Citrus Sinensis ID: 023640

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-------28

MRYDSSLGKYNGKPRPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQMGQDISGACGQLVVNLPDKISAKSTPPVTDIEDLCIR

cccccccccccccccccccccEEEEcccccccccccccccccccccccccHHHHHHHHHHHHHccccccEEEcccccccccHHHHHHHHHHccccccccccccEEEEccccHHHHHHHHHcccccEEEEEcccccHHHHHHHccccccccHHHHHHHHHHHHHHcccEEEEEEEEcccccccHHHHHHHHHHHcccccEEEEEcccccccccccccccHHHHHHHHHHHHHcccEEEEEEccccccHHHHccccccccccccccccccccccccccccc

ccEEEEEEEEEcEEcccccccEEEEEcccccccccEEEccccccccccccHHHHHHHHHHHHHcccccEEEEEccccccHcHHHHHHHHHHHcccccccccEEEEEEcccHHHHHHHHHHccccEEEEEEEccccHHHHHHcHHHHccccHHHHHHHHHHHHHHcccEEEEEEEEEccccccHHHHHHHHHHHcccccEEEEEEccccccccccccccHHHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHHcccccccHHHHHHHHHHHccEEcc

mrydsslgkyngkprpggprstlcissqvgckmgcnfcatgtmgfksnlssgEIVEQLVHASRLSNIRNVVfmgmgeplnNYAALVEAVRImtglpfqvspkritvSTVGIVHAINKFhsdlpglnlavslhapvqdvrcqimpaaraFPLEKLMNALKEYQKNSQQKIFIEYIMldgvndeeQHAHQLGKLLETFQVVVNLipfnpigsvsqfrtssddkvsSFQKILRGSYNIRTTVRKQMgqdisgacgqlvvnlpdkisakstppvtdiedlcir

mrydsslgkyngkprpggprstLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQMGQDISGACGQLVVNlpdkisakstppvtdiedlcir

*********************TLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQF*********SFQKILRGSYNIRTTVRKQMGQDISGACGQLVVNLP********************

*RYDSSLGKYNGKPRPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQMGQDISGACGQ*********************D*C**

MRYDSSLGKYNGKPRPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQ***********FQKILRGSYNIRTTVRKQMGQDISGACGQLVVNLPDKISAKSTPPVTDIEDLCIR

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		279	2.2.26 [Sep-21-2011]
A0LQM1		342	Dual-specificity RNA meth	yes	no	0.845	0.690	0.48	6e-57
Q0VND7		381	Dual-specificity RNA meth	yes	no	0.870	0.637	0.459	5e-54
Q6MDD0		358	Probable dual-specificity	yes	no	0.853	0.664	0.422	3e-53
Q1DCU1		359	Dual-specificity RNA meth	yes	no	0.881	0.685	0.411	1e-52
A1WXZ3		359	Dual-specificity RNA meth	yes	no	0.899	0.699	0.448	3e-52
A1WE19		391	Dual-specificity RNA meth	yes	no	0.870	0.621	0.455	6e-52
A2SHB8		394	Dual-specificity RNA meth	yes	no	0.888	0.629	0.444	4e-51
Q2J713		421	Probable dual-specificity	yes	no	0.845	0.560	0.434	4e-51
A9A3L9		351	Ribosomal RNA large subun	yes	no	0.903	0.717	0.394	5e-51
A1TM24		373	Dual-specificity RNA meth	yes	no	0.881	0.659	0.452	6e-51

>sp\|A0LQM1\|RLMN_SYNFM Dual-specificity RNA methyltransferase RlmN OS=Syntrophobacter fumaroxidans (strain DSM 10017 / MPOB) GN=rlmN PE=3 SV=1	Back alignment and function desciption

 Score =  221 bits (562), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 120/250 (48%), Positives = 165/250 (66%), Gaps = 14/250 (5%)

Query: 16  PGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASR----LSNIRNVV 71
           P  PRSTLC+SSQVGC +GC FC TG++GFK NLS+ EIV+Q+    R     S I N+V
Sbjct: 97  PDLPRSTLCVSSQVGCALGCKFCLTGSLGFKRNLSAAEIVDQVCQVQRDLGSRSRITNIV 156

Query: 72  FMGMGEPLNNYAALVEAVRIMT---GLPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLA 128
           FMGMGEPL N  +++ A+R++    G+ F  S +RIT+ST G+V  + +   + P +NLA
Sbjct: 157 FMGMGEPLANLDSVLRAIRVIAEPNGMAF--SHRRITLSTAGLVPQLRRLGRESP-VNLA 213

Query: 129 VSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQ 188
           VSLHA   ++R ++MP  R +PLE LM A +EY    +++I  EYI+LDG+ND+ + A Q
Sbjct: 214 VSLHAAENELRAELMPVNRTYPLEVLMAACREYPLPPRKRITFEYILLDGINDDPKQAKQ 273

Query: 189 LGKLLETFQVVVNLIPFNP-IGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQMGQDI 247
           L KLL   +  VNL+PFNP  GSV  FR  S+ +V +FQ+ L+ +  I T VR+  G +I
Sbjct: 274 LVKLLHGIRAKVNLMPFNPHPGSV--FRKPSEQRVLAFQEALQNA-RITTHVRRSRGGEI 330

Query: 248 SGACGQLVVN 257
             ACGQLV  
Sbjct: 331 GAACGQLVAE 340

Specifically methylates position 2 of adenine 2503 in 23S rRNA.
Syntrophobacter fumaroxidans (strain DSM 10017 / MPOB) (taxid: 335543)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 9EC: 2

>sp\|Q0VND7\|RLMN_ALCBS Dual-specificity RNA methyltransferase RlmN OS=Alcanivorax borkumensis (strain SK2 / ATCC 700651 / DSM 11573) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|Q6MDD0\|RLMN2_PARUW Probable dual-specificity RNA methyltransferase RlmN 2 OS=Protochlamydia amoebophila (strain UWE25) GN=rlmN2 PE=3 SV=2	Back alignment and function description

>sp\|Q1DCU1\|RLMN1_MYXXD Dual-specificity RNA methyltransferase RlmN 1 OS=Myxococcus xanthus (strain DK 1622) GN=rlmN1 PE=3 SV=1	Back alignment and function description

>sp\|A1WXZ3\|RLMN_HALHL Dual-specificity RNA methyltransferase RlmN OS=Halorhodospira halophila (strain DSM 244 / SL1) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|A1WE19\|RLMN_VEREI Dual-specificity RNA methyltransferase RlmN OS=Verminephrobacter eiseniae (strain EF01-2) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|A2SHB8\|RLMN_METPP Dual-specificity RNA methyltransferase RlmN OS=Methylibium petroleiphilum (strain PM1) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|Q2J713\|RLMN_FRASC Probable dual-specificity RNA methyltransferase RlmN OS=Frankia sp. (strain CcI3) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|A9A3L9\|RLMN_NITMS Ribosomal RNA large subunit methyltransferase N OS=Nitrosopumilus maritimus (strain SCM1) GN=rlmN PE=3 SV=1	Back alignment and function description

>sp\|A1TM24\|RLMN_ACIAC Dual-specificity RNA methyltransferase RlmN OS=Acidovorax citrulli (strain AAC00-1) GN=rlmN 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		279
449438321		384	PREDICTED: dual-specificity RNA methyltr	0.989	0.718	0.836	1e-138
224060769		373	predicted protein [Populus trichocarpa]	0.985	0.737	0.858	1e-137
225428987		372	PREDICTED: ribosomal RNA large subunit m	0.989	0.741	0.840	1e-135
356539162		378	PREDICTED: ribosomal RNA large subunit m	0.992	0.732	0.809	1e-132
357480659		380	Ribosomal RNA large subunit methyltransf	0.992	0.728	0.805	1e-132
357113533		382	PREDICTED: ribosomal RNA large subunit m	0.996	0.727	0.791	1e-130
242036573		381	hypothetical protein SORBIDRAFT_01g04367	0.996	0.729	0.784	1e-129
226498566		381	uncharacterized protein LOC100277741 [Ze	0.996	0.729	0.784	1e-128
414865368		381	TPA: hypothetical protein ZEAMMB73_09002	0.996	0.729	0.784	1e-128
218192280		388	hypothetical protein OsI_10424 [Oryza sa	0.996	0.716	0.780	1e-128

