Citrus Sinensis ID: 011739

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-------460-------470-------48

MAISVPLHQLTYSFFSNPQWKWCAKPSYSFSNNSQNNIRAIKASVETPPFPLFQNPKLEETPADGLEPADPDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWHSGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAVKELQEECRQMLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQDRILF

ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccEEccccEEEccccEEEEEEcccccccccccEEEEccccccccccccccccccccccccccccHHccccccccccHHHHHHHHHHHHHcccccccHHHHHHccccccccccccccHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccEEEEEEEcccEEEEEEEccccccccEEEEccccccccHHHHHHcccccccccccEEEEccccccccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc

cccEEEEEcccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccHHHHHHHHHcccccccEEEEccccccEEEEEccccccccccEEEEEccHcEEEcccccccccccccEEccccHHHHHHcccccccHHHHHHHHHHHHHHccccccHHHHHHccccccccccEEccHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHcccccccccccccccEEHHHHHHHcccccccEEEEEEcccccEEEEEEEccccccccEEEEEcccccccHHHHHHcccEcccccccEEEEccccHcHHHHHHHHHHHccccHHHEEccccccccHHHHHHHHHHHHHHcccHccccccccHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc

maisvplhqltysffsnpqwkwcakpsysfsnnsQNNIRAIKasvetppfplfqnpkleetpadglepadpdfykigyVRSMRAYgvefkegpdgfgvfaskdiepRRRARLVMQIPLELMLTIRqklpwmffpdivplghpifdiinstdpetdWDLRLACLLLYAFDQDDNFWQLygdflpnadeCTSLLLATEEDlmelqdpnlASTMREQQKRAREFWEknwhsgvplkikrlahdpeRFIWAVSIAQSRCINMQVRIGALvqdanmlipyadmlnhsfqpncffhWRFKDRMLEVMVNAGqhvrrgeeMTVNYMHGQMNDMlmqrygfsspvnpwnviqfsgdariHLDSFLSVfnisglpeeyyhnskissdeesfIDGAVIAAArtlptwsdgdvplvpsIERKAVKELQEECRQMLaefpttskqdQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQDRILF

maisvplhQLTYSFFSNPQWKWCAKPSYSFSNNSQNNIRAIKASVETPPFPLFQNPKLEetpadglepadPDFYKIGYVRSMRAYGVefkegpdgfgvfaskdieprrRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREfweknwhsgvplKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTlptwsdgdvplVPSIERKAVKELQEECRQMlaefpttskqdqkmldsmkepRRTLEAAIKYRLHRKLFIDKVIKALDIYQDRILF

****VPLHQLTYSFFSNPQWKWCAKPSYSF*****************************************DFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATE***********************EFWEKNWHSGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSI***************************************LEAAIKYRLHRKLFIDKVIKALDIYQDRI**

***********************************************************************DFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWHSGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAVKELQEECRQMLAEFPTTSKQ***************EAAIKYRLHRKLFIDKVIKALDIYQDRILF

MAISVPLHQLTYSFFSNPQWKWCAKPSYSFSNNSQNNIRAIKASVETPPFPLFQNPKLEETPADGLEPADPDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLAS********AREFWEKNWHSGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAVKELQEECRQMLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQDRILF

**ISVPLHQLTYSFFSNP***************************ETPPFPLFQNPKLEETPADGLEPADPDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWHSGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAVKELQEECRQMLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQDRILF

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		478	2.2.26 [Sep-21-2011]
Q9XI84		482	[Fructose-bisphosphate al	no	no	0.859	0.852	0.237	3e-12
P94026		491	Ribulose-1,5 bisphosphate	N/A	no	0.711	0.692	0.227	3e-12
Q43088		489	Ribulose-1,5 bisphosphate	N/A	no	0.730	0.713	0.223	7e-09
P58467		439	SET domain-containing pro	yes	no	0.351	0.382	0.236	3e-05

>sp\|Q9XI84\|RBCMT_ARATH [Fructose-bisphosphate aldolase]-lysine N-methyltransferase, chloroplastic OS=Arabidopsis thaliana GN=LSMT-L PE=1 SV=1	Back alignment and function desciption

 Score = 73.9 bits (180), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 118/496 (23%), Positives = 212/496 (42%), Gaps = 85/496 (17%)

Query: 13  SFFSNPQWKWCAKPSYSFSNNSQNNIRAIKASVETPPFPL--FQNPKLEETPADGLEPAD 70
            F   P  +    PS+ FS   ++ +R I AS    P  +  F     ++    G   A+
Sbjct: 10  GFLRIPSIQKSQNPSFLFSRPKKSLVRPISASSSELPENVRNFWKWLRDQGVVSGKSVAE 69

Query: 71  PDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPW 130
           P                     P+G G+ A +DI    R  +V++IP  L +        
Sbjct: 70  PAVV------------------PEGLGLVARRDI---GRNEVVLEIPKRLWIN------- 101

Query: 131 MFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTS 190
              P+ V     I  +     P   W + +A  L+    ++++ W++Y D LP + + T 
Sbjct: 102 ---PETVT-ASKIGPLCGGLKP---W-VSVALFLIREKYEEESSWRVYLDMLPQSTDST- 152

Query: 191 LLLATEEDLMELQDPN-LASTMREQQKRAREFWEKNWHSGVPLK---IKRLAHDPERFIW 246
            +  +EE+L EL+    L++T+  ++    EF +      +P K     R+  D   FIW
Sbjct: 153 -VFWSEEELAELKGTQLLSTTLGVKEYVENEFLKLEQEILLPNKDLFSSRITLDD--FIW 209

Query: 247 AVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCF-FHWRFK-----DRMLEV 300
           A  I +SR  + ++R   LV     LIP AD++NH+       + +  K      R L  
Sbjct: 210 AFGILKSRAFS-RLRGQNLV-----LIPLADLINHNPAIKTEDYAYEIKGAGLFSRDLLF 263

Query: 301 MVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGF--SSPV-NPWNVI-------QFSGDA- 349
            + +  +V+ GE++ + Y   + N  L   YGF  S+P  N + +         F GD  
Sbjct: 264 SLKSPVYVKAGEQVYIQYDLNKSNAELALDYGFVESNPKRNSYTLTIEIPESDPFFGDKL 323

Query: 350 ------RIHLDSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVP 403
                 ++    +  + +   LP       ++ +      D  ++ +      W   ++P
Sbjct: 324 DIAESNKMGETGYFDIVDGQTLPAGMLQYLRLVA--LGGPDAFLLESIFNNTIWGHLELP 381

Query: 404 LVPSIERKAVKELQEECRQMLAEFPTTSKQDQKMLDSMK-EPRRTLEAAIKYRLHRKLFI 462
           +  + E    + +++ C+  L+ F TT ++D+K+LD  K EPR  LE A+K R+  K   
Sbjct: 382 VSRTNEELICRVVRDACKSALSGFDTTIEEDEKLLDKGKLEPR--LEMALKIRIGEK--- 436

Query: 463 DKVIKALD-IYQDRIL 477
            +V++ +D I++DR L
Sbjct: 437 -RVLQQIDQIFKDREL 451

Methylates 'Lys-14' of the large subunit of RuBisCO.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 2EC: 7

>sp\|P94026\|RBCMT_TOBAC Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic OS=Nicotiana tabacum GN=RBCMT PE=2 SV=1	Back alignment and function description

>sp\|Q43088\|RBCMT_PEA Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic OS=Pisum sativum GN=RBCMT PE=1 SV=1	Back alignment and function description

>sp\|P58467\|SETD4_MOUSE SET domain-containing protein 4 OS=Mus musculus GN=Setd4 PE=2 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		478
359473101		482	PREDICTED: uncharacterized protein LOC10	0.997	0.989	0.803	0.0
255574450		483	conserved hypothetical protein [Ricinus	0.995	0.985	0.788	0.0
449454790		482	PREDICTED: ribulose-1,5 bisphosphate car	0.997	0.989	0.763	0.0
356530082		482	PREDICTED: ribulose-1,5 bisphosphate car	0.997	0.989	0.755	0.0
42566980		483	plastid transcriptionally active 14 prot	0.995	0.985	0.731	0.0
62320136		483	hypothetical protein [Arabidopsis thalia	0.995	0.985	0.731	0.0
110740216		483	hypothetical protein [Arabidopsis thalia	0.995	0.985	0.729	0.0
356556146		483	PREDICTED: ribulose-1,5 bisphosphate car	1.0	0.989	0.759	0.0
297804126		483	PTAC14 [Arabidopsis lyrata subsp. lyrata	0.995	0.985	0.738	0.0
226499862		494	uncharacterized protein LOC100279779 [Ze	0.903	0.874	0.670	1e-177

