Citrus Sinensis ID: 012939

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-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450---

MEIVRSQRSRTNTPNDSVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKRPEEMENLVRDLWKANMRHPEASEDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSCDAGINHPNQYFSDSHKILQPKVEIVI

ccEEcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEcccccHHHHHcccEEEEEccEEEEEHHcHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccccccHHcHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccccccccccEEEEEEccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccccccc

ccEEEcccEccccccccccccEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHcccccccccccccEEEEEcHHHHHHHHHccEEEEEccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHcHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHcccHHHHcHHHEEEEEHcccccccccccccccHHHHHccccccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHcccEEEEEEEEEEEEcccccccccccccHHHHHHHHHHcccccEEc

meivrsqrsrtntpndsvstlplyryapqlevRLEDFEVFAMDRLRVLKGISDalargkrpeEMENLVRDLWKAnmrhpeasedvnKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEefdlpckaiSRTEFENAKEKLEQVARsfdqplptadaifykvpfeevpelvaGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSmsylgpdysqtkefgeisiKDLDQLARSSFPLCMRHLFDKlredhhlkhggrMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHnygkegkrtdytpyscqkiisstpgvgdhhgcpyrhfsEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFeavhssscdaginhpnqyfsdshkilqpkveivi

meivrsqrsrtntpndsvstlplyrYAPQLEVRLEDFEVFAMDRLRVLKGIsdalargkrpeemENLVRDLWKANMRhpeasedvnkdiiSHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSkaliltnrkwtstireqerdrltPIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFsqkvgaerfdkeyAYSIrhnygkegkrtdytPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSCDAGINHPnqyfsdshkilqpkveivi

*******************TLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALA**********LVRDLWKA**********VNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISR****************FDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSCDAGINHPNQYF***************

*******************TLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALA**K***************************KDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSM*******************DLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALG**GV**********KVRNRHYQLACTLTFEAVHSSSCDAGINHPNQYFSDSHKILQP******

****************SVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKRPEEMENLVRDLWKANMRHPEASEDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSCDAGINHPNQYFSDSHKILQPKVEIVI

********SRTNTPNDSVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKRPEEMENLVRDLWKANMRHPEASEDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSCDAGINHPNQYFSDSHKILQPKVEIV*

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		453	2.2.26 [Sep-21-2011]
Q84WJ2		454	Probable DNA primase larg	yes	no	0.991	0.988	0.706	0.0
P33610		505	DNA primase large subunit	yes	no	0.931	0.835	0.416	3e-94
O89044		507	DNA primase large subunit	yes	no	0.931	0.832	0.413	5e-93
P49643		509	DNA primase large subunit	yes	no	0.929	0.827	0.414	7e-92
O74761		459	DNA primase large subunit	yes	no	0.940	0.928	0.382	2e-82
Q9VPH2		533	DNA primase large subunit	yes	no	0.909	0.772	0.375	4e-79
P20457		528	DNA primase large subunit	yes	no	0.927	0.795	0.370	4e-76
Q8NIZ4		513	Probable DNA primase larg	N/A	no	0.920	0.812	0.354	2e-64
O02334		503	DNA primase large subunit	yes	no	0.964	0.868	0.309	5e-60
Q55BM5		470	DNA primase large subunit	yes	no	0.955	0.921	0.323	2e-59

>sp\|Q84WJ2\|PRI2_ARATH Probable DNA primase large subunit OS=Arabidopsis thaliana GN=At1g67320 PE=2 SV=2	Back alignment and function desciption

 Score =  684 bits (1764), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 317/449 (70%), Positives = 380/449 (84%)

Query: 1   MEIVRSQRSRTNTPNDSVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKR 60
           ME++RSQ+   +    S  TLPLY  AP +EVRLE+FE+FA+DRLRVLKG+SD LAR + 
Sbjct: 1   MEVIRSQKRTVSNDVVSTPTLPLYLTAPHMEVRLEEFELFAIDRLRVLKGVSDGLARARN 60

Query: 61  PEEMENLVRDLWKANMRHPEASEDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYR 120
           P EM++LV  LWK +MR    SE +NKDIISHFVLRLVYCR+++L+KWFLSMETAL+R+R
Sbjct: 61  PNEMDDLVETLWKEHMRLSNVSEMINKDIISHFVLRLVYCRSDELKKWFLSMETALFRHR 120

Query: 121 FLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEE 180
           F L   E +RA++ EF LP KA+   E E+ KE+L  VARS  Q     + I+YKVPFEE
Sbjct: 121 FRLKKIEEQRAIVGEFGLPYKAVIGAELESLKERLGLVARSHGQISSDVENIYYKVPFEE 180

Query: 181 VPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLT 240
           VP+LVA RRV + KG A+VA  Q+VSLVVTQFRS+LSKALILTNRKWT+TIRE+E+DRLT
Sbjct: 181 VPDLVASRRVLLQKGFAFVAGTQLVSLVVTQFRSHLSKALILTNRKWTTTIREREKDRLT 240

Query: 241 PIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRM 300
           PIVEALS SYLGPDYSQ+ E+ +IS+KD+DQ+++SSFPLCMRHLF+KLREDHHLKHGGRM
Sbjct: 241 PIVEALSTSYLGPDYSQSNEYADISLKDIDQVSKSSFPLCMRHLFEKLREDHHLKHGGRM 300

Query: 301 QLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQ 360
           QLGLFLKGVGL+++DALAFW+ EF++KVG+ERFDKEYAY+IRHNYGKEGKRTDYTPY+C 
Sbjct: 301 QLGLFLKGVGLKLDDALAFWREEFTKKVGSERFDKEYAYAIRHNYGKEGKRTDYTPYACS 360

Query: 361 KIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFE 420
           KII+S PG GDHHGCPYRHFSE+NL+AAL RMG+ SR MEDV+DKVRNRHYQLACTLTFE
Sbjct: 361 KIITSAPGAGDHHGCPYRHFSEDNLKAALSRMGLSSRGMEDVMDKVRNRHYQLACTLTFE 420

