD~~--~~~~~~~~~~~l~~~~~~T~~v~Tp-sGG~HlYf~~~~~p~~~~~~ 121 (216) T 1ro2_A 47 QRFLKMIEEGYNYAIPGGQ-K-GMVIMDFESK--EKLKAWIGESALEELCRKTLCTNTV-HGGIHIYVLSNDIPPHKINP 121 (216) T ss_dssp HHHHHHHHHTCEEEEESSG-G-GEEEEEESCH--HHHHHHHCHHHHHHHHHHSCEEECT-TSCEEEEEECSCCCSSCCCC T ss_pred HHHHHHCCCCCEEEEECCC-C-CEEEEECCCC--CHHHHHHHHHHHHHCCCCCEEEECC-CCEEEEEEECCCCCCCCCCC T ss_conf 9999859975559998178-8-8899978885--2066665556666208886699889-98589999778878554365 Q ss_pred C--CCCCCCEEEEECCCEEEECCC-----C-CCCCCCEEEEC Q ss_conf 7--767663589845832895366-----8-88888457421 Q gi|254781190|r 79 E--EKIQGHLEFLAYGQQFVAYNI-----H-PKTQRAYTWSI 112 (233) Q Consensus 79 ~--~~~~~~iEi~~~g~q~V~~g~-----h-p~Tg~~Y~W~~ 112 (233) . ......||||+.|+|||+||| | +.++.+|+|.+ T Consensus 122 ~~~~~g~~~iDir~~ggYVVaPgS~i~h~~~~~~~~~~~~~~ 163 (216) T 1ro2_A 122 LFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQN 163 (216) T ss_dssp SEESSSSEEEEEECTTCEEECTTCEEEGGGCCSTTCTTTTCS T ss_pred CEECCCCCEEEEEECCCEEEECCEECCCCCCCCCCCCCCCCC T ss_conf 332389844899716988995581035666787777745787 |
>3m1m_A ORF904; primase, polymerase, plasmid, replication; 1.85A {Sulfolobus islandicus} | Back alignment and structure |
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>3h20_A Replication protein B; primase, nucleotidyltransferase, helix-bundle-domain; 1.99A {Plasmid RSF1010} PDB: 3h25_A | 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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | ||
d1ro0a_ | 210 | Bifunctional DNA primase/polymerase N-terminal domain { | 99.7 |
>d1ro0a_ d.264.1.2 (A:) Bifunctional DNA primase/polymerase N-terminal domain {Archaeon Sulfolobus islandicus [TaxId: 43080]} | Back information, alignment and structure |
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class: Alpha and beta proteins (a+b) fold: Prim-pol domain superfamily: Prim-pol domain family: Bifunctional DNA primase/polymerase N-terminal domain domain: Bifunctional DNA primase/polymerase N-terminal domain species: Archaeon Sulfolobus islandicus [TaxId: 43080] Probab=99.70 E-value=4.4e-18 Score=120.68 Aligned_cols=105 Identities=10% Similarity=0.066 Sum_probs=69.8 Q ss_pred HHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHHH---HHHHHHCCCCEEEECCCCCEEEEEECCCCCCCCCCC Q ss_conf 3787518616-889970788488899995489846789999---977640898629867889539998447431243357 Q gi|254781190|r 3 ATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRFN---NEFQSCCGKPISRVGQAPKTLMLFRMQETNLKKQKS 78 (233) Q Consensus 3 a~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~~---~~~~~~~~~~~~~~g~~~~~~~lfr~~~~~~~~~~~ 78 (233) ..+++++|.+ ||||+||. + |+++||||.. .....+. .+...+..+.+++++ .+++|+||+.++.+..+... T Consensus 47 ~~w~~~~p~~~NiGi~~G~-s-glVViDiD~~--~~~~~~~~~~~l~~~~~~T~~v~Tp-sGG~HlYf~~~e~p~~~~~~ 121 (210) T d1ro0a_ 47 QRFLKMIEEGYNYAIPGGQ-K-GMVIMDFESK--EKLKAWIGESALEELCRKTLCTNTV-HGGIHIYVLSNDIPPHKINP 121 (210) T ss_dssp HHHHHHHHTTCEEEEESSG-G-GEEEEEESCH--HHHHHHHCHHHHHHHHHHSCEEECT-TSCEEEEEECSSCCSSCCCC T ss_pred HHHHHHCCCCCEEEEECCC-C-CEEEEECCCC--HHHHHHHHHHHHHCCCCCCEEEECC-CCCEEEEEECCCCCCCCCCC T ss_conf 9998749875548996377-7-7899987882--3455541004554348887599879-99189999878877542134 Q ss_pred C--CCCCCCEEEEECCCEEEECCC-----CCCC-CCCEEEEC Q ss_conf 7--767663589845832895366-----8888-88457421 Q gi|254781190|r 79 E--EKIQGHLEFLAYGQQFVAYNI-----HPKT-QRAYTWSI 112 (233) Q Consensus 79 ~--~~~~~~iEi~~~g~q~V~~g~-----hp~T-g~~Y~W~~ 112 (233) . ......