>gi\|449438321\|ref\|XP_004136937.1\| PREDICTED: dual-specificity RNA methyltransferase RlmN 1-like [Cucumis sativus] gi\|449495695\|ref\|XP_004159917.1\| PREDICTED: dual-specificity RNA methyltransferase RlmN 1-like [Cucumis sativus]	Back alignment and taxonomy information

 Score =  496 bits (1276), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 231/276 (83%), Positives = 255/276 (92%)

Query: 1   MRYDSSLGKYNGKPRPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVH 60
           MRYD+ LGKY GKPRPGG RSTLCISSQVGCKMGC FCATGTMGFKSNL+SGEIVEQLVH
Sbjct: 107 MRYDTRLGKYGGKPRPGGLRSTLCISSQVGCKMGCRFCATGTMGFKSNLTSGEIVEQLVH 166

Query: 61  ASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHS 120
           ASR S IRN+VFMGMGEPLNNY++LVEAVR M   PF +SPKRIT+STVGI+HAINK HS
Sbjct: 167 ASRFSQIRNIVFMGMGEPLNNYSSLVEAVRAMMAPPFLLSPKRITISTVGIIHAINKLHS 226

Query: 121 DLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVN 180
           DLPGLNLAVSLHAPVQD+RCQIMPAARAFPL+KLM+AL+EYQK SQQKI IEYIMLDGVN
Sbjct: 227 DLPGLNLAVSLHAPVQDIRCQIMPAARAFPLQKLMDALQEYQKKSQQKILIEYIMLDGVN 286

Query: 181 DEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVR 240
           DEEQHAHQLGKLLETFQV+VNLIPFNPIGS SQF+TSSD+KVS FQ++LRG+YNIRTT+R
Sbjct: 287 DEEQHAHQLGKLLETFQVIVNLIPFNPIGSSSQFKTSSDEKVSVFQQVLRGTYNIRTTIR 346

Query: 241 KQMGQDISGACGQLVVNLPDKISAKSTPPVTDIEDL 276
           KQMGQDISGACGQLVV+LP++ S+K +  V DIEDL
Sbjct: 347 KQMGQDISGACGQLVVSLPNRSSSKQSSVVPDIEDL 382

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224060769\|ref\|XP_002300266.1\| predicted protein [Populus trichocarpa] gi\|222847524\|gb\|EEE85071.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|225428987\|ref\|XP_002265287.1\| PREDICTED: ribosomal RNA large subunit methyltransferase N [Vitis vinifera] gi\|147817733\|emb\|CAN60150.1\| hypothetical protein VITISV_044331 [Vitis vinifera] gi\|296083052\|emb\|CBI22456.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|356539162\|ref\|XP_003538069.1\| PREDICTED: ribosomal RNA large subunit methyltransferase N 1-like [Glycine max]	Back alignment and taxonomy information

>gi\|357480659\|ref\|XP_003610615.1\| Ribosomal RNA large subunit methyltransferase N [Medicago truncatula] gi\|355511950\|gb\|AES93573.1\| Ribosomal RNA large subunit methyltransferase N [Medicago truncatula]	Back alignment and taxonomy information

>gi\|357113533\|ref\|XP_003558557.1\| PREDICTED: ribosomal RNA large subunit methyltransferase N 2-like [Brachypodium distachyon]	Back alignment and taxonomy information

>gi\|242036573\|ref\|XP_002465681.1\| hypothetical protein SORBIDRAFT_01g043670 [Sorghum bicolor] gi\|241919535\|gb\|EER92679.1\| hypothetical protein SORBIDRAFT_01g043670 [Sorghum bicolor]	Back alignment and taxonomy information

>gi\|226498566\|ref\|NP_001144705.1\| uncharacterized protein LOC100277741 [Zea mays] gi\|195646072\|gb\|ACG42504.1\| hypothetical protein [Zea mays]	Back alignment and taxonomy information

>gi\|414865368\|tpg\|DAA43925.1\| TPA: hypothetical protein ZEAMMB73_090029 [Zea mays]	Back alignment and taxonomy information

>gi\|218192280\|gb\|EEC74707.1\| hypothetical protein OsI_10424 [Oryza sativa Indica Group]	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		279
TAIR\|locus:2091161		372	AT3G19630 [Arabidopsis thalian	0.996	0.747	0.784	5.6e-116
DICTYBASE\|DDB_G0288255		407	DDB_G0288255 "putative ribosom	0.913	0.626	0.424	6.5e-51
UNIPROTKB\|Q603C0		366	rlmN "Dual-specificity RNA met	0.870	0.663	0.432	7.7e-48
UNIPROTKB\|P36979		384	rlmN "23S rRNA m2A2503 methylt	0.870	0.632	0.420	6.2e-46
UNIPROTKB\|Q8EC29		373	rlmN "Dual-specificity RNA met	0.870	0.651	0.393	3.1e-44
TIGR_CMR\|SO_3315		373	SO_3315 "conserved hypothetica	0.870	0.651	0.393	3.1e-44
UNIPROTKB\|Q9KTX3		373	rlmN "Dual-specificity RNA met	0.870	0.651	0.409	5e-44
TIGR_CMR\|VC_0757		373	VC_0757 "conserved hypothetica	0.870	0.651	0.409	5e-44
UNIPROTKB\|Q83C77		370	rlmN "Dual-specificity RNA met	0.870	0.656	0.408	6.4e-44
TIGR_CMR\|CBU_1252		370	CBU_1252 "radical SAM enzyme,	0.870	0.656	0.408	6.4e-44

TAIR\|locus:2091161 AT3G19630 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1143 (407.4 bits), Expect = 5.6e-116, P = 5.6e-116
 Identities = 218/278 (78%), Positives = 246/278 (88%)

Query:     1 MRYDSSLGKYNGKPRPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVH 60
             MRYD+ LG   GKPRPGG RSTLCISSQVGCKMGC FCATGTMGFKSNL+SGEIVEQLVH
Sbjct:    95 MRYDTRLGMLGGKPRPGGIRSTLCISSQVGCKMGCTFCATGTMGFKSNLTSGEIVEQLVH 154

Query:    61 ASRLSNIRNVVFMGMGEPLNNYAALVEAVRIMTGLPFQVSPKRITVSTVGIVHAINKFHS 120
             ASR+++IRN+VFMGMGEPLNNY A+VEAVR+M   PFQ+SPKRIT+STVGIVHAINK H+
Sbjct:   155 ASRIADIRNIVFMGMGEPLNNYNAVVEAVRVMLNQPFQLSPKRITISTVGIVHAINKLHN 214

Query:   121 DLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVN 180
             DLPG++LAVSLHAPVQ++RCQIMPAARAFPL+KLM+AL+ +QKNSQQKIFIEYIMLDGVN
Sbjct:   215 DLPGVSLAVSLHAPVQEIRCQIMPAARAFPLQKLMDALQTFQKNSQQKIFIEYIMLDGVN 274

Query:   181 DEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVR 240
             D+EQHAH LG+LL+TFQVV+NLIPFNPIGS SQF TSS   VS FQKILR +Y IRTT+R
Sbjct:   275 DQEQHAHLLGELLKTFQVVINLIPFNPIGSTSQFETSSIQGVSRFQKILRETYKIRTTIR 334

Query:   241 KQMGQDISGACGQLVVNLPDKISAKSTPPVTDIEDLCI 278
             K+MGQDISGACGQLVVN PD      T  + DIEDL +
Sbjct:   335 KEMGQDISGACGQLVVNQPDIKKTPGTVELRDIEDLLL 372