Query: 421 AVHSSSCDAGINHPNQYFSDSHKILQPKV 449
           AV+ +SCD GINHPNQYF +S KIL+ K 
Sbjct: 421 AVYGTSCDTGINHPNQYFEESQKILKSKT 449

DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: -

>sp\|P33610\|PRI2_MOUSE DNA primase large subunit OS=Mus musculus GN=Prim2 PE=1 SV=1	Back alignment and function description

>sp\|O89044\|PRI2_RAT DNA primase large subunit OS=Rattus norvegicus GN=Prim2 PE=2 SV=1	Back alignment and function description

>sp\|P49643\|PRI2_HUMAN DNA primase large subunit OS=Homo sapiens GN=PRIM2 PE=1 SV=2	Back alignment and function description

>sp\|O74761\|PRI2_SCHPO DNA primase large subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pri2 PE=1 SV=1	Back alignment and function description

>sp\|Q9VPH2\|PRI2_DROME DNA primase large subunit OS=Drosophila melanogaster GN=DNApol-alpha60 PE=1 SV=2	Back alignment and function description

>sp\|P20457\|PRI2_YEAST DNA primase large subunit OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRI2 PE=1 SV=1	Back alignment and function description

>sp\|Q8NIZ4\|PRI2_NEUCR Probable DNA primase large subunit OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=5F3.150 PE=3 SV=1	Back alignment and function description

>sp\|O02334\|PRI2_CAEEL DNA primase large subunit OS=Caenorhabditis elegans GN=pri-2 PE=2 SV=2	Back alignment and function description

>sp\|Q55BM5\|PRI2_DICDI DNA primase large subunit OS=Dictyostelium discoideum GN=prim2 PE=3 SV=1	Back alignment and function description

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
Query		453
225433446		452	PREDICTED: probable DNA primase large su	0.991	0.993	0.84	0.0
356512402		457	PREDICTED: probable DNA primase large su	0.988	0.980	0.792	0.0
356528268		480	PREDICTED: probable DNA primase large su	0.993	0.937	0.784	0.0
255547664		444	DNA primase large subunit, putative [Ric	0.977	0.997	0.801	0.0
343172366		450	DNA primase large subunit, partial [Sile	0.986	0.993	0.783	0.0
343172368		450	DNA primase large subunit, partial [Sile	0.986	0.993	0.779	0.0
357520415		453	hypothetical protein MTR_8g097160 [Medic	0.993	0.993	0.783	0.0
224072556		453	predicted protein [Populus trichocarpa]	0.991	0.991	0.807	0.0
449445552		452	PREDICTED: probable DNA primase large su	0.986	0.988	0.756	0.0
224029251		463	unknown [Zea mays] gi\|413916162\|gb\|AFW56	0.986	0.965	0.732	0.0

>gi\|225433446\|ref\|XP_002285679.1\| PREDICTED: probable DNA primase large subunit [Vitis vinifera] gi\|297741936\|emb\|CBI33371.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  799 bits (2064), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 378/450 (84%), Positives = 419/450 (93%), Gaps = 1/450 (0%)

Query: 1   MEIVRSQRSRTNTPNDSVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKR 60
           MEI+RSQR R++  +D VSTLPLYR AP L+VRLEDFE+FA+DRLRVLKGISD L+RGK+
Sbjct: 1   MEIIRSQR-RSSKVDDVVSTLPLYRSAPPLQVRLEDFELFAIDRLRVLKGISDGLSRGKK 59

Query: 61  PEEMENLVRDLWKANMRHPEASEDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYR 120
           P+EME LV DLWKANMRHP+ASE VNKDIISHFVLRLVYCRTE+LRKWFLSMETAL+R+R
Sbjct: 60  PDEMEKLVSDLWKANMRHPQASEFVNKDIISHFVLRLVYCRTEELRKWFLSMETALFRHR 119

Query: 121 FLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEE 180
           F L + EA+R L+ EFD P KA+S  EFE+ KEKL QVARSF Q LP+ADAI++KVPFEE
Sbjct: 120 FRLETPEAQRVLLAEFDHPYKAVSHAEFESVKEKLGQVARSFGQSLPSADAIYFKVPFEE 179

Query: 181 VPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLT 240
           VPELVAGRRV++ KGHAYVAM+QVVSLVVTQFRS+LSKAL+LTNRKWTSTIREQE++RLT
Sbjct: 180 VPELVAGRRVFLQKGHAYVAMNQVVSLVVTQFRSHLSKALVLTNRKWTSTIREQEKERLT 239

Query: 241 PIVEALSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRM 300
           PIVEALS SYLGPDYSQ +EF EISIKD+DQ+A SSFPLCMRHLF+KLREDHHLKHGGRM
Sbjct: 240 PIVEALSTSYLGPDYSQPREFVEISIKDIDQVANSSFPLCMRHLFEKLREDHHLKHGGRM 299

Query: 301 QLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQ 360
           QLGLFLKGVGL+++DALAFWKAEFSQKVG+ERFDKEYAYSIRHNYGKEGKRTDYTPYSCQ
Sbjct: 300 QLGLFLKGVGLKLDDALAFWKAEFSQKVGSERFDKEYAYSIRHNYGKEGKRTDYTPYSCQ 359

Query: 361 KIISSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFE 420
           KIISSTPGVGDHHGCPYRHFSEENLRAALG+MGVG+RAMEDV+DKVRNRHYQLACTLTFE
Sbjct: 360 KIISSTPGVGDHHGCPYRHFSEENLRAALGKMGVGNRAMEDVMDKVRNRHYQLACTLTFE 419

Query: 421 AVHSSSCDAGINHPNQYFSDSHKILQPKVE 450
           AVH SSCDAGINHPNQYFSDS KIL PKV+
Sbjct: 420 AVHGSSCDAGINHPNQYFSDSQKILHPKVD 449