>gi\|359473101\|ref\|XP_002275523.2\| PREDICTED: uncharacterized protein LOC100264713 [Vitis vinifera] gi\|297738036\|emb\|CBI27237.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  815 bits (2104), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 388/483 (80%), Positives = 437/483 (90%), Gaps = 6/483 (1%)

Query: 1   MAISVPLHQLTYSFFSNPQWKWC-----AKPSYSFSNNSQNNIRAIKASVETPPFPLFQN 55
           MA S  LH  T+ F S+ Q  +C     ++P+YS+   S NNIR IKA+VE PPFPLF+ 
Sbjct: 1   MASSPLLHHPTHCFISSNQ-GFCNGLSSSRPNYSWMRGSGNNIRPIKAAVEMPPFPLFEP 59

Query: 56  PKLEETPADGLEPADPDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLVMQ 115
           P++E      LEPADPDFYKIGYVRS+RAYGVEFKEGPDGFGV+ASKD+EP RRAR++M+
Sbjct: 60  PQIESDTPSQLEPADPDFYKIGYVRSVRAYGVEFKEGPDGFGVYASKDVEPLRRARMIME 119

Query: 116 IPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDNFW 175
           IPLELMLTIR+KLPWMFFPDIVP+GHPIFDIINST+PETDWDLRLACLLL+AFDQ+DNFW
Sbjct: 120 IPLELMLTIRKKLPWMFFPDIVPVGHPIFDIINSTNPETDWDLRLACLLLFAFDQEDNFW 179

Query: 176 QLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWHSGVPLKIK 235
           QLYGDFLP+  ECTSLLLA EEDL+ELQDP LASTMR+QQ+RA EFWEKNWHSGVPLKIK
Sbjct: 180 QLYGDFLPSEGECTSLLLAKEEDLLELQDPKLASTMRDQQRRASEFWEKNWHSGVPLKIK 239

Query: 236 RLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKD 295
           RLA DP RFIWAVSIAQSRCINMQ+RIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKD
Sbjct: 240 RLARDPNRFIWAVSIAQSRCINMQMRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFKD 299

Query: 296 RMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDS 355
           RMLEVM+NAGQ +++GEEMTVNYM G  NDMLMQRYGFSSPVNPW+VIQFSG+A+IHLDS
Sbjct: 300 RMLEVMINAGQRIKKGEEMTVNYMSGLKNDMLMQRYGFSSPVNPWDVIQFSGNAQIHLDS 359

Query: 356 FLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAVKE 415
           FLSVFNISGLPEEYYHNS++S++ +SF+DGAVIAAARTLPTWSDGDVP +PS+ERKAVK+
Sbjct: 360 FLSVFNISGLPEEYYHNSRLSNNGDSFVDGAVIAAARTLPTWSDGDVPPMPSMERKAVKQ 419

Query: 416 LQEECRQMLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQDR 475
           LQEEC+QML EFPTTS+QDQK+LDSM E RRTLEAAIKYRLHRKL I+KVI+ALDIYQ+R
Sbjct: 420 LQEECQQMLLEFPTTSEQDQKILDSMTEERRTLEAAIKYRLHRKLLIEKVIQALDIYQER 479

Query: 476 ILF 478
           ILF
Sbjct: 480 ILF 482

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255574450\|ref\|XP_002528137.1\| conserved hypothetical protein [Ricinus communis] gi\|223532435\|gb\|EEF34228.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi|449454790|ref|XP_004145137.1| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Cucumis sativus] gi|449471403|ref|XP_004153299.1| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Cucumis sativus] gi|449474044|ref|XP_004154058.1| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Cucumis sativus] gi|449503343|ref|XP_004161955.1| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Cucumis sativus]

Back alignment and taxonomy information

>gi\|356530082\|ref\|XP_003533613.1\| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Glycine max]	Back alignment and taxonomy information

>gi\|42566980\|ref\|NP_193746.3\| plastid transcriptionally active 14 protein [Arabidopsis thaliana] gi\|28393566\|gb\|AAO42203.1\| unknown protein [Arabidopsis thaliana] gi\|28973141\|gb\|AAO63895.1\| unknown protein [Arabidopsis thaliana] gi\|110740232\|dbj\|BAF02014.1\| hypothetical protein [Arabidopsis thaliana] gi\|332658878\|gb\|AEE84278.1\| plastid transcriptionally active 14 protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|62320136\|dbj\|BAD94330.1\| hypothetical protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|110740216\|dbj\|BAF02006.1\| hypothetical protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|356556146\|ref\|XP_003546388.1\| PREDICTED: ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplastic-like [Glycine max]	Back alignment and taxonomy information

>gi\|297804126\|ref\|XP_002869947.1\| PTAC14 [Arabidopsis lyrata subsp. lyrata] gi\|297315783\|gb\|EFH46206.1\| PTAC14 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|226499862\|ref\|NP_001146209.1\| uncharacterized protein LOC100279779 [Zea mays] gi\|219886187\|gb\|ACL53468.1\| unknown [Zea mays] gi\|219888379\|gb\|ACL54564.1\| unknown [Zea mays] gi\|413948639\|gb\|AFW81288.1\| hypothetical protein ZEAMMB73_810642 [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		478
TAIR\|locus:2119822		483	PTAC14 "plastid transcriptiona	0.995	0.985	0.731	1.2e-198
TAIR\|locus:2014764		482	LSMT-L "lysine methyltransfera	0.702	0.697	0.248	5.2e-12
TAIR\|locus:2024066		476	AT1G24610 "AT1G24610" [Arabido	0.403	0.405	0.266	1.1e-08
ASPGD\|ASPL0000031671		707	AN5630 [Emericella nidulans (t	0.334	0.226	0.280	2.2e-05
UNIPROTKB\|B0VX69		595	SETD3 "Histone-lysine N-methyl	0.433	0.347	0.279	4.2e-05
ZFIN\|ZDB-GENE-050808-2		440	setd4 "SET domain containing 4	0.474	0.515	0.236	6.3e-05
UNIPROTKB\|A9X1D0		595	SETD3 "Histone-lysine N-methyl	0.433	0.347	0.275	0.00011
UNIPROTKB\|B1MTJ4		595	SETD3 "Histone-lysine N-methyl	0.433	0.347	0.275	0.00014
UNIPROTKB\|Q86TU7		594	SETD3 "Histone-lysine N-methyl	0.433	0.348	0.275	0.00018
MGI\|MGI:1289184		594	Setd3 "SET domain containing 3	0.364	0.292	0.289	0.00018

TAIR\|locus:2119822 PTAC14 "plastid transcriptionally active 14" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1923 (682.0 bits), Expect = 1.2e-198, P = 1.2e-198
 Identities = 355/485 (73%), Positives = 422/485 (87%)

Query:     1 MAISVPLHQLTYSFFSNPQWKWC------AKPSYSFSNNSQNNIRAIK-ASVETPPFPLF 53
             MA SV L  LT +F S PQ  +C       +P  +   + QN +R IK AS+ET PFPLF
Sbjct:     1 MASSVSLQFLTNTFISKPQG-FCNGIVSAPRPRSNLLRDRQNGVRPIKVASIETQPFPLF 59

Query:    54 QNPKLEETPADGLEPADPDFYKIGYVRSMRAYGVEFKEGPDGFGVFASKDIEPRRRARLV 113
             Q+P  EE+ +  LE ADPDFYKIGYVRS+RAYGVEFKEGPDGFGV+ASKDIEPRRRAR++
Sbjct:    60 QSPASEESSSSELETADPDFYKIGYVRSVRAYGVEFKEGPDGFGVYASKDIEPRRRARVI 119

Query:   114 MQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPETDWDLRLACLLLYAFDQDDN 173
             M+IPLELM+TIRQK PWMFFPDIVP+GHPIFDIINSTDPE DWD+RLACLLL++FD+DD+
Sbjct:   120 MEIPLELMITIRQKHPWMFFPDIVPIGHPIFDIINSTDPEIDWDIRLACLLLFSFDRDDH 179