GO:0003824 "catalytic activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0008173 "RNA methyltransferase activity" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

DICTYBASE\|DDB_G0288255 DDB_G0288255 "putative ribosomal RNA large subunit methyltransferase N" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

UNIPROTKB\|Q603C0 rlmN "Dual-specificity RNA methyltransferase RlmN" [Methylococcus capsulatus str. Bath (taxid:243233)]	Back alignment and assigned GO terms

UNIPROTKB\|P36979 rlmN "23S rRNA m2A2503 methyltransferase and tRNA m2A37 methyltransferase" [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8EC29 rlmN "Dual-specificity RNA methyltransferase RlmN" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_3315 SO_3315 "conserved hypothetical protein TIGR00048" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9KTX3 rlmN "Dual-specificity RNA methyltransferase RlmN" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]	Back alignment and assigned GO terms

TIGR_CMR\|VC_0757 VC_0757 "conserved hypothetical protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)]	Back alignment and assigned GO terms

UNIPROTKB\|Q83C77 rlmN "Dual-specificity RNA methyltransferase RlmN" [Coxiella burnetii RSA 493 (taxid:227377)]	Back alignment and assigned GO terms

TIGR_CMR\|CBU_1252 CBU_1252 "radical SAM enzyme, Cfr family" [Coxiella burnetii RSA 493 (taxid:227377)]	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	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		279
COG0820		349	COG0820, COG0820, Predicted Fe-S-cluster redox enz	2e-99
TIGR00048		355	TIGR00048, TIGR00048, 23S rRNA m2A2503 methyltrans	2e-85
PRK14460		354	PRK14460, PRK14460, ribosomal RNA large subunit me	2e-80
PRK14468		343	PRK14468, PRK14468, ribosomal RNA large subunit me	2e-76
PRK14459		373	PRK14459, PRK14459, ribosomal RNA large subunit me	4e-76
PRK14457		345	PRK14457, PRK14457, ribosomal RNA large subunit me	6e-76
PRK14454		342	PRK14454, PRK14454, ribosomal RNA large subunit me	7e-76
PRK14469		343	PRK14469, PRK14469, ribosomal RNA large subunit me	1e-74
PRK14455		356	PRK14455, PRK14455, ribosomal RNA large subunit me	3e-74
PRK14463		349	PRK14463, PRK14463, ribosomal RNA large subunit me	3e-74
PRK14467		348	PRK14467, PRK14467, ribosomal RNA large subunit me	4e-74
PRK14462		356	PRK14462, PRK14462, ribosomal RNA large subunit me	2e-73
PRK11194		372	PRK11194, PRK11194, ribosomal RNA large subunit me	2e-72
PRK14453		347	PRK14453, PRK14453, chloramphenicol/florfenicol re	5e-71
PRK14466		345	PRK14466, PRK14466, ribosomal RNA large subunit me	2e-69
PRK14461		371	PRK14461, PRK14461, ribosomal RNA large subunit me	3e-68
PRK14456		368	PRK14456, PRK14456, ribosomal RNA large subunit me	5e-63
PRK14465		342	PRK14465, PRK14465, ribosomal RNA large subunit me	1e-55
PRK14470		336	PRK14470, PRK14470, ribosomal RNA large subunit me	9e-50
PRK14464		344	PRK14464, PRK14464, ribosomal RNA large subunit me	7e-45
pfam04055		165	pfam04055, Radical_SAM, Radical SAM superfamily	1e-12
cd01335		204	cd01335, Radical_SAM, Radical SAM superfamily	8e-06
TIGR03906		467	TIGR03906, quino_hemo_SAM, quinohemoprotein amine	0.001

>gnl\|CDD\|223890 COG0820, COG0820, Predicted Fe-S-cluster redox enzyme [General function prediction only]	Back alignment and domain information

 Score =  294 bits (755), Expect = 2e-99
 Identities = 114/245 (46%), Positives = 157/245 (64%), Gaps = 9/245 (3%)

Query: 20  RSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRL------SNIRNVVFM 73
           R+TLC+SSQVGC +GC FCATG  G   NLS+GEIVEQ++ A++         I NVVFM
Sbjct: 100 RNTLCVSSQVGCPVGCTFCATGQGGLNRNLSAGEIVEQVLLAAKALGEDFGRRISNVVFM 159

Query: 74  GMGEPLNNYAALVEAVRIMTG-LPFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLH 132
           GMGEPL N   +V+A+ I+       +S +RITVST GIV  I K   +  G+ LA+SLH
Sbjct: 160 GMGEPLLNLDNVVKALEIINDDEGLGLSKRRITVSTSGIVPRIRKLADEQLGVALAISLH 219

Query: 133 APVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKL 192
           AP  ++R Q+MP  + +P+E+L+ A++ Y + S +++  EY++LDGVND  +HA +L KL
Sbjct: 220 APNDELRDQLMPINKKYPIEELLEAIRYYPEKSGRRVTFEYVLLDGVNDSLEHAKELAKL 279

Query: 193 LETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQMGQDISGACG 252
           L+     VNLIP+NP+   S +  SS +++  F KIL     +  TVRK  G DI  ACG
Sbjct: 280 LKGIPCKVNLIPYNPV-PGSDYERSSKERIRKFLKIL-KKAGVLVTVRKTRGDDIDAACG 337

Query: 253 QLVVN 257
           QL   
Sbjct: 338 QLRGK 342

Length = 349

>gnl\|CDD\|232798 TIGR00048, TIGR00048, 23S rRNA m2A2503 methyltransferase	Back alignment and domain information

>gnl\|CDD\|172935 PRK14460, PRK14460, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184694 PRK14468, PRK14468, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184689 PRK14459, PRK14459, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184688 PRK14457, PRK14457, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184686 PRK14454, PRK14454, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|172944 PRK14469, PRK14469, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|237717 PRK14455, PRK14455, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|237720 PRK14463, PRK14463, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184693 PRK14467, PRK14467, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|237719 PRK14462, PRK14462, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|183031 PRK11194, PRK11194, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184685 PRK14453, PRK14453, chloramphenicol/florfenicol resistance protein; Provisional	Back alignment and domain information

>gnl\|CDD\|237721 PRK14466, PRK14466, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|237718 PRK14461, PRK14461, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|172932 PRK14456, PRK14456, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|172940 PRK14465, PRK14465, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|172945 PRK14470, PRK14470, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|184691 PRK14464, PRK14464, ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>gnl\|CDD\|217866 pfam04055, Radical_SAM, Radical SAM superfamily	Back alignment and domain information

>gnl\|CDD\|100105 cd01335, Radical_SAM, Radical SAM superfamily	Back alignment and domain information