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356512402\|ref\|XP_003524908.1\| PREDICTED: probable DNA primase large subunit-like [Glycine max]	Back alignment and taxonomy information

>gi\|356528268\|ref\|XP_003532726.1\| PREDICTED: probable DNA primase large subunit-like [Glycine max]	Back alignment and taxonomy information

>gi\|255547664\|ref\|XP_002514889.1\| DNA primase large subunit, putative [Ricinus communis] gi\|223545940\|gb\|EEF47443.1\| DNA primase large subunit, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|343172366\|gb\|AEL98887.1\| DNA primase large subunit, partial [Silene latifolia]	Back alignment and taxonomy information

>gi\|343172368\|gb\|AEL98888.1\| DNA primase large subunit, partial [Silene latifolia]	Back alignment and taxonomy information

>gi\|357520415\|ref\|XP_003630496.1\| hypothetical protein MTR_8g097160 [Medicago truncatula] gi\|355524518\|gb\|AET04972.1\| hypothetical protein MTR_8g097160 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|224072556\|ref\|XP_002303780.1\| predicted protein [Populus trichocarpa] gi\|222841212\|gb\|EEE78759.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449445552\|ref\|XP_004140536.1\| PREDICTED: probable DNA primase large subunit-like [Cucumis sativus] gi\|449521050\|ref\|XP_004167544.1\| PREDICTED: LOW QUALITY PROTEIN: probable DNA primase large subunit-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|224029251\|gb\|ACN33701.1\| unknown [Zea mays] gi\|413916162\|gb\|AFW56094.1\| hypothetical protein ZEAMMB73_117262 [Zea mays]	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
Query		453
ZFIN\|ZDB-GENE-050522-471		508	zgc:110727 "zgc:110727" [Danio	0.924	0.824	0.439	3.4e-93
UNIPROTKB\|E1BVW7		509	PRIM2 "Uncharacterized protein	0.942	0.838	0.442	2.1e-91
UNIPROTKB\|Q5ZM06		508	PRIM2 "Uncharacterized protein	0.942	0.840	0.441	3.5e-91
UNIPROTKB\|A0JNF4		506	PRIM2 "Uncharacterized protein	0.931	0.833	0.427	5.7e-91
UNIPROTKB\|F6XMH3		509	PRIM2 "Uncharacterized protein	0.944	0.840	0.424	5.7e-91
MGI\|MGI:97758		505	Prim2 "DNA primase, p58 subuni	0.931	0.835	0.416	2.2e-89
RGD\|631433		507	Prim2 "primase, DNA, polypepti	0.931	0.832	0.413	1.6e-88
UNIPROTKB\|F1RZV4		506	PRIM2 "Uncharacterized protein	0.931	0.833	0.418	3.2e-88
UNIPROTKB\|P49643		509	PRIM2 "DNA primase large subun	0.927	0.825	0.422	5.3e-88
UNIPROTKB\|Q4V8C0		484	Prim2 "DNA primase large subun	0.841	0.787	0.412	1.2e-81

ZFIN\|ZDB-GENE-050522-471 zgc:110727 "zgc:110727" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

 Score = 928 (331.7 bits), Expect = 3.4e-93, P = 3.4e-93
 Identities = 195/444 (43%), Positives = 283/444 (63%)

Query:    21 LPLYRYAPQLEVRLEDFEVFAMDRLRVLK-----GISDALARGKRPEEMENLVRDL---W 72
             L  Y   P   + L +FE FA++RL++LK     G+S      +  +++E     L   +
Sbjct:    23 LQFYGQPPLDNISLIEFETFAVERLKLLKTVENLGVSYVKTTDQYIKKLEAEFLSLNFPF 82

Query:    73 KANM---RHPEASEDVNK---DIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSS 126
             +A +   + P  + +  K   D ISHF+LRL YC+TEDLR+WF+  E  L+RYRF + SS
Sbjct:    83 RAEVDDRKVPGVTSEYEKRRKDHISHFILRLAYCQTEDLRRWFIQQEMDLFRYRFGILSS 142

Query:   127 EAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLPTADAI-FYKVPFEEVPELV 185
             + K   + + +L  + +S  E +N ++KL  +  S+     T +   FY+VPF++  +LV
Sbjct:   143 KHKTEFLHKNNLKYETVSAEEKKNLRDKL--INSSYGLSGITLEEYDFYRVPFQDALDLV 200

Query:   186 AGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEA 245
               R+VY+  G+AY+  +++V++V+  FR+ LSKAL +T R   +    Q  +RL P++  
Sbjct:   201 RTRKVYLLAGNAYIPQNEIVTIVLNDFRTRLSKALAVTARSLPAV---QSDERLQPLLSH 257

Query:   246 LSMSYLGPDYSQTKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLF 305
             LS +Y+G DYS  K  G+IS++ +D L+  SFPLCMRHL   LRE+HHL+HGGRMQ GLF
Sbjct:   258 LSHAYVGQDYSIQKNVGKISLEQIDPLSGKSFPLCMRHLHKALRENHHLRHGGRMQYGLF 317

Query:   306 LKGVGLRMEDALAFWKAEFSQ-KVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKII- 363
             LKG+GL +E A+ FW++EF + KV A++FDK YAYSIRH +GKEGKRTDYTPYSC K+I 
Sbjct:   318 LKGIGLTLEQAMQFWRSEFVKGKVDADKFDKAYAYSIRHMFGKEGKRTDYTPYSCMKVIL 377

Query:   364 SSTPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVH 423
             S+ P  GD+HGCP+RH   E L+  L    +    +  +++ V+  HYQLAC   FE  H
Sbjct:   378 SNPPSQGDYHGCPFRHSDPELLKQKLQSYKIAPGGINQILELVKGMHYQLACQKYFELTH 437