Query:   174 FWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWHSGVPLK 233
             FW+LYGDFLP ADEC+SLLLATEEDL ELQDP+L ST+R+QQKR  +FWEKNWHSGVPLK
Sbjct:   180 FWRLYGDFLPAADECSSLLLATEEDLAELQDPDLVSTIRQQQKRILDFWEKNWHSGVPLK 239

Query:   234 IKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRF 293
             IKRLA DPERFIWAVS+AQ+RCI+MQ R+GALVQ+ NM+IPYADMLNHSF+PNCF HWR 
Sbjct:   240 IKRLAEDPERFIWAVSMAQTRCISMQTRVGALVQELNMMIPYADMLNHSFEPNCFLHWRP 299

Query:   294 KDRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHL 353
             KDRMLEVM NAGQ +++GEEMT+NYM GQ N+MLM+RYGFS+PVNPW+ I+FSGD+RIHL
Sbjct:   300 KDRMLEVMSNAGQDIKKGEEMTINYMPGQKNNMLMERYGFSTPVNPWDAIKFSGDSRIHL 359

Query:   354 DSFLSVFNISGLPEEYYHNSKISSDEESFIDGAVIAAARTLPTWSDGDVPLVPSIERKAV 413
             +SFLSVFNI GLPEEYYH+S++S  + +F+DGAVIAAARTLPTWSD D+P +PS ERKAV
Sbjct:   360 NSFLSVFNIYGLPEEYYHDSELSRGD-TFVDGAVIAAARTLPTWSDIDLPPIPSAERKAV 418

Query:   414 KELQEECRQMLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIKALDIYQ 473
             KELQ+ECR+MLAE+PTT++QDQK+LDSM E R T   A+KYR+HRK+FI K+IKALDIYQ
Sbjct:   419 KELQDECRKMLAEYPTTAEQDQKLLDSMSEARTTFATAVKYRMHRKMFIGKIIKALDIYQ 478

Query:   474 DRILF 478
             +R+L+
Sbjct:   479 ERLLY 483

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009295 "nucleoid" evidence=IDA

GO:0009508 "plastid chromosome" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TAIR\|locus:2014764 LSMT-L "lysine methyltransferase (LSMT)-like" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2024066 AT1G24610 "AT1G24610" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000031671 AN5630 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

UNIPROTKB\|B0VX69 SETD3 "Histone-lysine N-methyltransferase setd3" [Callithrix jacchus (taxid:9483)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-050808-2 setd4 "SET domain containing 4" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|A9X1D0 SETD3 "Histone-lysine N-methyltransferase setd3" [Papio anubis (taxid:9555)]	Back alignment and assigned GO terms

UNIPROTKB\|B1MTJ4 SETD3 "Histone-lysine N-methyltransferase setd3" [Callicebus moloch (taxid:9523)]	Back alignment and assigned GO terms

UNIPROTKB\|Q86TU7 SETD3 "Histone-lysine N-methyltransferase setd3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

MGI\|MGI:1289184 Setd3 "SET domain containing 3" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.1.1	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00030097001	SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (482 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00028352001	SubName- Full=Chromosome chr10 scaffold_43, whole genome shotgun sequence; (353 aa)	•	•	•	0.794
	GSVIVG00017894001	SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (674 aa)	•		•	0.589
	GSVIVG00015449001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (221 aa)	•		•	0.488
	GSVIVG00026730001	SubName- Full=Chromosome chr4 scaffold_39, whole genome shotgun sequence; (818 aa)	•		•	0.479
	GSVIVG00000431001	SubName- Full=Chromosome chr2 scaffold_105, whole genome shotgun sequence; (510 aa)	•		•	0.428

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		478
pfam00856		113	pfam00856, SET, SET domain	7e-11
pfam09273		128	pfam09273, Rubis-subs-bind, Rubisco LSMT substrate	5e-06
smart00317		124	smart00317, SET, SET (Su(var)3-9, Enhancer-of-zest	3e-05

>gnl\|CDD\|216155 pfam00856, SET, SET domain	Back alignment and domain information

 Score = 59.0 bits (143), Expect = 7e-11
 Identities = 18/51 (35%), Positives = 30/51 (58%)

Query: 268 DANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHVRRGEEMTVNY 318
           DA  L   A  +NHS +PNC   + F +    ++V A + ++ GEE+T++Y
Sbjct: 62  DATGLGNVARFINHSCEPNCEVRFVFVNGGDRIVVRALRDIKPGEELTIDY 112

SET domains are protein lysine methyltransferase enzymes. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains have been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as SET-N and SET-C. SET-C forms an unusual and conserved knot-like structure of probably functional importance. Additionally to SET-N and SET-C, an insert region (SET-I) and flanking regions of high structural variability form part of the overall structure. Length = 113

>gnl\|CDD\|220161 pfam09273, Rubis-subs-bind, Rubisco LSMT substrate-binding	Back alignment and domain information

>gnl\|CDD\|214614 smart00317, SET, SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		478
KOG1337		472	consensus N-methyltransferase [General function pr	99.97
KOG1338		466	consensus Uncharacterized conserved protein [Funct	99.94
PF00856		162	SET: SET domain; InterPro: IPR001214 The SET domai	99.67
PF09273		128	Rubis-subs-bind: Rubisco LSMT substrate-binding; I	99.41
smart00317		116	SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax)	98.37
KOG1085		392	consensus Predicted methyltransferase (contains a	96.23
KOG4442		729	consensus Clathrin coat binding protein/Huntingtin	95.61
KOG1079		739	consensus Transcriptional repressor EZH1 [Transcri	94.91
KOG1080		1005	consensus Histone H3 (Lys4) methyltransferase comp	94.24
KOG2589		453	consensus Histone tail methylase [Chromatin struct	93.54
COG2940		480	Proteins containing SET domain [General function p	88.93
KOG1083		1306	consensus Putative transcription factor ASH1/LIN-5	88.3

>KOG1337 consensus N-methyltransferase [General function prediction only]	Back alignment and domain information

Probab=99.97  E-value=1.3e-30  Score=275.84  Aligned_cols=304  Identities=23%  Similarity=0.270  Sum_probs=224.7

Q ss_pred             HHHHHHHHHHh-CCCCChhHHHhhhCCCCCCCCccccCCHHHHhccCCCcHHHHHHHHHHHHHHHHHHhhc--CCCCccc
Q 011739          158 LRLACLLLYAF-DQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWEKNWH--SGVPLKI  234 (478)
Q Consensus       158 ~~Lal~Ll~e~-~g~~S~w~pYl~~LP~~~~~~~pl~ws~~el~~L~gt~l~~~~~~~~~~~~~~~~~~~~--~~~p~~~  234 (478)
                      ..++++++++. .+..|.|.+|+..||..+  ++|+.|..+++..|.+++....+..++..+...+.+...  ...+..+
T Consensus       112 ~~l~~~l~~~~~~~~~s~w~~~i~~l~~~~--~~p~~~~~~~v~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (472)
T KOG1337|consen  112 IALALFLLLEWAHGEISKWKPYISTLPSQY--NSPLLWSEDEVKSLLSTPLFEIVASRRQNLVNKSAELLEVLQSHPSLF  189 (472)
T ss_pred             HHHHHHHHHhhhccccccchhhhhhchhhc--CCccccCHHHHHHhhcchhhHHHHHHHHHhhhhHHHHHHHHHhccccc
Confidence            78899999998 566699999999999997  689999999999999999999888777666664433221  1111111


Q ss_pred             c---ccCCCHHHHHHHHHhhhhcceeeecccc---cccCCcceeeeecccCCCCCCCCceEEEeeeCCeEEEEEEecccC
Q 011739          235 K---RLAHDPERFIWAVSIAQSRCINMQVRIG---ALVQDANMLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQHV  308 (478)
Q Consensus       235 ~---~~~~t~e~f~WA~~~V~SRaf~~~~~~~---~~~~~~~~LvP~~Dm~NH~~~~~~~~~~~~~~~~~~~~l~a~r~i  308 (478)
                      .   ...++++.|+||+++|.||+|+.+....   .......+|+|++||+||++.. +...++..++.  +.+++.++|
T Consensus       190 ~~~~~d~~~~~~~~w~~~~~~sr~~~~~~~~~~~~~~~~~~~~L~P~~D~~NH~~~~-~~~~~~~~d~~--~~l~~~~~v  266 (472)
T KOG1337|consen  190 GSDLFDTFTFSAFKWAYSIVNSRAFYLPSLQRLTAGDPDDNEALAPLIDLLNHSPEV-IKAGYNQEDEA--VELVAERDV  266 (472)
T ss_pred             cccccCccchHHHHHHHHHHhhhhhccccccccccCCCCcchhhhhhHHhhccCchh-ccccccCCCCc--EEEEEeeee
Confidence            1   1127899999999999999999988731   1235789999999999999986 45566666666  777899999