>gnl\|CDD\|234391 TIGR03906, quino_hemo_SAM, quinohemoprotein amine dehydrogenase maturation protein	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		279
PRK14461		371	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14467		348	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14466		345	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14459		373	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14457		345	ribosomal RNA large subunit methyltransferase N; P	100.0
TIGR00048		355	radical SAM enzyme, Cfr family. A Staphylococcus s	100.0
PRK14462		356	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14468		343	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14465		342	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14470		336	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14454		342	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14455		356	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14456		368	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14463		349	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14453		347	chloramphenicol/florfenicol resistance protein; Pr	100.0
PRK14469		343	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK14460		354	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK11194		372	ribosomal RNA large subunit methyltransferase N; P	100.0
COG0820		349	Predicted Fe-S-cluster redox enzyme [General funct	100.0
PRK14464		344	ribosomal RNA large subunit methyltransferase N; P	100.0
PRK11145		246	pflA pyruvate formate lyase-activating enzyme 1; P	99.98
COG1180		260	PflA Pyruvate-formate lyase-activating enzyme [Pos	99.97
TIGR02493		235	PFLA pyruvate formate-lyase 1-activating enzyme. A	99.96
COG2896		322	MoaA Molybdenum cofactor biosynthesis enzyme [Coen	99.95
TIGR01290		442	nifB nitrogenase cofactor biosynthesis protein Nif	99.95
PRK10076		213	pyruvate formate lyase II activase; Provisional	99.95
PRK13762		322	tRNA-modifying enzyme; Provisional	99.95
TIGR02494		295	PFLE_PFLC glycyl-radical enzyme activating protein	99.95
PRK13361		329	molybdenum cofactor biosynthesis protein A; Provis	99.94
PRK00164		331	moaA molybdenum cofactor biosynthesis protein A; R	99.94
COG0731		296	Fe-S oxidoreductases [Energy production and conver	99.94
PLN02951		373	Molybderin biosynthesis protein CNX2	99.94
TIGR02668		302	moaA_archaeal probable molybdenum cofactor biosynt	99.93
TIGR02666		334	moaA molybdenum cofactor biosynthesis protein A, b	99.93
PRK05301		378	pyrroloquinoline quinone biosynthesis protein PqqE	99.92
TIGR02109		358	PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E.	99.92
TIGR02495		191	NrdG2 anaerobic ribonucleoside-triphosphate reduct	99.91
TIGR03470		318	HpnH hopanoid biosynthesis associated radical SAM	99.91
TIGR03278		404	methan_mark_10 putative methanogenesis marker prot	99.88
COG1313		335	PflX Uncharacterized Fe-S protein PflX, homolog of	99.88
PRK13758		370	anaerobic sulfatase-maturase; Provisional	99.88
PRK13745		412	anaerobic sulfatase-maturase; Provisional	99.87
COG2100		414	Predicted Fe-S oxidoreductase [General function pr	99.86
TIGR03822		321	AblA_like_2 lysine-2,3-aminomutase-related protein	99.85
COG0641		378	AslB Arylsulfatase regulator (Fe-S oxidoreductase)	99.84
TIGR03821		321	AblA_like_1 lysine-2,3-aminomutase-related protein	99.84
TIGR00238		331	KamA family protein. Note that the E. coli homolog	99.83
COG0535		347	Predicted Fe-S oxidoreductases [General function p	99.82
smart00729		216	Elp3 Elongator protein 3, MiaB family, Radical SAM	99.81
TIGR03365		238	Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosyn	99.79
COG5014		228	Predicted Fe-S oxidoreductase [General function pr	99.79
TIGR03820		417	lys_2_3_AblA lysine-2,3-aminomutase. This model de	99.78
PF04055		166	Radical_SAM: Radical SAM superfamily; InterPro: IP	99.77
cd01335		204	Radical_SAM Radical SAM superfamily. Enzymes of th	99.75
PRK07094		323	biotin synthase; Provisional	99.69
TIGR02826		147	RNR_activ_nrdG3 anaerobic ribonucleoside-triphosph	99.67
TIGR02491		154	NrdG anaerobic ribonucleoside-triphosphate reducta	99.67
PF13353		139	Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A	99.63
PRK09240		371	thiH thiamine biosynthesis protein ThiH; Reviewed	99.63
TIGR00433		296	bioB biotin synthetase. Catalyzes the last step of	99.61
PF13394		119	Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B	99.56
PRK11121		154	nrdG anaerobic ribonucleotide reductase-activating	99.53
COG0602		212	NrdG Organic radical activating enzymes [Posttrans	99.53
PRK15108		345	biotin synthase; Provisional	99.53
PRK08508		279	biotin synthase; Provisional	99.52
COG1509		369	KamA Lysine 2,3-aminomutase [Amino acid transport	99.52
PRK06256		336	biotin synthase; Validated	99.52
TIGR02026		497	BchE magnesium-protoporphyrin IX monomethyl ester	99.51
TIGR01125		430	MiaB-like tRNA modifying enzyme YliG, TIGR01125. T	99.5
PLN02389		379	biotin synthase	99.49
PRK14338		459	(dimethylallyl)adenosine tRNA methylthiotransferas	99.48
PRK14862		440	rimO ribosomal protein S12 methylthiotransferase;	99.48
COG2108		353	Uncharacterized conserved protein related to pyruv	99.48
TIGR03699		340	mena_SCO4550 menaquinone biosynthesis protein, SCO	99.47
TIGR02351		366	thiH thiazole biosynthesis protein ThiH. Members t	99.47
TIGR03471		472	HpnJ hopanoid biosynthesis associated radical SAM	99.46
TIGR03551		343	F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.45
PRK06245		336	cofG FO synthase subunit 1; Reviewed	99.45
KOG2876		323	consensus Molybdenum cofactor biosynthesis pathway	99.45
TIGR00423		309	radical SAM domain protein, CofH subfamily. This p	99.44
PRK05481		289	lipoyl synthase; Provisional	99.43
PRK06267		350	hypothetical protein; Provisional	99.42
PRK09249		453	coproporphyrinogen III oxidase; Provisional	99.4
PRK05660		378	HemN family oxidoreductase; Provisional	99.39
TIGR00539		360	hemN_rel putative oxygen-independent coproporphyri	99.39
PRK12928		290	lipoyl synthase; Provisional	99.38
PRK13347		453	coproporphyrinogen III oxidase; Provisional	99.38
TIGR00510		302	lipA lipoate synthase. The family shows strong seq	99.37
PRK05799		374	coproporphyrinogen III oxidase; Provisional	99.36
PRK08446		350	coproporphyrinogen III oxidase; Provisional	99.35
PRK14334		440	(dimethylallyl)adenosine tRNA methylthiotransferas	99.34
TIGR01579		414	MiaB-like-C MiaB-like tRNA modifying enzyme. This	99.33
TIGR00538		455	hemN oxygen-independent coproporphyrinogen III oxi	99.32
PRK08207		488	coproporphyrinogen III oxidase; Provisional	99.32
TIGR00089		429	RNA modification enzyme, MiaB family. This subfami	99.31
PLN02428		349	lipoic acid synthase	99.3
PRK14332		449	(dimethylallyl)adenosine tRNA methylthiotransferas	99.29
PRK08599		377	coproporphyrinogen III oxidase; Provisional	99.29
PRK14331		437	(dimethylallyl)adenosine tRNA methylthiotransferas	99.28
TIGR01578		420	MiaB-like-B MiaB-like tRNA modifying enzyme, archa	99.28
PRK14340		445	(dimethylallyl)adenosine tRNA methylthiotransferas	99.27
PRK14336		418	(dimethylallyl)adenosine tRNA methylthiotransferas	99.27
PRK05628		375	coproporphyrinogen III oxidase; Validated	99.26
PRK14327		509	(dimethylallyl)adenosine tRNA methylthiotransferas	99.25
PRK14328		439	(dimethylallyl)adenosine tRNA methylthiotransferas	99.24
PRK14325		444	(dimethylallyl)adenosine tRNA methylthiotransferas	99.23
PRK08208		430	coproporphyrinogen III oxidase; Validated	99.23
PRK14335		455	(dimethylallyl)adenosine tRNA methylthiotransferas	99.22
TIGR03700		351	mena_SCO4494 putative menaquinone biosynthesis pro	99.21
TIGR01574		438	miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-3	99.19
TIGR03550		322	F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflav	99.19
PRK14339		420	(dimethylallyl)adenosine tRNA methylthiotransferas	99.17
PRK14329		467	(dimethylallyl)adenosine tRNA methylthiotransferas	99.17
TIGR01212		302	radical SAM protein, TIGR01212 family. This unchar	99.16
PRK14326		502	(dimethylallyl)adenosine tRNA methylthiotransferas	99.16
PRK14330		434	(dimethylallyl)adenosine tRNA methylthiotransferas	99.15
TIGR01210		313	conserved hypothetical protein TIGR01210. This fam	99.14
COG1964		475	Predicted Fe-S oxidoreductases [General function p	99.14
PRK07360		371	FO synthase subunit 2; Reviewed	99.14
PRK14337		446	(dimethylallyl)adenosine tRNA methylthiotransferas	99.12
PRK08445		348	hypothetical protein; Provisional	99.12
COG1625		414	Fe-S oxidoreductase, related to NifB/MoaA family [	99.09
PRK05904		353	coproporphyrinogen III oxidase; Provisional	99.08
PRK00955		620	hypothetical protein; Provisional	99.07
PRK14333		448	(dimethylallyl)adenosine tRNA methylthiotransferas	99.06
COG0621		437	MiaB 2-methylthioadenine synthetase [Translation,	99.02
PRK06582		390	coproporphyrinogen III oxidase; Provisional	99.02
PRK07379		400	coproporphyrinogen III oxidase; Provisional	99.01
PRK06294		370	coproporphyrinogen III oxidase; Provisional	99.01
PRK09057		380	coproporphyrinogen III oxidase; Provisional	99.01
PRK09613		469	thiH thiamine biosynthesis protein ThiH; Reviewed	99.0
PRK08629		433	coproporphyrinogen III oxidase; Provisional	98.98
PRK08898		394	coproporphyrinogen III oxidase; Provisional	98.96
PRK08444		353	hypothetical protein; Provisional	98.96
PRK05927		350	hypothetical protein; Provisional	98.95
PRK01254		707	hypothetical protein; Provisional	98.94
PRK09058		449	coproporphyrinogen III oxidase; Provisional	98.93
COG0502		335	BioB Biotin synthase and related enzymes [Coenzyme	98.88
COG1533		297	SplB DNA repair photolyase [DNA replication, recom	98.88
PTZ00413		398	lipoate synthase; Provisional	98.87
COG1856		275	Uncharacterized homolog of biotin synthetase [Func	98.81
PRK05926		370	hypothetical protein; Provisional	98.8
PRK09234		843	fbiC FO synthase; Reviewed	98.76
COG1032		490	Fe-S oxidoreductase [Energy production and convers	98.73
TIGR03279		433	cyano_FeS_chp putative FeS-containing Cyanobacteri	98.7
PRK09234		843	fbiC FO synthase; Reviewed	98.66
COG1060		370	ThiH Thiamine biosynthesis enzyme ThiH and related	98.54
TIGR01211		522	ELP3 histone acetyltransferase, ELP3 family. The S	98.35
COG2516		339	Biotin synthase-related enzyme [General function p	98.26
COG0320		306	LipA Lipoate synthase [Coenzyme metabolism]	98.22
COG0635		416	HemN Coproporphyrinogen III oxidase and related Fe	98.21
COG1244		358	Predicted Fe-S oxidoreductase [General function pr	98.2
COG1243		515	ELP3 Histone acetyltransferase [Transcription / Ch	98.09
KOG1160		601	consensus Fe-S oxidoreductase [Energy production a	97.9
cd03174		265	DRE_TIM_metallolyase DRE-TIM metallolyase superfam	97.84
COG1242		312	Predicted Fe-S oxidoreductase [General function pr	97.49
KOG2672		360	consensus Lipoate synthase [Coenzyme transport and	97.34
COG1031		560	Uncharacterized Fe-S oxidoreductase [Energy produc	96.95
COG4277		404	Predicted DNA-binding protein with the Helix-hairp	96.51
KOG2900		380	consensus Biotin synthase [Coenzyme transport and	96.17
KOG2492		552	consensus CDK5 activator-binding protein [Signal t	95.85
KOG0180		204	consensus 20S proteasome, regulatory subunit beta	91.6
KOG4355		547	consensus Predicted Fe-S oxidoreductase [General f	91.38
cd07939		259	DRE_TIM_NifV Streptomyces rubellomurinus FrbC and	86.14
TIGR02660		365	nifV_homocitr homocitrate synthase NifV. This fami	81.35
TIGR02090		363	LEU1_arch isopropylmalate/citramalate/homocitrate	80.67
PF06415		223	iPGM_N: BPG-independent PGAM N-terminus (iPGM_N);	80.02