Query:   424 SSSCDAG--INHPNQYFSDSHKIL 445
             S   DAG  +NHPNQYF++S K+L
Sbjct:   438 SVE-DAGFSLNHPNQYFTESQKLL 460

GO:0003896 "DNA primase activity" evidence=IEA

GO:0006269 "DNA replication, synthesis of RNA primer" evidence=IEA

GO:0016779 "nucleotidyltransferase activity" evidence=IEA

UNIPROTKB\|E1BVW7 PRIM2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5ZM06 PRIM2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|A0JNF4 PRIM2 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F6XMH3 PRIM2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

MGI\|MGI:97758 Prim2 "DNA primase, p58 subunit" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

RGD\|631433 Prim2 "primase, DNA, polypeptide 2" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RZV4 PRIM2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|P49643 PRIM2 "DNA primase large subunit" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|Q4V8C0 Prim2 "DNA primase large subunit" [Rattus norvegicus (taxid:10116)]	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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O74761	PRI2_SCHPO	2, ., 7, ., 7, ., -	0.3822	0.9403	0.9281	yes	no
Q84WJ2	PRI2_ARATH	2, ., 7, ., 7, ., -	0.7060	0.9911	0.9889	yes	no
O02334	PRI2_CAEEL	2, ., 7, ., 7, ., -	0.3096	0.9646	0.8687	yes	no
Q55BM5	PRI2_DICDI	2, ., 7, ., 7, ., -	0.3238	0.9558	0.9212	yes	no
P49643	PRI2_HUMAN	2, ., 7, ., 7, ., -	0.4147	0.9293	0.8271	yes	no
O89044	PRI2_RAT	2, ., 7, ., 7, ., -	0.4137	0.9315	0.8323	yes	no
P33610	PRI2_MOUSE	2, ., 7, ., 7, ., -	0.4160	0.9315	0.8356	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.7	0.691

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
Query		453
cd07322		390	cd07322, PriL_PriS_Eukaryotic, Eukaryotic core pri	0.0
pfam04104		217	pfam04104, DNA_primase_lrg, Eukaryotic and archaea	9e-84
COG2219		363	COG2219, PRI2, Eukaryotic-type DNA primase, large	2e-43
PRK02249		343	PRK02249, PRK02249, DNA primase large subunit; Val	4e-05

>gnl\|CDD\|143474 cd07322, PriL_PriS_Eukaryotic, Eukaryotic core primase: Large subunit, PriL	Back alignment and domain information

 Score =  514 bits (1327), Expect = 0.0
 Identities = 204/421 (48%), Positives = 275/421 (65%), Gaps = 33/421 (7%)

Query: 23  LYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKRPEEMENLVRDLWKANMRHPEAS 82
            Y   P   + LE+FE  A+DRL++L+ I                               
Sbjct: 1   FYDTPPTGNISLEEFEEIAIDRLKLLREIEQLE--------------------------- 33

Query: 83  EDVNKDIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKA 142
           E+  KD ISHF+LRL YCR+E+LR+WF+  ET L+RYR  L S E  +  ++   L  + 
Sbjct: 34  EERRKDHISHFILRLAYCRSEELRRWFVRQETELFRYRLELLSLEGLKQFLKSNGLDYQP 93

Query: 143 ISRTEFENAKEKLEQVARSFDQPLPTADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMH 202
           +S  E E  +E+L + A S  Q    A   FYKVPFEEV +LV  RRV++ KG AYV   
Sbjct: 94  VSDEEKEELREELLKSASSLKQIKIEAT-NFYKVPFEEVLDLVRKRRVFLKKGFAYVPQD 152

Query: 203 QVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALSMSYLGPDYSQTKEFG 262
           ++VSLV+++FRS LSKAL LT R   S  R +E DRL P++++LS SY G DYS+    G
Sbjct: 153 ELVSLVLSKFRSRLSKALALTAR---SLPRLEEDDRLLPLLKSLSKSYTGKDYSKNGNGG 209

Query: 263 EISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKA 322
            +++  +D+L++ SFPLCMR L + LR++HHLKHGGR+QLGLFLKG+GL +E+AL FW++
Sbjct: 210 GLTLSSIDELSKKSFPLCMRQLHEALRKNHHLKHGGRLQLGLFLKGIGLSLEEALKFWRS 269

Query: 323 EFSQKVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISS-TPGVGDHHGCPYRHFS 381
           EF++K+ A++FDKEYAY+IRHNYGKEGKR +YTPYSC KIIS   PG GD HGCP+RHF 
Sbjct: 270 EFTKKMDADKFDKEYAYNIRHNYGKEGKRANYTPYSCSKIISQNPPGPGDCHGCPFRHFD 329

Query: 382 EENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHSSSC-DAGINHPNQYFSD 440
            ++L+  L   G+    +E+++D V++ HYQLACT  FE  H  +  D GINHPNQYF +
Sbjct: 330 SDSLKQLLQSYGLSDSDIEEIIDLVKSGHYQLACTKYFELTHPGAESDTGINHPNQYFEE 389

Query: 441 S 441
           S
Sbjct: 390 S 390

Primases synthesize the RNA primers required for DNA replication. Primases are grouped into two classes, bacteria/bacteriophage and archaeal/eukaryotic. The proteins in the two classes differ in structure and the replication apparatus components. Archaeal/eukaryotic core primase is a heterodimeric enzyme consisting of a small catalytic subunit (PriS) and a large subunit (PriL). In eukaryotic organisms, a heterotetrameric enzyme formed by DNA polymerase alpha, the B subunit and two primase subunits has primase activity. Although the catalytic activity resides within PriS, the PriL subunit is essential for primase function as disruption of the PriL gene in yeast is lethal. PriL is composed of two structural domains. Several functions have been proposed for PriL such as stabilization of the PriS, involvement in synthesis initiation, improvement of primase processivity, determination of product size and transfer of the products to DNA polymerase alpha. Length = 390