Q ss_pred             CCCcEEEEcCCCCCCcHHHHHhCCccCCCCCCCeEEeccCcccccch----hhchhhHcCCCcccccceeecCCCCccch
Q 011739          309 RRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDS----FLSVFNISGLPEEYYHNSKISSDEESFID  384 (478)
Q Consensus       309 ~~GeEv~isYG~~~sN~~LL~~YGFv~~~Np~D~v~l~~~~~~~~d~----~~~~l~~~gl~~~~~~~~~~~~~~~~~~d  384 (478)
                      ++||||||+||++ +|++||++|||+.++||+|.|.+.+.... .+.    ....+...+++...++.+....  ...-+
T Consensus       267 ~~geevfi~YG~~-~N~eLL~~YGFv~~~N~~d~v~l~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  342 (472)
T KOG1337|consen  267 SAGEEVFINYGPK-SNAELLLHYGFVEEDNPYDSVTLKLALPP-EDVSYLDKSDVLKKNGLPSSGEFSILLTG--EPVSE  342 (472)
T ss_pred             cCCCeEEEecCCC-chHHHHHhcCCCCCCCCcceEEEeecccc-cccchhHHHHHHhhcCCCCCceEEEeecC--Cchhh
Confidence            9999999999998 79999999999999999999998775431 111    1223445555554333222211  11100


Q ss_pred             HHHHHH-HHhcC------------------CCCCCCCCCCchhHHHHHHHHHHH-HHHHHHhCCCChHHHHHHHhhCCCC
Q 011739          385 GAVIAA-ARTLP------------------TWSDGDVPLVPSIERKAVKELQEE-CRQMLAEFPTTSKQDQKMLDSMKEP  444 (478)
Q Consensus       385 ~~Llaa-lR~l~------------------~~~~~~~~~s~~~E~~~~~~L~~~-~~~~L~~y~tt~eeD~~~L~~~~~~  444 (478)
                      ...+.. ++.+.                  .+.....+.+.++|.+.+..+... |...+..+.+++++|+..+.+. .+
T Consensus       343 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~vl~~~-~l  421 (472)
T KOG1337|consen  343 MLLLFLLLDALSERLESELVCEETSISRSCEEFLSGLPVSLDNEQKLLYGLQKLLCSLTLRVFKALIDEDESVLKDN-IL  421 (472)
T ss_pred             hhhhhhhhccccccchhhhhhhhcccccccccccccCceeecchHHHHHHHhhccccchhcccchhhhhhhhhhccc-cc
Confidence            011111 11110                  111223456678999999999999 9999999999999999999874 57


Q ss_pred             cHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 011739          445 RRTLEAAIKYRLHRKLFIDKVIKALDI  471 (478)
Q Consensus       445 ~~~~~~A~~~R~~eK~iL~~~l~~L~~  471 (478)
                      +.+..++.++|..+|+||.+.+..+..
T Consensus       422 ~~~~~~~~k~~~~~~~iL~~~~~~~~~  448 (472)
T KOG1337|consen  422 SKLLELLEKLRTLEKRILEKSLKLLRS  448 (472)
T ss_pred             chhhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            789999999999999999999987773

>KOG1338 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco

Back alignment and domain information

>PF09273 Rubis-subs-bind: Rubisco LSMT substrate-binding; InterPro: IPR015353 This domain adopts a multihelical structure, with an irregular array of long and short alpha-helices	Back alignment and domain information

>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain	Back alignment and domain information

>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]	Back alignment and domain information

>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>KOG1079 consensus Transcriptional repressor EZH1 [Transcription]	Back alignment and domain information

>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]	Back alignment and domain information

>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]	Back alignment and domain information

>COG2940 Proteins containing SET domain [General function prediction only]	Back alignment and domain information

>KOG1083 consensus Putative transcription factor ASH1/LIN-59 [Transcription]	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		478
1mlv_A		444	Structure And Catalytic Mechanism Of A Set Domain P		6e-10
2h21_A		440	Structure Of Rubisco Lsmt Bound To Adomet Length =		8e-10

>pdb|1MLV|A Chain A, Structure And Catalytic Mechanism Of A Set Domain Protein Methyltransferase Length = 444

Back alignment and structure

Iteration: 1

Score = 62.0 bits (149), Expect = 6e-10, Method: Compositional matrix adjust. Identities = 97/425 (22%), Positives = 166/425 (39%), Gaps = 76/425 (17%) Query: 94 DGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDIINSTDPE 153 +G G+ A KDI R +++Q+P L + PD V I + + P Sbjct: 36 EGLGLVALKDIS---RNDVILQVPKRLWIN----------PDAVA-ASEIGRVCSELKP- 80 Query: 154 TDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMRE 213 W L + L+ ++D+ W+ Y LP E S + +EE+L ELQ L T Sbjct: 81 --W-LSVILFLIRERSREDSVWKHYFGILPQ--ETDSTIYWSEEELQELQGSQLLKTTVS 135 Query: 214 QQKRAREFWEKNWHSGVPLKIKRLAHDP---ERFIWAVSIAQSRCINMQVRIGALVQDAN 270 ++ + K + L KRL DP + F WA I +SR + ++R LV Sbjct: 136 VKEYVKNECLK-LEQEIILPNKRLFPDPVTLDDFFWAFGILRSRAFS-RLRNENLV---- 189 Query: 271 MLIPYADMLNHSFQPNCFFHWRFKDRMLEVMVNAGQ-------------HVRRGEEMTVN 317 ++P AD++NHS +D EV AG V+ GE++ + Sbjct: 190 -VVPMADLINHSAGVTT------EDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGEQVYIQ 242 Query: 318 YMHGQMNDMLMQRYGFSSPVNPWNVIQFS---GDARIHLDSFLSVFNISGLPEEYY---- 370 Y + N L YGF P + + ++ D L V +G + Y Sbjct: 243 YDLNKSNAELALDYGFIEPNENRHAYTLTLEISESDPFFDDKLDVAESNGFAQTAYFDIF 302 Query: 371 HNSKISSDEESFIDGAVIAAARTL--------PTWSDGDVPLVPSIERKAVKELQEECRQ 422 +N + ++ + W ++ + E K ++E C+ Sbjct: 303 YNRTLPPGLLPYLRLVALGGTDAFLLESLFRDTIWGHLELSVSRDNEELLCKAVREACKS 362 Query: 423 MLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKV----------IKALDIY 472 LA + TT +QD+++ + + R L A+ R K+ + ++ + L+ Y Sbjct: 363 ALAGYHTTIEQDRELKEGNLDSR--LAIAVGIREGEKMVLQQIDGIFEQKELELDQLEYY 420 Query: 473 QDRIL 477 Q+R L Sbjct: 421 QERRL 425

PyMOL of 1mlv

>pdb|2H21|A Chain A, Structure Of Rubisco Lsmt Bound To Adomet Length = 440

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		478
2h21_A		440	Ribulose-1,5 bisphosphate carboxylase/oxygenase; S	9e-52
3smt_A		497	Histone-lysine N-methyltransferase SETD3; histone	2e-48
3qxy_A		449	N-lysine methyltransferase SETD6; epigenetics, pro	2e-38
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
3qww_A		433	SET and MYND domain-containing protein 2; methyltr	5e-07
3qwp_A		429	SET and MYND domain-containing protein 3; SMYD3,SE	7e-06
2f69_A		261	Histone-lysine N-methyltransferase, H3 lysine-4 sp	2e-04
1n3j_A		119	A612L, histone H3 lysine methyltransferase; beta b	3e-04
3rq4_A		247	Histone-lysine N-methyltransferase SUV420H2; suppr	5e-04

>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain, protein lysine methyltransferase, transferase; HET: SAM; 2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB: 2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A* Length = 440	Back alignment and structure