|||++.|+|||+||| |++| +.+|+|.+ T Consensus 122 ~~~~~g~~~iDir~~g~yVv~PpS~~~h~h~~~~~~~~~~~~ 163 (210) T d1ro0a_ 122 LFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQN 163 (210) T ss_dssp SEEETTEEEEEEECTTCEEECTTCEEEGGGCCSTTCTTTTCS T ss_pred CEECCCCCEEEEEEECCEEEECCCCCCCCCCCCCCCCCCCCC T ss_conf 466178735889700898995574246635677777641555 |
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 | 233 | hypothetical protein CLIBASIA_05485 [Candidatus Liberib | ||
1ro2_A_ | 216 | Hypothetical protein ORF904; DNA polymerase, prima | 99.78 |
>1ro2_A (A:) Hypothetical protein ORF904; DNA polymerase, primase, replication, polymerization, evolution of nucleic acid polymerizing enzymes; 1.60A {Sulfolobus islandicus} | Back alignment and structure |
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Probab=99.78 E-value=9.5e-20 Score=132.51 Aligned_cols=135 Identities=11% Similarity=0.132 Sum_probs=89.9 Q ss_pred CHHHHHCCCCC-CEEEEECCCCCCEEEEEEECCCHHHHHHHHHH---HHHHCCCCEEEECCCCCEEEEEECCCCCCCCCC Q ss_conf 23787518616-88997078848889999548984678999997---764089862986788953999844743124335 Q gi|254781190|r 2 VATDVDHYVYN-GFGILCGIGTHPVYAFDVDVLDEQVVDRFNNE---FQSCCGKPISRVGQAPKTLMLFRMQETNLKKQK 77 (233) Q Consensus 2 va~~~~~~p~~-giGi~~G~~s~~l~~iDiD~~d~~~~~~~~~~---~~~~~~~~~~~~g~~~~~~~lfr~~~~~~~~~~ 77 (233) |..++..+|.+ ||||.||. .++++||+|. ......+..+ ...+..++.++++ ++++|+|||+|+....+.. T Consensus 46 i~~w~~~~p~~~nigi~~G~--~~~vviD~D~--~~g~~~~~~l~~~~~~l~~t~~~~T~-~gG~h~~f~~p~~~~~~~~ 120 (216) T 1ro2_A 46 KQRFLKMIEEGYNYAIPGGQ--KGMVIMDFES--KEKLKAWIGESALEELCRKTLCTNTV-HGGIHIYVLSNDIPPHKIN 120 (216) T ss_dssp HHHHHHHHHHTCEEEEESSG--GGEEEEEESC--HHHHHHHHCHHHHHHHHHHSCEEECT-TSCEEEEEECSCCCSSCCC T ss_pred HHHHHHHCCCCCEEEEECCC--CCEEEEECCC--CCHHHHHHHHHHHHHCCCCCEEEECC-CCCEEEEEECCCCCCCCCC T ss_conf 99999849975659996487--7789998888--52034442224566238886489858-9917999976888865315 Q ss_pred C--CCCCCCCEEEEECCCEEEECCC----CCCCCCCEEEECCCCC---CCHHHCCCCCHHHHHHHHHHHHHHC Q ss_conf 7--7767663589845832895366----8888884574216776---8822367689999999997544201 Q gi|254781190|r 78 S--EEKIQGHLEFLAYGQQFVAYNI----HPKTQRAYTWSIAPHA---LKVEELPLLTPDEVEYFFEFFDTIT 141 (233) Q Consensus 78 ~--~~~~~~~iEi~~~g~q~V~~g~----hp~Tg~~Y~W~~~~~~---~~~~~lP~~~~~~l~~~~~~~~~~~ 141 (233) . ......+||||+.|+|+|+||| ||.||+.|+|..++.. .+...++.+....+..+........ T Consensus 121 ~~~~~~~~~gvdir~~g~~vV~ppS~~~~~~~~g~~Y~w~~~~~~~~~~p~~~~~~l~~~~~~~~~~~~~~~~ 193 (216) T 1ro2_A 121 PLFEENGKGIIDLQSYNSYVLGLGSCVNHLHCTTDKCPWKEQNYTTCYTLYNELKEISKVDLKSLLRFLAEKG 193 (216) T ss_dssp CSEESSSSEEEEEECTTCEEECTTCEEEGGGCCSTTCTTTTCSCEEECEESSSCCCCEECCHHHHHHHHHHHH T ss_pred CCEECCCCCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH T ss_conf 5443278842889836988996361046646787766524566556676743335554255367899999877 |