>gnl\|CDD\|217896 pfam04104, DNA_primase_lrg, Eukaryotic and archaeal DNA primase, large subunit	Back alignment and domain information

>gnl\|CDD\|225129 COG2219, PRI2, Eukaryotic-type DNA primase, large subunit [DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|179392 PRK02249, PRK02249, DNA primase large subunit; Validated	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		453
KOG2267		475	consensus Eukaryotic-type DNA primase, large subun	100.0
cd07322		390	PriL_PriS_Eukaryotic Eukaryotic core primase: Larg	100.0
PF04104		260	DNA_primase_lrg: Eukaryotic and archaeal DNA prima	100.0
PRK02249		343	DNA primase large subunit; Validated	100.0
COG2219		363	PRI2 Eukaryotic-type DNA primase, large subunit [D	100.0
PRK09568		306	DNA primase large subunit; Reviewed	99.96
cd06560		166	PriL Archaeal/eukaryotic core primase: Large subun	99.83
PRK03968		399	DNA primase large subunit; Validated	99.53

>KOG2267 consensus Eukaryotic-type DNA primase, large subunit [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=1.6e-132  Score=990.68  Aligned_cols=432  Identities=41%  Similarity=0.758  Sum_probs=404.0

Q ss_pred             CCCCCcccCCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHhhhcCCChHHHHHHHHHHHHHhcCC------Cccchhhhh
Q 012939           14 PNDSVSTLPLYRYAPQLEVRLEDFEVFAMDRLRVLKGISDALARGKRPEEMENLVRDLWKANMRH------PEASEDVNK   87 (453)
Q Consensus        14 ~~~~~~~l~fY~~pP~~~i~leefe~~a~dRLkvL~~ie~~~~~~~~~~e~~~~i~~~~~~~~~~------~~~~~~~~k   87 (453)
                      ...+|+.|+||..||.++|||+|||.||||||++|++||++.++++..+|+++.|++.+.|.+.-      ....+.+++
T Consensus        23 ~~~yp~~L~fY~~pp~~~IsleeFe~~AidRlklL~~~E~~~s~~k~~de~~~ii~k~ldk~l~f~~~~k~e~~ye~rrr  102 (475)
T KOG2267|consen   23 KESYPPGLQFYTAPPKSEISLEEFEKWAIDRLKLLKSIENKDSRNKYNDEFKGIIKKCLDKLLPFSDQKKQESLYESRRR  102 (475)
T ss_pred             hccCCcceeeeccCCCCcccHHHHHHHHHHHHHHHHHHhccchhhhhhHHHHHHHHHHHHhhcCCcchhhhhhhhhhHhh
Confidence            55679999999999999999999999999999999999999999999999999999999877622      234588999


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCccCCHHHHHHHHHHHHHHhhhcCCCCC
Q 012939           88 DIISHFVLRLVYCRTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVARSFDQPLP  167 (453)
Q Consensus        88 D~iSHfiLRLa~c~s~elrrwFi~~E~~LF~~R~~~~~~~~~~~fl~~~~l~~~~is~~e~~~~~~~L~~~~~~~~~~~~  167 (453)
                      |||||||||||||||+|+|.||+++|+.|||+||..+....+..||++..+.|+.|+.+|++.+.+.|.+....   ...
T Consensus       103 D~~sHFilRLafcrs~elr~wfv~aE~~llRfRf~~~~~~~~~~fl~~v~~~~e~is~eEk~~~~e~l~As~q~---~l~  179 (475)
T KOG2267|consen  103 DHISHFILRLAFCRSAELRVWFVQAEVDLLRFRFSKEPGGARQFFLSSVDFQMEGISTEEKQVLYEGLRASSQR---NLV  179 (475)
T ss_pred             hhHHHHHhhhhhcCCHHHHHHHHHhhhhheeeEeecCcchHHHHHHHhhhHHHhhccchhhHHHHHHHHHhhcc---Ccc
Confidence            99999999999999999999999999999999999999999999999999999999999999998888876422   112


Q ss_pred             CCCCceEeecccchHhhhcccceEEeccEEEEehhhHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhhhhhchHHHHHHHH
Q 012939          168 TADAIFYKVPFEEVPELVAGRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILTNRKWTSTIREQERDRLTPIVEALS  247 (453)
Q Consensus       168 ~~~~~~ykVpF~~v~~LV~~R~v~l~~G~ayVp~~~l~~lv~~~fr~~L~~~L~~~~~~l~~~i~~de~~Rl~p~l~~L~  247 (453)
                      +..+.||||||++|++||++|.|+|++|+||||.+++++||++.|+++|+++|+.+++.+|. +.+|  +||.|+|++|+
T Consensus       180 ~~~esf~kvpF~~vidLi~~r~V~l~~Gyay~p~~~~vsllv~Ef~~~L~~al~~t~k~Lp~-leeD--eRLlpllnhLs  256 (475)
T KOG2267|consen  180 SANESFYKVPFTKVIDLIGRRAVFLEKGYAYLPFEDIVSLLVNEFRRNLSKALAETAKSLPR-LEED--ERLLPLLNHLS  256 (475)
T ss_pred             cccceeEeechhhHHHHHhcceeeeeCCeEeccHHHHHHHHHHHHHHHHHHHHHHHHhhccc-CCcc--chHHHHHHHhh
Confidence            56789999999999999999999999999999999999999999999999999999999997 5544  59999999999