 Score =  180 bits (457), Expect = 9e-52
 Identities = 79/425 (18%), Positives = 152/425 (35%), Gaps = 62/425 (14%)

Query: 87  VEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDI 146
           V+     +G G+ A KDI       +++Q+P  L +                        
Sbjct: 25  VKASVVTEGLGLVALKDISR---NDVILQVPKRLWINPDAVAASEIGRVC---------- 71

Query: 147 INSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPN 206
                 E    L +   L+    ++D+ W+ Y   LP   E  S +  +EE+L ELQ   
Sbjct: 72  -----SELKPWLSVILFLIRERSREDSVWKHYFGILP--QETDSTIYWSEEELQELQGSQ 124

Query: 207 LASTMREQQKRAREFWEKNWHSGV--PLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGA 264
           L  T    ++  +    K     +    ++       + F WA  I +SR  +       
Sbjct: 125 LLKTTVSVKEYVKNECLKLEQEIILPNKRLFPDPVTLDDFFWAFGILRSRAFSRLR---- 180

Query: 265 LVQDANMLIPYADMLNHSFQPNCFFH-------WRFKDRMLEVMVNAGQHVRRGEEMTVN 317
              +  +++P AD++NHS       H                  + +   V+ GE++ + 
Sbjct: 181 --NENLVVVPMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGEQVYIQ 238

Query: 318 YMHGQMNDMLMQRYGFSSPVNPWNVIQFS---GDARIHLDSFLSVFNISGLPEEYYH--- 371
           Y   + N  L   YGF  P    +    +    ++    D  L V   +G  +  Y    
Sbjct: 239 YDLNKSNAELALDYGFIEPNENRHAYTLTLEISESDPFFDDKLDVAESNGFAQTAYFDIF 298

Query: 372 -NSKISSDEESFI--------DGAVIAAARTLPTWSDGDVPLVPSIERKAVKELQEECRQ 422
            N  +      ++        D  ++ +      W   ++ +    E    K ++E C+ 
Sbjct: 299 YNRTLPPGLLPYLRLVALGGTDAFLLESLFRDTIWGHLELSVSRDNEELLCKAVREACKS 358

Query: 423 MLAEFPTTSKQDQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKV----------IKALDIY 472
            LA + TT +QD+++ +   + R  +  A+  R   K+ + ++          +  L+ Y
Sbjct: 359 ALAGYHTTIEQDRELKEGNLDSRLAI--AVGIREGEKMVLQQIDGIFEQKELELDQLEYY 416

Query: 473 QDRIL 477
           Q+R L
Sbjct: 417 QERRL 421

PyMOL of 2h21

>3smt_A Histone-lysine N-methyltransferase SETD3; histone methyltransferase, histone modification, LYSI translational modification, structural genomics; HET: SAM; 2.04A {Homo sapiens} Length = 497	Back alignment and structure

>3qxy_A N-lysine methyltransferase SETD6; epigenetics, protein lysine methyltransferase, transferase, network VIA methyllysine signaling; HET: SAM; 2.09A {Homo sapiens} PDB: 3rc0_A* Length = 449	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

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A* Length = 433	Back alignment and structure

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A* Length = 429	Back alignment and structure

>2f69_A Histone-lysine N-methyltransferase, H3 lysine-4 specific SET7; SET domain, protein lysine methyltransferase, enzyme- peptide-adohcy complex; HET: MLZ SAH; 1.30A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 3m53_A* 3m55_A* 3m54_A* 3m56_A* 3m58_A* 3m57_A* 3m59_A* 3m5a_A* 1xqh_A* 4e47_A* 1n6a_A* 1o9s_A* 3cbp_A* 3cbm_A* 3cbo_A* 3os5_A* Length = 261	Back alignment and structure

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A* Length = 119	Back alignment and structure

>3rq4_A Histone-lysine N-methyltransferase SUV420H2; suppressor, variegation 4-20 homolog 2, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.80A {Homo sapiens} Length = 247	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		478
2h21_A		440	Ribulose-1,5 bisphosphate carboxylase/oxygenase; S	100.0
3smt_A		497	Histone-lysine N-methyltransferase SETD3; histone	100.0
3qxy_A		449	N-lysine methyltransferase SETD6; epigenetics, pro	100.0
3qww_A		433	SET and MYND domain-containing protein 2; methyltr	99.34
3n71_A		490	Histone lysine methyltransferase SMYD1; heart deve	99.23
3qwp_A		429	SET and MYND domain-containing protein 3; SMYD3,SE	99.16
1n3j_A		119	A612L, histone H3 lysine methyltransferase; beta b	98.24
3f9x_A		166	Histone-lysine N-methyltransferase SETD8; methyltr	97.96
2w5y_A		192	Histone-lysine N-methyltransferase HRX; transcript	97.62
3ope_A		222	Probable histone-lysine N-methyltransferase ASH1L;	97.52
3ooi_A		232	Histone-lysine N-methyltransferase, H3 lysine-36 l	97.45
3h6l_A		278	Histone-lysine N-methyltransferase SETD2; SET doma	97.42
3rq4_A		247	Histone-lysine N-methyltransferase SUV420H2; suppr	97.39
3s8p_A		273	Histone-lysine N-methyltransferase SUV420H1; SET d	97.34
2f69_A		261	Histone-lysine N-methyltransferase, H3 lysine-4 sp	97.24
1h3i_A		293	Histone H3 lysine 4 specific methyltransferase; 2.	96.96
3bo5_A		290	Histone-lysine N-methyltransferase setmar; SET dom	96.83
3hna_A		287	Histone-lysine N-methyltransferase, H3 lysine-9 sp	96.74
1ml9_A		302	Histone H3 methyltransferase DIM-5; adoMet-depende	96.66
2r3a_A		300	Histone-lysine N-methyltransferase SUV39H2; histon	96.55
1mvh_A		299	Cryptic LOCI regulator 4; lysine methyltransferase	96.55
2qpw_A		149	PR domain zinc finger protein 2; methyltransferase	96.44
3db5_A		151	PR domain zinc finger protein 4; methyltransferase	92.47
3ep0_A		170	PR domain zinc finger protein 12; PR domain-contai	91.87
3dal_A		196	PR domain zinc finger protein 1; methyltransferase	89.51
3ihx_A		152	PR domain zinc finger protein 10; PRDM10, methyltr	85.72
1n3j_A		119	A612L, histone H3 lysine methyltransferase; beta b	84.5
3ray_A		237	PR domain-containing protein 11; structural genomi	83.0
3f9x_A		166	Histone-lysine N-methyltransferase SETD8; methyltr	80.32

>2h21_A Ribulose-1,5 bisphosphate carboxylase/oxygenase; SET domain, protein lysine methyltransferase, transferase; HET: SAM; 2.45A {Pisum sativum} SCOP: a.166.1.1 b.85.7.3 PDB: 2h23_A* 2h2e_A* 2h2j_A* 1p0y_A* 1ozv_A* 1mlv_A*	Back alignment and structure

Probab=100.00  E-value=4e-62  Score=511.82  Aligned_cols=371  Identities=22%  Similarity=0.335  Sum_probs=293.4

Q ss_pred             cchhhhhHHhhcCcCCceeec-------CCCccEEEEccCCCcccCCceEEEcCcccccccccccCCCCCCCCCCCCchh
Q 011739           71 PDFYKIGYVRSMRAYGVEFKE-------GPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPI  143 (478)
Q Consensus        71 ~d~~~~~~~~w~~~~gv~i~~-------~~~GrGl~At~dI~~~~~ge~ll~IP~~~~ls~~~~~~~~~f~~~~~lg~~~  143 (478)
                      ++..  .|++|+..+|+.+..       .+.||||+|++||++   ||+|++||.+++||.+++..+       .+|+  
T Consensus         4 ~~~~--~f~~W~~~~G~~~~~~~v~~~~~~~GrGl~A~~~I~~---ge~ll~IP~~~~ls~~~~~~~-------~~~~--   69 (440)
T 2h21_A            4 PAVQ--TFWKWLQEEGVITAKTPVKASVVTEGLGLVALKDISR---NDVILQVPKRLWINPDAVAAS-------EIGR--   69 (440)
T ss_dssp             HHHH--HHHHHHHHTTSSCTTCSEEEEEETTEEEEEESSCBCT---TEEEEEEEGGGCCSHHHHTTS-------TTHH--
T ss_pred             HHHH--HHHHHHHHCCCCcCCceeeeccCCCCCEEEEcccCCC---CCEEEEeChhHhccHHHhcch-------hHHH--
Confidence            4556  899999988877542       257999999999998   899999999999999987531       2343  