>PRK14461 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

Probab=100.00  E-value=9.6e-45  Score=323.06  Aligned_cols=249  Identities=42%  Similarity=0.731  Sum_probs=229.2

Q ss_pred             ccccCcc-CCCCCceEEEEeccCCcCccCccccCCCCCCccCCCHHHHHHHHHHHhcc----------------CCCceE
Q 023640            8 GKYNGKP-RPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRL----------------SNIRNV   70 (279)
Q Consensus         8 ~~~~~~~-~p~~~~~~l~i~~~~gCNl~C~yC~~~~~~~~~~~~~~ei~~~i~~~~~~----------------~~~~~I   70 (279)
                      |..++.+ +|...+.|+++|++.||++.|.||..+..+..+.+++.|+++++..+.+.                ..+.+|
T Consensus        93 G~~IEtVli~~~~r~TlCvSSQvGC~mgC~FCaTG~~G~~RNLt~~EIv~Qv~~~~~~l~~~~~~~~~~~~~~~~~i~NI  172 (371)
T PRK14461         93 GAVVETVLMIYPDRATVCVSTQAGCGMGCVFCATGTLGLLRNLSSGEIVAQVIWASRELRAMGAAISKRHAGPVGRVTNL  172 (371)
T ss_pred             CCEEEEEEEecCCCceEEEEccCCccCCCCcccCCCCCcccCCCHHHHHHHHHHHHHHhhhcccccccccccccCceeeE
Confidence            4566777 88888999999999999999999999999899999999999999865321                237899


Q ss_pred             EEecCCccccCHHHHHHHHHHHhCC-CCCCCCCeEEEEcCCchhhhHHHhccCCCceEEEEeCCCCHHHHhhhcCCCCCC
Q 023640           71 VFMGMGEPLNNYAALVEAVRIMTGL-PFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAF  149 (279)
Q Consensus        71 ~fsG~GEPll~~~~i~~~i~~~~~~-g~~~~~~~v~i~TNG~~~~~~~l~~~~~~~~i~iSld~~~~~~~~~i~~~~~~~  149 (279)
                      +|.|+||||+|++.+.+.++.+.+. |+++...+++|+|.|..+.+.++++....+.++|||+|++++.+++++|.++.+
T Consensus       173 VfMGMGEPL~NydnV~~ai~il~d~~g~~is~R~ITVST~Givp~I~~la~~~~~v~LAiSLHA~~~e~R~~lmPin~~y  252 (371)
T PRK14461        173 VFMGMGEPFANYDRWWQAVERLHDPQGFNLGARSMTVSTVGLVKGIRRLANERLPINLAISLHAPDDALRSELMPVNRRY  252 (371)
T ss_pred             EEEccCCchhhHHHHHHHHHHhcCccccCcCCCceEEEeecchhHHHHHHhcccCceEEEEeCCCCHHHHHHhcCcccCC
Confidence            9999999999999999999999875 888888999999999998899999877678899999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHhhCCeEEEEEEEeCCCCCcHHHHHHHHHHHhhC------CcEEEEEecCCCCCCCCcCCCCHHHHH
Q 023640          150 PLEKLMNALKEYQKNSQQKIFIEYIMLDGVNDEEQHAHQLGKLLETF------QVVVNLIPFNPIGSVSQFRTSSDDKVS  223 (279)
Q Consensus       150 ~~~~i~~~l~~~~~~~~~~v~i~~vv~~g~nd~~~~l~~l~~~l~~~------~~~i~l~~~~p~~~~~~~~~~~~e~l~  223 (279)
                      ++++++++++.+.++.+.++.++|++++|+||+.++..+|+++++.+      .++|+++||||. ++..|.+++.++++
T Consensus       253 pl~eLl~a~~~y~~~t~rrit~EYvLi~gvNDs~e~A~~L~~llk~~~~~~~l~~~VNLIp~Np~-~~~~~~~ps~~~i~  331 (371)
T PRK14461        253 PIADLMAATRDYIAKTRRRVSFEYVLLQGKNDHPEQAAALARLLRGEAPPGPLLVHVNLIPWNPV-PGTPLGRSERERVT  331 (371)
T ss_pred             CHHHHHHHHHHHHHhhCCEEEEEEEEECCCCCCHHHHHHHHHHHcCCccccCCceEEEEecCCCC-CCCCCCCCCHHHHH
Confidence            99999999999999999999999999999999999999999999988      778999999998 56789999999999