Q ss_pred             hhhcCCCCCC-ccccccccccchhhhhhccCcHHHHHHHHHHhccCCCCCchhhHHHHHHhhcCCChHHHHHHHHHHhcc
Q 012939          248 MSYLGPDYSQ-TKEFGEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQ  326 (453)
Q Consensus       248 ~~~~~~~~~~-~~~~~~i~~~~id~l~~~~FPpCMr~L~~~Lr~~~hLkH~gR~ql~lFLKgiGls~eeal~fwr~~F~k  326 (453)
                      ..|.|.||+. +.+.+.|++..|+.++..+|||||++||+.||+||||+|+||+||||||||||||+||||+|||.+|+|
T Consensus       257 ~~ytg~d~~~~q~~~~~i~~~~v~sls~r~FppCmk~lhe~LrkNhHLry~gR~qygLFLKgiGLS~deal~fwr~sFtk  336 (475)
T KOG2267|consen  257 AGYTGYDYNGEQPDGGNIVARSVDSLSERSFPPCMKQLHERLRKNHHLRYGGRQQYGLFLKGIGLSVDEALAFWRGSFTK  336 (475)
T ss_pred             cCCccccccCcCCCCCeeehhhHhhhhhhcCcHHHHHHHHHHhhcccccccchhhhhhhhhccCcCHHHHHHHHHHHHhc
Confidence            9999999984 446788999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCccccccccceeeeeeccCCCCCcccCCccchhhhcc-CCCCCCCCCCCCCCCCHHHHHHHHHhCCCCchhHHHHHHH
Q 012939          327 KVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISS-TPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDK  405 (453)
Q Consensus       327 ~~~~~~FdKey~YnIrH~YG~eGkr~~Y~p~sC~kiis~-~p~~g~~hGCPfk~~~~~~L~~~L~~~gi~~~~i~~I~~~  405 (453)
                      +|+.|+|||||+|||||+||+||+|+||+|+||.||++. +||.||+|||||||+|++.|++.|++|||+.++|..|+++
T Consensus       337 ~~t~dkFdKEY~YnIRh~YGlEGkR~nyt~~sC~~Ii~~~~p~~gd~hgCPFr~~~~e~L~qkL~s~~i~~~~I~~i~e~  416 (475)
T KOG2267|consen  337 KMTRDKFDKEYRYNIRHNYGLEGKRANYTPFSCSKIILMNPPSEGDYHGCPFRHSDPEHLKQKLKSMGIDIEQIMGILEL  416 (475)
T ss_pred             cCChhHhchhhceeheeccccccccccCCcccHHHHhcCCCCCCCccCCCCCCCCCHHHHHHHHHhcccCHHHHHHHHHh
Confidence            999999999999999999999999999999999999999 8899999999999999999999999999999999999999


Q ss_pred             hhccchHHHHHHHHHHHcCCCC--CCcccCchHHHHHHHcccCCcccc
Q 012939          406 VRNRHYQLACTLTFEAVHSSSC--DAGINHPNQYFSDSHKILQPKVEI  451 (453)
Q Consensus       406 ~~~~~yq~AC~~~Fe~~h~~~~--~~~i~HPNqYf~~S~~~~~~~~~~  451 (453)
                      ++.+||++|||||||.||+...  +.+|+||||||++|+....++.++
T Consensus       417 ~~~~~Y~iaCTr~fE~~hn~~~~~g~~i~hPnqyf~esqq~e~~~~e~  464 (475)
T KOG2267|consen  417 VKLNHYDIACTRYFEMTHNRKQSIGESIAHPNQYFEESQQPERNQQEI  464 (475)
T ss_pred             hcccchhHHHHHHHHHHhcchhccchhccChHHHHHHhcccccccCCC
Confidence            9999999999999999997653  478999999999999887777654

>cd07322 PriL_PriS_Eukaryotic Eukaryotic core primase: Large subunit, PriL	Back alignment and domain information

>PF04104 DNA_primase_lrg: Eukaryotic and archaeal DNA primase, large subunit; InterPro: IPR007238 DNA primase is the polymerase that synthesises small RNA primers for the Okazaki fragments made during discontinuous DNA replication	Back alignment and domain information

>PRK02249 DNA primase large subunit; Validated	Back alignment and domain information

>COG2219 PRI2 Eukaryotic-type DNA primase, large subunit [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK09568 DNA primase large subunit; Reviewed	Back alignment and domain information

>cd06560 PriL Archaeal/eukaryotic core primase: Large subunit, PriL	Back alignment and domain information

>PRK03968 DNA primase large subunit; Validated	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		453
3q36_A		192	Crystal Structure Of The 4fe-4s Cluster Domain Of H		3e-54
3l9q_A		195	Crystal Structure Of Human Polymerase Alpha-Primase		4e-53
3lgb_A		194	Crystal Structure Of The Fe-S Domain Of The Yeast D		2e-38

>pdb|3Q36|A Chain A, Crystal Structure Of The 4fe-4s Cluster Domain Of Human Dna Primase Large Subunit Length = 192

Back alignment and structure

Iteration: 1

Score = 209 bits (531), Expect = 3e-54, Method: Compositional matrix adjust. Identities = 98/187 (52%), Positives = 131/187 (70%), Gaps = 3/187 (1%) Query: 262 GEISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWK 321 G+IS+ +D L+ SFP CMR L LRE+HHL+HGGRMQ GLFLKG+GL +E AL FWK Sbjct: 4 GKISLDQIDLLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTLEQALQFWK 63 Query: 322 AEFSQ-KVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKII-SSTPGVGDHHGCPYRH 379 EF + K+ ++FDK Y+Y+IRH++GKEGKRTDYTP+SC KII S+ P GD+HGCP+RH Sbjct: 64 QEFIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCLKIILSNPPSQGDYHGCPFRH 123 Query: 380 FSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVHS-SSCDAGINHPNQYF 438 E L+ L + + ++D V+ HYQ+AC FE +H+ C +NHPNQ+F Sbjct: 124 SDPELLKQKLQSYKISPGGISQILDLVKGTHYQVACQKYFEMIHNVDDCGFSLNHPNQFF 183 Query: 439 SDSHKIL 445 +S +IL Sbjct: 184 CESQRIL 190

PyMOL of 3q36

>pdb|3L9Q|A Chain A, Crystal Structure Of Human Polymerase Alpha-Primase P58 Iron-Sulfur Cluster Domain Length = 195