Q ss_pred             hhhhhcCCCCCchhHHHHHHHHHHhCCCCChhHHHhhhCCCCCCCCccccCCHHHHhccCCCcHHHHHHHHHHHHHHHHH
Q 011739          144 FDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWE  223 (478)
Q Consensus       144 ~~~~~~~~~~~~~~~~Lal~Ll~e~~g~~S~w~pYl~~LP~~~~~~~pl~ws~~el~~L~gt~l~~~~~~~~~~~~~~~~  223 (478)
                        .+.+   ..+| ..|+++|++|+.|++|+|+||+++||+.+  ++|++|+++|++.|+||++...+.++++.+++.|+
T Consensus        70 --~~~~---~~~~-~~Lal~Ll~E~~g~~S~w~pYl~~LP~~~--~~p~~w~~~el~~L~gt~l~~~~~~~~~~~~~~~~  141 (440)
T 2h21_A           70 --VCSE---LKPW-LSVILFLIRERSREDSVWKHYFGILPQET--DSTIYWSEEELQELQGSQLLKTTVSVKEYVKNECL  141 (440)
T ss_dssp             --HHTT---SCHH-HHHHHHHHHHHHCTTCTTHHHHTTSCSCC--SCTTTCCHHHHHTTTTCHHHHHHHHHHHHHHHHHH
T ss_pred             --HHhc---cCcH-HHHHHHHHHHhcCCCCcHHHHHHhcCCCC--CCcccCCHHHHHhccCCcHHHHHHHHHHHHHHHHH
Confidence              3322   3466 67999999999999999999999999985  68999999999999999999999988889999998


Q ss_pred             Hhhc---CCCCccccccCCCHHHHHHHHHhhhhcceeeecccccccCCcceeeeecccCCCCCCCC-ceEEEeeeC----
Q 011739          224 KNWH---SGVPLKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPN-CFFHWRFKD----  295 (478)
Q Consensus       224 ~~~~---~~~p~~~~~~~~t~e~f~WA~~~V~SRaf~~~~~~~~~~~~~~~LvP~~Dm~NH~~~~~-~~~~~~~~~----  295 (478)
                      .+..   ...|..++ ...+++.|.||+++|+||+|....      .+..+|||++||+||+++++ +++.|..++    
T Consensus       142 ~~~~~~~~~~~~~f~-~~~t~~~f~wA~~~v~SRaf~~~~------~~~~~LvP~~D~~NH~~~~~~~~~~~~~~~~~~~  214 (440)
T 2h21_A          142 KLEQEIILPNKRLFP-DPVTLDDFFWAFGILRSRAFSRLR------NENLVVVPMADLINHSAGVTTEDHAYEVKGAAGL  214 (440)
T ss_dssp             HHHHHTTSTTTTTCC-SCCCHHHHHHHHHHHHHHCBCCC---------CCBCCSSTTSCEECTTCCCCCCEEEC------
T ss_pred             HHHHHHHHhChhhCC-CCCCHHHHHHHHHHhcccceeccC------CCceEEeechHhhcCCCCcccccceeeecCcccc
Confidence            7652   12222222 235999999999999999997643      35789999999999999865 345565432    


Q ss_pred             --CeEEEEEEecccCCCCcEEEEcCCCCCCcHHHHHhCCccCCCCCCCeEEeccCcccccchh----hchhhHcCCCccc
Q 011739          296 --RMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPVNPWNVIQFSGDARIHLDSF----LSVFNISGLPEEY  369 (478)
Q Consensus       296 --~~~~~~l~a~r~i~~GeEv~isYG~~~sN~~LL~~YGFv~~~Np~D~v~l~~~~~~~~d~~----~~~l~~~gl~~~~  369 (478)
                        +...++++|.++|++||||||+||++.+|++||++|||++++||+|.+.|.++.. ..|++    .+.++..|+....
T Consensus       215 ~~~~~~~~l~a~~~i~~Geei~~sYG~~~~N~~LL~~YGFv~~~n~~d~~~l~l~~~-~~d~~~~~k~~~l~~~gl~~~~  293 (440)
T 2h21_A          215 FSWDYLFSLKSPLSVKAGEQVYIQYDLNKSNAELALDYGFIEPNENRHAYTLTLEIS-ESDPFFDDKLDVAESNGFAQTA  293 (440)
T ss_dssp             ----CEEEEEESSCBCTTSBCEECSCTTCCHHHHHHHSSCCCSCGGGCEEEEEEECC-TTSTTHHHHHHHHHTTTCCSEE
T ss_pred             cCCCceEEEEECCCCCCCCEEEEeCCCCCCHHHHHHhCCCCcCCCCCCeEEEEeecC-CccccHHHHHHHHHHcCCCCCc
Confidence              1223888999999999999999999746999999999999999999999877654 23433    3457778887543


Q ss_pred             ccceeecCCCCccchHHHHHHHHhcCC-------CC---------CCCCCCCchhHHHHHHHHHHHHHHHHHhCCCChHH
Q 011739          370 YHNSKISSDEESFIDGAVIAAARTLPT-------WS---------DGDVPLVPSIERKAVKELQEECRQMLAEFPTTSKQ  433 (478)
Q Consensus       370 ~~~~~~~~~~~~~~d~~LlaalR~l~~-------~~---------~~~~~~s~~~E~~~~~~L~~~~~~~L~~y~tt~ee  433 (478)
                      .  +.+..++  .++.+|++++|++..       +.         +...|++.+||.++++.|.+.|..+|+.|+||+++
T Consensus       294 ~--f~i~~~~--~~~~~ll~~lR~l~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~E~~~~~~L~~~~~~~L~~y~Ttiee  369 (440)
T 2h21_A          294 Y--FDIFYNR--TLPPGLLPYLRLVALGGTDAFLLESLFRDTIWGHLELSVSRDNEELLCKAVREACKSALAGYHTTIEQ  369 (440)
T ss_dssp             E--EEEETTS--CCCTTHHHHHHHHHCCGGGGGGGSGGGTTTHHHHHHHCCCHHHHHHHHHHHHHHHHHHHTTCSSCHHH
T ss_pred             e--EEeecCC--CCCHHHHHHHHHHhCChhhHHHHHHHHhhhhhccccCCCChhHHHHHHHHHHHHHHHHHHhCCCcHHH
Confidence            3  3343332  245689999999621       11         12246788999999999999999999999999999


Q ss_pred             HHHHHhhCCCCcHhHHHHHHHHHHHHHHHHHHHH----------HHHHHHhhhc
Q 011739          434 DQKMLDSMKEPRRTLEAAIKYRLHRKLFIDKVIK----------ALDIYQDRIL  477 (478)
Q Consensus       434 D~~~L~~~~~~~~~~~~A~~~R~~eK~iL~~~l~----------~L~~~~~~~~  477 (478)
                      |+++ ++ +..+.|+++|+++|++||+||+++++          .+++||||+|
T Consensus       370 D~~l-~~-~~~~~r~~~A~~~R~~EK~iL~~~~~~~~~~~~~l~~~~~~~~r~l  421 (440)
T 2h21_A          370 DREL-KE-GNLDSRLAIAVGIREGEKMVLQQIDGIFEQKELELDQLEYYQERRL  421 (440)
T ss_dssp             HHHH-HT-SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTSCCHHHHHH
T ss_pred             HHHh-hc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHhhc
Confidence            9998 55 46889999999999999999999987          5567899986

PyMOL of 2h21

>3smt_A Histone-lysine N-methyltransferase SETD3; histone methyltransferase, histone modification, LYSI translational modification, structural genomics; HET: SAM; 2.04A {Homo sapiens}	Back alignment and structure

>3qxy_A N-lysine methyltransferase SETD6; epigenetics, protein lysine methyltransferase, transferase, network VIA methyllysine signaling; HET: SAM; 2.09A {Homo sapiens} PDB: 3rc0_A*	Back alignment and structure

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*	Back alignment and structure

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}	Back alignment and structure

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*	Back alignment and structure

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A*	Back alignment and structure