Q ss_pred             HHHHHHHhcCCeEEEeccccccccccccccccccC
Q 023640          224 SFQKILRGSYNIRTTVRKQMGQDISGACGQLVVNL  258 (279)
Q Consensus       224 ~~~~~l~~~~gi~v~vr~~~g~~~~~~cg~~~~~~  258 (279)
                      +|+++|+ ..|+.+.+|..+|.||.++|||...+|
T Consensus       332 ~F~~~L~-~~gi~vtiR~s~G~DI~AACGQL~~~~  365 (371)
T PRK14461        332 TFQRILT-DYGIPCTVRVERGVEIAAACGQLAGRH  365 (371)
T ss_pred             HHHHHHH-HCCceEEEeCCCCcChhhcCcccccCC
Confidence            9999999 899999999999999999999998754

>PRK14467 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14466 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14459 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>TIGR00048 radical SAM enzyme, Cfr family	Back alignment and domain information

>PRK14462 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14468 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14465 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14470 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14454 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14455 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14456 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14453 chloramphenicol/florfenicol resistance protein; Provisional	Back alignment and domain information

>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK14460 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK11194 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>COG0820 Predicted Fe-S-cluster redox enzyme [General function prediction only]	Back alignment and domain information

>PRK14464 ribosomal RNA large subunit methyltransferase N; Provisional	Back alignment and domain information

>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional	Back alignment and domain information

>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme	Back alignment and domain information

>COG2896 MoaA Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]	Back alignment and domain information

>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB	Back alignment and domain information

>PRK10076 pyruvate formate lyase II activase; Provisional	Back alignment and domain information

>PRK13762 tRNA-modifying enzyme; Provisional	Back alignment and domain information

>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family	Back alignment and domain information

>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional	Back alignment and domain information

>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed	Back alignment and domain information

>COG0731 Fe-S oxidoreductases [Energy production and conversion]	Back alignment and domain information

>PLN02951 Molybderin biosynthesis protein CNX2	Back alignment and domain information

>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal	Back alignment and domain information

>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial	Back alignment and domain information

>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional	Back alignment and domain information

>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E	Back alignment and domain information

>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein	Back alignment and domain information

>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH	Back alignment and domain information

>TIGR03278 methan_mark_10 putative methanogenesis marker protein 10	Back alignment and domain information

>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]	Back alignment and domain information

>PRK13758 anaerobic sulfatase-maturase; Provisional	Back alignment and domain information

>PRK13745 anaerobic sulfatase-maturase; Provisional	Back alignment and domain information

>COG2100 Predicted Fe-S oxidoreductase [General function prediction only]	Back alignment and domain information

>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein	Back alignment and domain information

>COG0641 AslB Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]	Back alignment and domain information

>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein	Back alignment and domain information

>TIGR00238 KamA family protein	Back alignment and domain information

>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]	Back alignment and domain information

>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM	Back alignment and domain information

>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE	Back alignment and domain information

>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]	Back alignment and domain information

>TIGR03820 lys_2_3_AblA lysine-2,3-aminomutase	Back alignment and domain information

>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation	Back alignment and domain information

>cd01335 Radical_SAM Radical SAM superfamily	Back alignment and domain information

>PRK07094 biotin synthase; Provisional	Back alignment and domain information

>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein	Back alignment and domain information

>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein	Back alignment and domain information

>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A	Back alignment and domain information

>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed	Back alignment and domain information

>TIGR00433 bioB biotin synthetase	Back alignment and domain information

>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A	Back alignment and domain information

>PRK11121 nrdG anaerobic ribonucleotide reductase-activating protein; Provisional	Back alignment and domain information

>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK15108 biotin synthase; Provisional	Back alignment and domain information

>PRK08508 biotin synthase; Provisional	Back alignment and domain information

>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]	Back alignment and domain information

>PRK06256 biotin synthase; Validated	Back alignment and domain information

>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase	Back alignment and domain information

>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125	Back alignment and domain information

>PLN02389 biotin synthase	Back alignment and domain information

>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional	Back alignment and domain information

>COG2108 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]	Back alignment and domain information

>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family	Back alignment and domain information

>TIGR02351 thiH thiazole biosynthesis protein ThiH	Back alignment and domain information

>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ	Back alignment and domain information

>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit	Back alignment and domain information

>PRK06245 cofG FO synthase subunit 1; Reviewed	Back alignment and domain information

>KOG2876 consensus Molybdenum cofactor biosynthesis pathway protein [Coenzyme transport and metabolism]	Back alignment and domain information

>TIGR00423 radical SAM domain protein, CofH subfamily	Back alignment and domain information

>PRK05481 lipoyl synthase; Provisional	Back alignment and domain information

>PRK06267 hypothetical protein; Provisional	Back alignment and domain information

>PRK09249 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK05660 HemN family oxidoreductase; Provisional	Back alignment and domain information

>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase	Back alignment and domain information

>PRK12928 lipoyl synthase; Provisional	Back alignment and domain information

>PRK13347 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>TIGR00510 lipA lipoate synthase	Back alignment and domain information

>PRK05799 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK08446 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme	Back alignment and domain information

>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase	Back alignment and domain information

>PRK08207 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>TIGR00089 RNA modification enzyme, MiaB family	Back alignment and domain information

>PLN02428 lipoic acid synthase	Back alignment and domain information

>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK08599 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type	Back alignment and domain information

>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK05628 coproporphyrinogen III oxidase; Validated	Back alignment and domain information

>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK08208 coproporphyrinogen III oxidase; Validated	Back alignment and domain information

>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family	Back alignment and domain information

>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB	Back alignment and domain information

>TIGR03550 F420_cofG 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit	Back alignment and domain information

>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>TIGR01212 radical SAM protein, TIGR01212 family	Back alignment and domain information

>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>TIGR01210 conserved hypothetical protein TIGR01210	Back alignment and domain information

>COG1964 Predicted Fe-S oxidoreductases [General function prediction only]	Back alignment and domain information

>PRK07360 FO synthase subunit 2; Reviewed	Back alignment and domain information

>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>PRK08445 hypothetical protein; Provisional	Back alignment and domain information

>COG1625 Fe-S oxidoreductase, related to NifB/MoaA family [Energy production and conversion]	Back alignment and domain information

>PRK05904 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK00955 hypothetical protein; Provisional	Back alignment and domain information

>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	Back alignment and domain information

>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK06582 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK07379 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK06294 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK09057 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed	Back alignment and domain information

>PRK08629 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK08898 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>PRK08444 hypothetical protein; Provisional	Back alignment and domain information

>PRK05927 hypothetical protein; Provisional	Back alignment and domain information

>PRK01254 hypothetical protein; Provisional	Back alignment and domain information

>PRK09058 coproporphyrinogen III oxidase; Provisional	Back alignment and domain information

>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]	Back alignment and domain information

>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]	Back alignment and domain information

>PTZ00413 lipoate synthase; Provisional	Back alignment and domain information

>COG1856 Uncharacterized homolog of biotin synthetase [Function unknown]	Back alignment and domain information

>PRK05926 hypothetical protein; Provisional	Back alignment and domain information

>PRK09234 fbiC FO synthase; Reviewed	Back alignment and domain information

>COG1032 Fe-S oxidoreductase [Energy production and conversion]	Back alignment and domain information

>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase	Back alignment and domain information

>PRK09234 fbiC FO synthase; Reviewed	Back alignment and domain information

>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]	Back alignment and domain information

>TIGR01211 ELP3 histone acetyltransferase, ELP3 family	Back alignment and domain information