Back alignment and structure

>pdb|3LGB|A Chain A, Crystal Structure Of The Fe-S Domain Of The Yeast Dna Primase Length = 194

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		453
3l9q_A		195	DNA primase large subunit; POL alpha, DNA replicat	2e-82
3lgb_A		194	DNA primase large subunit; Fe-S cluster, DNA-bindi	2e-80
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-17
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

>3l9q_A DNA primase large subunit; POL alpha, DNA replication, polymerase, iron-sulfur DNA-binding, DNA-directed RNA polymerase, iron, iron-sulfur binding; HET: DNA; 1.70A {Homo sapiens} PDB: 3q36_A* Length = 195	Back alignment and structure

 Score =  251 bits (642), Expect = 2e-82
 Identities = 97/191 (50%), Positives = 128/191 (67%), Gaps = 3/191 (1%)

Query: 264 ISIKDLDQLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAE 323
            S+  +D L+  SFP CMR L   LRE+HHL+HGGRMQ GLFLKG+GL +E AL FWK E
Sbjct: 2   SSLDQIDLLSTKSFPPCMRQLHKALRENHHLRHGGRMQYGLFLKGIGLTLEQALQFWKQE 61

Query: 324 FSQ-KVGAERFDKEYAYSIRHNYGKEGKRTDYTPYSCQKIISS-TPGVGDHHGCPYRHFS 381
           F + K+  ++FDK Y+Y+IRH++GKEGKRTDYTP+SC KII S  P  GD+HGCP+RH  
Sbjct: 62  FIKGKMDPDKFDKGYSYNIRHSFGKEGKRTDYTPFSCLKIILSNPPSQGDYHGCPFRHSD 121

Query: 382 EENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLTFEAVH-SSSCDAGINHPNQYFSD 440
            E L+  L    +    +  ++D V+  HYQ+AC   FE +H    C   +NHPNQ+F +
Sbjct: 122 PELLKQKLQSYKISPGGISQILDLVKGTHYQVACQKYFEMIHNVDDCGFSLNHPNQFFCE 181

Query: 441 SHKILQPKVEI 451
           S +IL    +I
Sbjct: 182 SQRILNGGKDI 192

PyMOL of 3l9q

>3lgb_A DNA primase large subunit; Fe-S cluster, DNA-binding, DNA-directed RNA POL iron, iron-sulfur, metal-binding, nucleotidyltransferase; HET: DNA MSE EPE; 1.54A {Saccharomyces cerevisiae} Length = 194	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		453
3lgb_A		194	DNA primase large subunit; Fe-S cluster, DNA-bindi	100.0
3l9q_A		195	DNA primase large subunit; POL alpha, DNA replicat	100.0
1zt2_B		212	DNA primase large subunit; heterodimeric complex,	98.63
2dla_A		222	397AA long hypothetical protein; helix bundle, twi	91.31

>3lgb_A DNA primase large subunit; Fe-S cluster, DNA-binding, DNA-directed RNA POL iron, iron-sulfur, metal-binding, nucleotidyltransferase; HET: DNA MSE EPE; 1.54A {Saccharomyces cerevisiae}	Back alignment and structure

Probab=100.00  E-value=3.5e-76  Score=549.29  Aligned_cols=183  Identities=43%  Similarity=0.886  Sum_probs=171.7

Q ss_pred             ccccccchh--hhhhccCcHHHHHHHHHHhccCCCCCchhhHHHHHHhhcCCChHHHHHHHHHHhccccCccccccccce
Q 012939          262 GEISIKDLD--QLARSSFPLCMRHLFDKLREDHHLKHGGRMQLGLFLKGVGLRMEDALAFWKAEFSQKVGAERFDKEYAY  339 (453)
Q Consensus       262 ~~i~~~~id--~l~~~~FPpCMr~L~~~Lr~~~hLkH~gR~ql~lFLKgiGls~eeal~fwr~~F~k~~~~~~FdKey~Y  339 (453)
                      +.||+++||  +++ ++|||||++||+.|+++|||+|+|||||+||||||||++||+|.||+++|+| |++|+|+|+|+|
T Consensus         2 ~~i~~~~id~~~~~-~~fPpCM~~l~~~Lr~~~hL~h~gR~ql~lFLkgiGls~ee~l~f~r~~F~k-~~~d~F~K~y~Y   79 (194)
T 3lgb_A            2 DEINAQSVWSEEIS-SNYPLCIKNLMEGLKKNHHLRYYGRQQLSLFLKGIGLSADEALKFWSEAFTN-MTMEKFNKEYRY   79 (194)
T ss_dssp             TTSSTTGGGSHHHH-TTCCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCCHHHHHHHHHHHSTT-SCHHHHHHHTHH
T ss_pred             CcCCHHHcCcHhhh-ccCcHHHHHHHHHHHcCCCCCchhHHHHHHHHHhCCCCHHHHHHHHHHHccc-CChhhhccceee
Confidence            468999999  888 7999999999999999999999999999999999999999999999999996 898999999999