>3f9x_A Histone-lysine N-methyltransferase SETD8; methyltransferase, SET, lysine, alternative splicing, cell cycle, cell division, chromatin regulator, chromosomal protein, coiled coil; HET: MLY SAH; 1.25A {Homo sapiens} PDB: 3f9w_A* 3f9y_A* 3f9z_A* 1zkk_A* 4ij8_A* 2bqz_A*	Back alignment and structure

>2w5y_A Histone-lysine N-methyltransferase HRX; transcription regulation, chromosomal rearrangement, protein lysine methyltransferase, proto-oncogene; HET: SAH; 2.00A {Homo sapiens} PDB: 2w5z_A*	Back alignment and structure

>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus; HET: SAM; 2.90A {Homo sapiens}	Back alignment and structure

>3ooi_A Histone-lysine N-methyltransferase, H3 lysine-36 lysine-20 specific; SET domain, S-adenosyl-L methionine; HET: SAM; 1.75A {Homo sapiens}	Back alignment and structure

>3rq4_A Histone-lysine N-methyltransferase SUV420H2; suppressor, variegation 4-20 homolog 2, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.80A {Homo sapiens}	Back alignment and structure

>3s8p_A Histone-lysine N-methyltransferase SUV420H1; SET domain, histone methyltransferase, transcription regulat histone lysine, SAM, methylation, nucleus; HET: MSE SAM; 1.85A {Homo sapiens}	Back alignment and structure

>2f69_A Histone-lysine N-methyltransferase, H3 lysine-4 specific SET7; SET domain, protein lysine methyltransferase, enzyme- peptide-adohcy complex; HET: MLZ SAH; 1.30A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 3m53_A* 3m55_A* 3m54_A* 3m56_A* 3m58_A* 3m57_A* 3m59_A* 3m5a_A* 1xqh_A* 4e47_A* 1n6a_A* 1o9s_A* 3cbp_A* 3cbm_A* 3cbo_A* 3os5_A*	Back alignment and structure

>1h3i_A Histone H3 lysine 4 specific methyltransferase; 2.1A {Homo sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 1mt6_A* 1n6c_A* 1muf_A	Back alignment and structure

>3bo5_A Histone-lysine N-methyltransferase setmar; SET domain, chromati regulator, DNA damage, DNA repair, DNA-binding, nucleus, ST genomics; HET: SAH; 1.59A {Homo sapiens}	Back alignment and structure

>3hna_A Histone-lysine N-methyltransferase, H3 lysine-9 specific 5; EHMT1, structural genomics, SGC, structural genomics consortium, alternative splicing, ANK repeat; HET: MLZ SAH; 1.50A {Homo sapiens} PDB: 2rfi_A* 2igq_A* 3mo0_A* 3mo2_A* 3mo5_A* 3sw9_A* 3swc_A* 4h4h_A* 4i51_A* 3fpd_A* 3k5k_A* 3nni_A* 3rjw_A* 2o8j_A*	Back alignment and structure

>1ml9_A Histone H3 methyltransferase DIM-5; adoMet-dependent methyltransferase histone H3 lysine- 9 methylation; 1.98A {Neurospora crassa} SCOP: b.85.7.1 PDB: 1peg_A*	Back alignment and structure

>2r3a_A Histone-lysine N-methyltransferase SUV39H2; histone H3-K9 methyltransferase 2, H3 lysine-9 specific 2, alternative splicing, cell cycle; HET: SAM; 2.00A {Homo sapiens}	Back alignment and structure

>1mvh_A Cryptic LOCI regulator 4; lysine methyltransferase, CLR4, SET-domain; 2.30A {Schizosaccharomyces pombe} SCOP: b.85.7.1 PDB: 1mvx_A	Back alignment and structure

>2qpw_A PR domain zinc finger protein 2; methyltransferase, activator, alternative initiation, alternative splicing, DNA-binding, metal-binding, nucleus; 1.79A {Homo sapiens} PDB: 2jv0_A*	Back alignment and structure

>3db5_A PR domain zinc finger protein 4; methyltransferase, PRDM4, structural genomics, structural GE consortium, SGC, DNA-binding, metal-binding, nucleus; 2.15A {Homo sapiens}	Back alignment and structure

>3ep0_A PR domain zinc finger protein 12; PR domain-containing protein 12, structural genomics, structural genomics consortium, SGC, DNA-binding; 2.10A {Homo sapiens}	Back alignment and structure

>3dal_A PR domain zinc finger protein 1; methyltransferase, PRDM1, structural genomics, structural genomics consortium, SGC, DNA-binding, metal-binding; 1.65A {Homo sapiens}	Back alignment and structure

>3ihx_A PR domain zinc finger protein 10; PRDM10, methyltransferase, structural genomics, structural G consortium, SGC, DNA-binding, metal-binding, nucleus; 2.50A {Homo sapiens}	Back alignment and structure

>1n3j_A A612L, histone H3 lysine methyltransferase; beta barrel, homodimer; NMR {Paramecium bursaria chlorella virus 1} SCOP: b.85.7.2 PDB: 2g46_A* 3kma_A 3kmj_A 3kmt_A*	Back alignment and structure

>3ray_A PR domain-containing protein 11; structural genomics consortium, SGC, histone methylation, Zn transcriptional regulation, chromatin, transcription; 1.73A {Homo sapiens}	Back alignment and structure

>3f9x_A Histone-lysine N-methyltransferase SETD8; methyltransferase, SET, lysine, alternative splicing, cell cycle, cell division, chromatin regulator, chromosomal protein, coiled coil; HET: MLY SAH; 1.25A {Homo sapiens} PDB: 3f9w_A* 3f9y_A* 3f9z_A* 1zkk_A* 4ij8_A* 2bqz_A*	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		478
d2h2ja2		261	b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain	9e-25
d2h2ja1		176	a.166.1.1 (A:311-486) RuBisCo LSMT C-terminal, sub	2e-11
d2f69a2		171	b.85.7.1 (A:194-364) Histone H3 K4-specific methyl	1e-04
d1mvha_		269	b.85.7.1 (A:) SET domain of Clr4 {Fission yeast (S	3e-04
d1ml9a_		284	b.85.7.1 (A:) Dim-5 {Fungus (Neurospora crassa) [T	0.001
d2g46a1		119	b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Meth	0.002

>d2h2ja2 b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 261	Back information, alignment and structure


class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: RuBisCo LSMT catalytic domain
domain: RuBisCo LSMT catalytic domain
species: Garden pea (Pisum sativum) [TaxId: 3888]

 Score =  100 bits (250), Expect = 9e-25
 Identities = 59/262 (22%), Positives = 95/262 (36%), Gaps = 37/262 (14%)

Query: 87  VEFKEGPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPIFDI 146
           V+     +G G+ A KDI       +++Q+P  L +                        
Sbjct: 24  VKASVVTEGLGLVALKDISR---NDVILQVPKRLWINPDAVAA---------------SE 65

Query: 147 INSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPN 206
           I     E    L +   L+    ++D+ W+ Y   LP   E  S +  +EE+L ELQ   
Sbjct: 66  IGRVCSELKPWLSVILFLIRERSREDSVWKHYFGILP--QETDSTIYWSEEELQELQGSQ 123

Query: 207 LASTMREQQKRAREFWEKNWHSGVPLKIKRLAHDP---ERFIWAVSIAQSRCINMQVRIG 263
           L  T    ++  +    K     + L  KRL  DP   + F WA  I +SR  +      
Sbjct: 124 LLKTTVSVKEYVKNECLK-LEQEIILPNKRLFPDPVTLDDFFWAFGILRSRAFSRLRNEN 182

Query: 264 ALVQDANMLIPYADMLNHSFQPNCFFHW-------RFKDRMLEVMVNAGQHVRRGEEMTV 316
                  +++P AD++NHS       H                  + +   V+ GE++ +
Sbjct: 183 L------VVVPMADLINHSAGVTTEDHAYEVKGAAGLFSWDYLFSLKSPLSVKAGEQVYI 236

Query: 317 NYMHGQMNDMLMQRYGFSSPVN 338
            Y   + N  L   YGF  P  
Sbjct: 237 QYDLNKSNAELALDYGFIEPNE 258

PyMOL of d2h2ja2

>d2h2ja1 a.166.1.1 (A:311-486) RuBisCo LSMT C-terminal, substrate-binding domain {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 176	Back information, alignment and structure

>d2f69a2 b.85.7.1 (A:194-364) Histone H3 K4-specific methyltransferase SET7/9 catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 171	Back information, alignment and structure