>COG2516 Biotin synthase-related enzyme [General function prediction only]	Back alignment and domain information

>COG0320 LipA Lipoate synthase [Coenzyme metabolism]	Back alignment and domain information

>COG0635 HemN Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]	Back alignment and domain information

>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]	Back alignment and domain information

>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]	Back alignment and domain information

>KOG1160 consensus Fe-S oxidoreductase [Energy production and conversion]	Back alignment and domain information

>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily	Back alignment and domain information

>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]	Back alignment and domain information

>KOG2672 consensus Lipoate synthase [Coenzyme transport and metabolism]	Back alignment and domain information

>COG1031 Uncharacterized Fe-S oxidoreductase [Energy production and conversion]	Back alignment and domain information

>COG4277 Predicted DNA-binding protein with the Helix-hairpin-helix motif [General function prediction only]	Back alignment and domain information

>KOG2900 consensus Biotin synthase [Coenzyme transport and metabolism]	Back alignment and domain information

>KOG2492 consensus CDK5 activator-binding protein [Signal transduction mechanisms]	Back alignment and domain information

>KOG0180 consensus 20S proteasome, regulatory subunit beta type PSMB3/PUP3 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG4355 consensus Predicted Fe-S oxidoreductase [General function prediction only]	Back alignment and domain information

>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain	Back alignment and domain information

>TIGR02660 nifV_homocitr homocitrate synthase NifV	Back alignment and domain information

>TIGR02090 LEU1_arch isopropylmalate/citramalate/homocitrate synthases	Back alignment and domain information

>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5	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		279
3rf9_A		404	X-Ray Structure Of Rlmn From Escherichia Coli Lengt		2e-50
3rfa_A		404	X-Ray Structure Of Rlmn From Escherichia Coli In Co		4e-49

>pdb|3RF9|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli Length = 404

Back alignment and structure

Iteration: 1

Score = 195 bits (496), Expect = 2e-50, Method: Compositional matrix adjust. Identities = 108/259 (41%), Positives = 155/259 (59%), Gaps = 16/259 (6%) Query: 16 PGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSN--------- 66 P R+TLC+SSQVGC + C FC+T GF NL EI+ Q+ A+++ Sbjct: 110 PEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRP 169 Query: 67 IRNVVFMGMGEPLNNYAALVEAVRIM-TGLPFQVSPKRITVSTVGIVHAINKFHSDLPGL 125 I NVV MGMGEPL N +V A+ IM F +S +R+T+ST G+V A++K D+ + Sbjct: 170 ITNVVMMGMGEPLLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKL-GDMIDV 228 Query: 126 NLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNS---QQKIFIEYIMLDGVNDE 182 LA+SLHAP ++R +I+P + + +E + A++ Y + S Q ++ IEY+MLD VND Sbjct: 229 ALAISLHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDG 288 Query: 183 EQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQ 242 +HAHQL +LL+ +NLIP+NP R SS+ ++ F K+L SY T VRK Sbjct: 289 TEHAHQLAELLKDTPCKINLIPWNPFPGAPYGR-SSNSRIDRFSKVLM-SYGFTTIVRKT 346 Query: 243 MGQDISGACGQLVVNLPDK 261 G DI ACGQL ++ D+ Sbjct: 347 RGDDIDAACGQLAGDVIDR 365

PyMOL of 3rf9

>pdb|3RFA|A Chain A, X-Ray Structure Of Rlmn From Escherichia Coli In Complex With S- Adenosylmethionine Length = 404

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		279
3rfa_A		404	Ribosomal RNA large subunit methyltransferase N; r	1e-115
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06

>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM, S-adenosylmethionine, iron sulfur cluster, oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB: 3rf9_A* Length = 404	Back alignment and structure

 Score =  336 bits (865), Expect = e-115
 Identities = 106/259 (40%), Positives = 155/259 (59%), Gaps = 16/259 (6%)

Query: 16  PGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRLSN--------- 66
           P   R+TLC+SSQVGC + C FC+T   GF  NL   EI+ Q+  A+++           
Sbjct: 110 PEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRP 169

Query: 67  IRNVVFMGMGEPLNNYAALVEAVRIMT-GLPFQVSPKRITVSTVGIVHAINKFHSDLPGL 125
           I NVV MGMGEPL N   +V A+ IM     F +S +R+T+ST G+V A++K    +  +
Sbjct: 170 ITNVVMMGMGEPLLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKLGDMID-V 228

Query: 126 NLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNS---QQKIFIEYIMLDGVNDE 182
            LA+SLHAP  ++R +I+P  + + +E  + A++ Y + S   Q ++ IEY+MLD VND 
Sbjct: 229 ALAISLHAPNDEIRDEIVPINKKYNIETFLAAVRRYLEKSNANQGRVTIEYVMLDHVNDG 288

Query: 183 EQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSYNIRTTVRKQ 242
            +HAHQL +LL+     +NLIP+NP    + +  SS+ ++  F K+L  SY   T VRK 
Sbjct: 289 TEHAHQLAELLKDTPCKINLIPWNPFPG-APYGRSSNSRIDRFSKVLM-SYGFTTIVRKT 346

Query: 243 MGQDISGACGQLVVNLPDK 261
            G DI  ACGQL  ++ D+
Sbjct: 347 RGDDIDAACGQLAGDVIDR 365

PyMOL of 3rfa

>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		279
3rfa_A		404	Ribosomal RNA large subunit methyltransferase N; r	100.0
3c8f_A		245	Pyruvate formate-lyase 1-activating enzyme; adoMet	99.95
2yx0_A		342	Radical SAM enzyme; predicted tRNA modification en	99.94
2z2u_A		311	UPF0026 protein MJ0257; metal binding protein; 2.4	99.93
1tv8_A		340	MOAA, molybdenum cofactor biosynthesis protein A;	99.92
3can_A		182	Pyruvate-formate lyase-activating enzyme; structur	99.89
2a5h_A		416	L-lysine 2,3-aminomutase; radical SAM, four-iron-f	99.86
3iix_A		348	Biotin synthetase, putative; adoMet radical, SAM r	99.83
1r30_A		369	Biotin synthase; SAM radical protein, TIM barrel,	99.76
3t7v_A		350	Methylornithine synthase PYLB; TIM-barrel fold, mu	99.75
2qgq_A		304	Protein TM_1862; alpha-beta protein, structural ge	99.65
1olt_A		457	Oxygen-independent coproporphyrinogen III oxidase;	99.48
4fhd_A		368	Spore photoproduct lyase; partial TIM-barrel, DNA	98.65
2cw6_A		298	Hydroxymethylglutaryl-COA lyase, mitochondrial; HM	95.75
1ydn_A		295	Hydroxymethylglutaryl-COA lyase; TIM-barrel protei	92.82

>3rfa_A Ribosomal RNA large subunit methyltransferase N; radical SAM, S-adenosylmethionine, iron sulfur cluster, oxidoreductase; HET: SAM; 2.05A {Escherichia coli} PDB: 3rf9_A*	Back alignment and structure

Probab=100.00  E-value=1.9e-44  Score=328.54  Aligned_cols=252  Identities=42%  Similarity=0.729  Sum_probs=209.1