Q ss_pred             eeeeeccCCCCCcccCCccchhhhcc-CCCCCCCCCCCCCCCCHHHHHHHHHhCCCCchhHHHHHHHhhccchHHHHHHH
Q 012939          340 SIRHNYGKEGKRTDYTPYSCQKIISS-TPGVGDHHGCPYRHFSEENLRAALGRMGVGSRAMEDVVDKVRNRHYQLACTLT  418 (453)
Q Consensus       340 nIrH~YG~eGkr~~Y~p~sC~kiis~-~p~~g~~hGCPfk~~~~~~L~~~L~~~gi~~~~i~~I~~~~~~~~yq~AC~~~  418 (453)
                      ||||+||+||+|++|+||||+||+++ +||+||+|||||||||.++|+++|+++||+.++|++|+++++++|||+||++|
T Consensus        80 ~IrH~yG~eG~r~~Y~p~sC~~i~s~~~pg~gd~HGCPfr~~~~~~L~~~L~~~gv~~~~i~~I~~~~~~~~y~~AC~k~  159 (194)
T 3lgb_A           80 SFRHNYGLEGNRINYKPWDCHTILSKPRPGRGDYHGCPFRDWSHERLSAELRSMKLTQAQIISVLDSCQKGEYTIACTKV  159 (194)
T ss_dssp             HHHHHTTCSTTCCCCCCCCHHHHHHSCCCCTTCCCSCHHHHSCHHHHHHHHHHTTCCHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             eeeeecCCCCCCcccCCCChHHHHhCCCCCCCCcCCCCcCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCChhHHHHHH
Confidence            99999999999999999999999998 89999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHcCCCC-------CCcccCchHHHHHHHcccC
Q 012939          419 FEAVHSSSC-------DAGINHPNQYFSDSHKILQ  446 (453)
Q Consensus       419 Fe~~h~~~~-------~~~i~HPNqYf~~S~~~~~  446 (453)
                      ||.+|+...       +.+|+||||||++|+++.+
T Consensus       160 Fe~tH~~~~~~~~~~~~~~i~HPN~Yf~~S~~l~~  194 (194)
T 3lgb_A          160 FEMTHNSASADLEIGEQTHIAHPNLYFERSRQLQK  194 (194)
T ss_dssp             HHHHC------------CCCCCHHHHHHHHHHHC-
T ss_pred             HHHHcCCcccccccccCCCccCcHHHHHHHHHhhC
Confidence            999997653       3689999999999998753

PyMOL of 3lgb

>3l9q_A DNA primase large subunit; POL alpha, DNA replication, polymerase, iron-sulfur DNA-binding, DNA-directed RNA polymerase, iron, iron-sulfur binding; HET: DNA; 1.70A {Homo sapiens} PDB: 3q36_A*	Back alignment and structure

>1zt2_B DNA primase large subunit; heterodimeric complex, replication, transferase; HET: DNA; 3.33A {Sulfolobus solfataricus} SCOP: a.262.1.1	Back alignment and structure

>2dla_A 397AA long hypothetical protein; helix bundle, twisted beta-sheet, replication; 2.90A {Pyrococcus horikoshii}	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
Query		453
d1zt2b1		207	DNA primase large subunit PriB, N-terminal domain	98.62

>d1zt2b1 a.262.1.1 (B:3-209) DNA primase large subunit PriB, N-terminal domain {Sulfolobus solfataricus [TaxId: 2287]}	Back information, alignment and structure

class: All alpha proteins
fold: PriB N-terminal domain-like
superfamily: PriB N-terminal domain-like
family: PriB N-terminal domain-like
domain: DNA primase large subunit PriB, N-terminal domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.62  E-value=5.7e-08  Score=89.65  Aligned_cols=126  Identities=14%  Similarity=0.203  Sum_probs=94.4

Q ss_pred             hhhhhhhHHHHHHHHHhc--CChHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCccCCHHHHHHHHHHHHHHhh
Q 012939           83 EDVNKDIISHFVLRLVYC--RTEDLRKWFLSMETALYRYRFLLGSSEAKRALMEEFDLPCKAISRTEFENAKEKLEQVAR  160 (453)
Q Consensus        83 ~~~~kD~iSHfiLRLa~c--~s~elrrwFi~~E~~LF~~R~~~~~~~~~~~fl~~~~l~~~~is~~e~~~~~~~L~~~~~  160 (453)
                      .....+.+|++++|+..|  .++-+.++|+.+|++.+..+|..++.+.+..+-..+|++......            ...
T Consensus        56 ~~~~~evlsf~~a~llv~as~d~~li~R~a~aEA~ra~~~L~~d~~~~l~~i~~~l~~~~~~~~~------------~~~  123 (207)
T d1zt2b1          56 VSYNEPVLVFYTTLLSLAILNDVKLIRRYAYAEAKQFRSLLHTENEENLLEISKLLDLKINRCDP------------IKF  123 (207)
T ss_dssp             GGSSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTCCCEEEEE------------EEE
T ss_pred             ccchHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHhccccccccc------------cch
Confidence            445558999999998666  688999999999999999999998888888777788876432110            000


Q ss_pred             hcCCCCCCCCCceEeecccchHhhhc---------ccceEEeccEEEEehhhHHHHHHHHHHHHHHHHHHHH
Q 012939          161 SFDQPLPTADAIFYKVPFEEVPELVA---------GRRVYIHKGHAYVAMHQVVSLVVTQFRSNLSKALILT  223 (453)
Q Consensus       161 ~~~~~~~~~~~~~ykVpF~~v~~LV~---------~R~v~l~~G~ayVp~~~l~~lv~~~fr~~L~~~L~~~  223 (453)
                      .. ..........|+|||.+++.+..         ||.  |.+|+||++.+++.+|+.++++.++.+.++..
T Consensus       124 ~~-~~~~~~~~~~~~i~~~Dyl~~~~~~~~~WrLvNr~--v~~G~V~l~~ee~~RLlrE~i~~~I~~~i~~~  192 (207)
T d1zt2b1         124 YL-EKKRRIIQKEFCVHFIDYLKYTKDLKEDWKLSGQI--LHKGYVYLDKNQLIGLIAESIKSKIVEMIRPL  192 (207)
T ss_dssp             EC-SSSSSEEEEEEEEEHHHHHHHTTTSCGGGCTTSSC--EETTEEEECHHHHHHHHHHHHHHHHHHHTHHH
T ss_pred             hh-hhhccccCcceEeeHHHHHHhcccCCCCcccCcee--ccCCEEEeCHHHHHHHHHHHHHHHHHHhcccc
Confidence            00 00011123468999988887754         354  99999999999999999999999999888643

PyMOL of d1zt2b1