>d1mvha_ b.85.7.1 (A:) SET domain of Clr4 {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 269	Back information, alignment and structure

>d1ml9a_ b.85.7.1 (A:) Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]} Length = 284	Back information, alignment and structure

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]} Length = 119	Back information, alignment and structure

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	Probability
Query		478
d2h2ja2		261	RuBisCo LSMT catalytic domain {Garden pea (Pisum s	100.0
d2h2ja1		176	RuBisCo LSMT C-terminal, substrate-binding domain	99.69
d2g46a1		119	Viral histone H3 Lysine 27 Methyltransferase {Para	98.14
d2f69a2		171	Histone H3 K4-specific methyltransferase SET7/9 ca	97.68
d1mvha_		269	SET domain of Clr4 {Fission yeast (Schizosaccharom	97.01
d1ml9a_		284	Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}	97.01
d2g46a1		119	Viral histone H3 Lysine 27 Methyltransferase {Para	86.59

>d2h2ja2 b.85.7.3 (A:50-310) RuBisCo LSMT catalytic domain {Garden pea (Pisum sativum) [TaxId: 3888]}	Back information, alignment and structure

class: All beta proteins
fold: beta-clip
superfamily: SET domain
family: RuBisCo LSMT catalytic domain
domain: RuBisCo LSMT catalytic domain
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=100.00  E-value=6.4e-40  Score=316.82  Aligned_cols=242  Identities=23%  Similarity=0.333  Sum_probs=190.3

Q ss_pred             cchhhhhHHhhcCcCCceeec-------CCCccEEEEccCCCcccCCceEEEcCcccccccccccCCCCCCCCCCCCchh
Q 011739           71 PDFYKIGYVRSMRAYGVEFKE-------GPDGFGVFASKDIEPRRRARLVMQIPLELMLTIRQKLPWMFFPDIVPLGHPI  143 (478)
Q Consensus        71 ~d~~~~~~~~w~~~~gv~i~~-------~~~GrGl~At~dI~~~~~ge~ll~IP~~~~ls~~~~~~~~~f~~~~~lg~~~  143 (478)
                      |.+.  .|++|+.++|+.+..       .+.||||+|++||++   ||+|++||.+++||.+++..+       .+++  
T Consensus         3 ~~~~--~~~~W~~~~g~~~~~~~~~~~~~~~GrGl~AtrdI~~---Ge~il~vP~~~~lt~~~~~~~-------~~~~--   68 (261)
T d2h2ja2           3 PAVQ--TFWKWLQEEGVITAKTPVKASVVTEGLGLVALKDISR---NDVILQVPKRLWINPDAVAAS-------EIGR--   68 (261)
T ss_dssp             HHHH--HHHHHHHTTTSSCSSCCCEEEEETTEEEEECSSCCCT---TCEEEEEEGGGCCSHHHHHTS-------GGGT--
T ss_pred             hHHH--HHHHHHHHCCCccCCceEeecCCCceeEEEECCcCCC---CCEEEEeChHHhccHHHhhhh-------HHHH--
Confidence            3455  899999988876643       256999999999998   899999999999999876532       1222  


Q ss_pred             hhhhhcCCCCCchhHHHHHHHHHHhCCCCChhHHHhhhCCCCCCCCccccCCHHHHhccCCCcHHHHHHHHHHHHHHHHH
Q 011739          144 FDIINSTDPETDWDLRLACLLLYAFDQDDNFWQLYGDFLPNADECTSLLLATEEDLMELQDPNLASTMREQQKRAREFWE  223 (478)
Q Consensus       144 ~~~~~~~~~~~~~~~~Lal~Ll~e~~g~~S~w~pYl~~LP~~~~~~~pl~ws~~el~~L~gt~l~~~~~~~~~~~~~~~~  223 (478)
                        .+..   ..+| ..|+++|++|+.+..|.|++|+++||+..  .+|++|+.+++..|+++.+...+....+.+.+.|.
T Consensus        69 --~~~~---~~~~-~~l~~~l~~e~~~~~s~~~~y~~~lp~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  140 (261)
T d2h2ja2          69 --VCSE---LKPW-LSVILFLIRERSREDSVWKHYFGILPQET--DSTIYWSEEELQELQGSQLLKTTVSVKEYVKNECL  140 (261)
T ss_dssp             --TTTT---SCHH-HHHHHHHHHHHHCTTCTTHHHHTTSCSCC--SCGGGCCHHHHHTTTTCHHHHHHHHHHHHHHHHHH
T ss_pred             --HHhh---cCcH-HHHHHHHHHHHhCCCCchhhhhhcccccc--CCcccCCHHHHHHcCCcHHHHHHHHHHHHHHHHHH
Confidence              1211   2334 77899999999999999999999999986  58999999999999999999999888888888887


Q ss_pred             HhhcCCCC--ccccccCCCHHHHHHHHHhhhhcceeeecccccccCCcceeeeecccCCCCCCCCceEEEeee-------
Q 011739          224 KNWHSGVP--LKIKRLAHDPERFIWAVSIAQSRCINMQVRIGALVQDANMLIPYADMLNHSFQPNCFFHWRFK-------  294 (478)
Q Consensus       224 ~~~~~~~p--~~~~~~~~t~e~f~WA~~~V~SRaf~~~~~~~~~~~~~~~LvP~~Dm~NH~~~~~~~~~~~~~-------  294 (478)
                      +.......  .......++++.|.||+++|.||+|..+.      ....+|+|++||+||+..+|+...+...       
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~v~sr~~~~~~------~~~~~l~P~~d~~NHsc~pn~~~~~~~~~~~~~~~  214 (261)
T d2h2ja2         141 KLEQEIILPNKRLFPDPVTLDDFFWAFGILRSRAFSRLR------NENLVVVPMADLINHSAGVTTEDHAYEVKGAAGLF  214 (261)
T ss_dssp             HHHHHTTTTTTTTCCSCCCHHHHHHHHHHHHHHSBCCC---------CCBCCTTGGGCEECSSCCSCCCCCC--------
T ss_pred             HHHHHHHhhhhhhccCccCHHHHHHHHHHhhcccccccc------cccccchhhhHHhhcCCCCCcccccccccCccccc
Confidence            76532111  01122347899999999999999999865      3578999999999999999885443321       


Q ss_pred             CCeEEEEEEecccCCCCcEEEEcCCCCCCcHHHHHhCCccCCC-CCC
Q 011739          295 DRMLEVMVNAGQHVRRGEEMTVNYMHGQMNDMLMQRYGFSSPV-NPW  340 (478)
Q Consensus       295 ~~~~~~~l~a~r~i~~GeEv~isYG~~~sN~~LL~~YGFv~~~-Np~  340 (478)
                      .+...++|+|.|+|++||||||+||+..+|++||.+||||+++ |||
T Consensus       215 ~~~~~~~l~A~r~I~~GEEI~isYG~~~~n~~ll~~yGFv~~~~n~~  261 (261)
T d2h2ja2         215 SWDYLFSLKSPLSVKAGEQVYIQYDLNKSNAELALDYGFIEPNENRH  261 (261)
T ss_dssp             ---CEEEEECSSCCCTTSBCEECSCSSCCHHHHHHHSSCCCSCGGGC
T ss_pred             CCCcEEEEEECCCCCCCCEEEEecCCCCCHHHHHHhCCCCCCCCCCC
Confidence            1122388999999999999999999644899999999999875 887

PyMOL of d2h2ja2

>d2h2ja1 a.166.1.1 (A:311-486) RuBisCo LSMT C-terminal, substrate-binding domain {Garden pea (Pisum sativum) [TaxId: 3888]}	Back information, alignment and structure

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}	Back information, alignment and structure

>d2f69a2 b.85.7.1 (A:194-364) Histone H3 K4-specific methyltransferase SET7/9 catalytic domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1mvha_ b.85.7.1 (A:) SET domain of Clr4 {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}	Back information, alignment and structure

>d1ml9a_ b.85.7.1 (A:) Dim-5 {Fungus (Neurospora crassa) [TaxId: 5141]}	Back information, alignment and structure

>d2g46a1 b.85.7.2 (A:1-119) Viral histone H3 Lysine 27 Methyltransferase {Paramecium bursaria chlorella virus 1, PBCV-1 [TaxId: 10506]}	Back information, alignment and structure