Q ss_pred             ccccCcc-CCCCCceEEEEeccCCcCccCccccCCCCCCccCCCHHHHHHHHHHHhcc---------CCCceEEEecCCc
Q 023640            8 GKYNGKP-RPGGPRSTLCISSQVGCKMGCNFCATGTMGFKSNLSSGEIVEQLVHASRL---------SNIRNVVFMGMGE   77 (279)
Q Consensus         8 ~~~~~~~-~p~~~~~~l~i~~~~gCNl~C~yC~~~~~~~~~~~~~~ei~~~i~~~~~~---------~~~~~I~fsG~GE   77 (279)
                      |..++.+ +|...|.|+++|++.|||++|.||+++..+..+.++++|+++++......         .++..|+|+|+||
T Consensus       101 g~~iEtV~i~~~~r~tlcVSsq~GCnl~C~fC~tg~~g~~r~Lt~eEIv~qv~~~~~~~~~~g~~gg~~i~~Ivf~GgGE  180 (404)
T 3rfa_A          101 DQRVETVYIPEDDRATLCVSSQVGCALECKFCSTAQQGFNRNLRVSEIIGQVWRAAKIVGAAKVTGQRPITNVVMMGMGE  180 (404)
T ss_dssp             TEEEEEEEEECSSCEEEECCCEEECSSCCTTCGGGTTCEEEECCHHHHHHHHHHHHHHHCCHHHHSSCSCSEEEECSSSC
T ss_pred             CceEEEEEEecCCCceEEEEeCCCCCCcCCCCCCCCCCCCCcCCHHHHHHHHHHHHHHhhhcccccCCCccEEEEeCCCC
Confidence            5566777 89889999999999999999999999877677889999999998865432         2478899997699


Q ss_pred             cccCHHHHHHHHHHHhCC-CCCCCCCeEEEEcCCchhhhHHHhccCCCceEEEEeCCCCHHHHhhhcCCCCCCCHHHHHH
Q 023640           78 PLNNYAALVEAVRIMTGL-PFQVSPKRITVSTVGIVHAINKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMN  156 (279)
Q Consensus        78 Pll~~~~i~~~i~~~~~~-g~~~~~~~v~i~TNG~~~~~~~l~~~~~~~~i~iSld~~~~~~~~~i~~~~~~~~~~~i~~  156 (279)
                      ||++++++.++++.+++. |++++..+++|+|||+.+.+.++++.. ...+.||||+++++.|+.++|.++.++++.+++
T Consensus       181 PLln~d~v~~~i~~lk~~~Gl~~s~r~itlsTnG~~p~i~~L~~~~-d~~LaiSLka~d~e~~~~i~pv~~~~~le~vl~  259 (404)
T 3rfa_A          181 PLLNLNNVVPAMEIMLDDFGFGLSKRRVTLSTSGVVPALDKLGDMI-DVALAISLHAPNDEIRDEIVPINKKYNIETFLA  259 (404)
T ss_dssp             GGGCHHHHHHHHHHHHSTTTTCCCGGGEEEEESCCHHHHHHHHHHC-CCEEEEECCCSSHHHHHHHSGGGGTSCHHHHHH
T ss_pred             cccCHHHHHHHHHHHHhhcCcCcCCCceEEECCCcHHHHHHHHHhh-cceEEecccCCCHHHHHHhcCCccCCCHHHHHH
Confidence            999999999999999984 866666699999999987777777763 456789999999999999998777789999999


Q ss_pred             HHHHHHHhhCC---eEEEEEEEeCCCCCcHHHHHHHHHHHhhCCcEEEEEecCCCCCCCCcCCCCHHHHHHHHHHHHhcC
Q 023640          157 ALKEYQKNSQQ---KIFIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPIGSVSQFRTSSDDKVSSFQKILRGSY  233 (279)
Q Consensus       157 ~l~~~~~~~~~---~v~i~~vv~~g~nd~~~~l~~l~~~l~~~~~~i~l~~~~p~~~~~~~~~~~~e~l~~~~~~l~~~~  233 (279)
                      ++++++.+.+.   ++.+++++++|+||+++++.+++++++.+++.++++||+|. +..++++++.+++++|+++++ .+
T Consensus       260 ai~~~~~~~g~~~~~V~ie~vLI~GvNDs~e~~~~La~ll~~l~~~VnLIpynP~-~~~~~~~ps~e~i~~f~~iL~-~~  337 (404)
T 3rfa_A          260 AVRRYLEKSNANQGRVTIEYVMLDHVNDGTEHAHQLAELLKDTPCKINLIPWNPF-PGAPYGRSSNSRIDRFSKVLM-SY  337 (404)
T ss_dssp             HHHHHHHHCTTTTTCEEEEEEEBTTTTCSHHHHHHHHHHTTTSCEEEEEEECCCC-TTCCCCBCCHHHHHHHHHHHH-HT
T ss_pred             HHHHHHHHhCCCcccEEEEEEEecCCCCCHHHHHHHHHHHHcCCCcEEEEeccCC-CCCCCCCCCHHHHHHHHHHHH-Hc
Confidence            99888888787   89999999999999999999999999999888999999998 577889999999999999999 89


Q ss_pred             CeEEEeccccccccccccccccccCcCcc
Q 023640          234 NIRTTVRKQMGQDISGACGQLVVNLPDKI  262 (279)
Q Consensus       234 gi~v~vr~~~g~~~~~~cg~~~~~~~~~~  262 (279)
                      |+.+.+|..+|.||.++|||...+.-|+.
T Consensus       338 Gi~vtiR~~~G~di~aaCGQL~~~~~~~~  366 (404)
T 3rfa_A          338 GFTTIVRKTRGDDIDAACGQLAGDVIDRT  366 (404)
T ss_dssp             TCEEEECCCCCC-----------------
T ss_pred             CCcEEEcCCCCcccccccccchhhhhhhh
Confidence            99999999999999999999988766543

PyMOL of 3rfa

>3c8f_A Pyruvate formate-lyase 1-activating enzyme; adoMet radical, SAM radical, activase, glycyl radical, 4Fe- 4S, carbohydrate metabolism, cytoplasm; HET: MT2 PGE; 2.25A {Escherichia coli} PDB: 3cb8_A*	Back alignment and structure

>2yx0_A Radical SAM enzyme; predicted tRNA modification enzyme, metal binding protein, structural genomics, NPPSFA; 2.21A {Pyrococcus horikoshii}	Back alignment and structure

>2z2u_A UPF0026 protein MJ0257; metal binding protein; 2.40A {Methanocaldococcus jannaschii}	Back alignment and structure

>1tv8_A MOAA, molybdenum cofactor biosynthesis protein A; TIM barrel, ligand binding protein; HET: SAM; 2.20A {Staphylococcus aureus} SCOP: c.1.28.3 PDB: 1tv7_A* 2fb3_A* 2fb2_A*	Back alignment and structure

>3can_A Pyruvate-formate lyase-activating enzyme; structural genomics, pyruvate-formate lyase-activating enzym MCSG, APC20359.1; 1.80A {Bacteroides vulgatus atcc 8482}	Back alignment and structure

>2a5h_A L-lysine 2,3-aminomutase; radical SAM, four-iron-four-sulfur cluster, 4Fe4S, FS4, SAM, adenosylmethionine, alpha-beta channel; HET: SAM LYS PLP; 2.10A {Clostridium subterminale}	Back alignment and structure

>3iix_A Biotin synthetase, putative; adoMet radical, SAM radical, adoMet cleavage, Fe4S4 cluster, HYDE, hydrogenase, maturation, beta barrel; HET: OTY CSO 5AD CPS; 1.25A {Thermotoga maritima} PDB: 3ciw_A* 3iiz_A* 3cix_A*	Back alignment and structure

>1r30_A Biotin synthase; SAM radical protein, TIM barrel, FES cluster, transferase; HET: SAM DTB; 3.40A {Escherichia coli} SCOP: c.1.28.1	Back alignment and structure

>3t7v_A Methylornithine synthase PYLB; TIM-barrel fold, mutase, [4Fe-4S]-cluster, SAM, lysine, transferase; HET: SAM MD0; 1.50A {Methanosarcina barkeri}	Back alignment and structure

>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium; HET: CXS; 2.00A {Thermotoga maritima MSB8}	Back alignment and structure

>1olt_A Oxygen-independent coproporphyrinogen III oxidase; heme biosynthesis, decarboxylase, radical SAM enzyme, 4Fe- 4 cluster; HET: SAM; 2.07A {Escherichia coli} SCOP: c.1.28.2	Back alignment and structure

>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged DNA; HET: EEM 0TT; 2.00A {Geobacillus thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A* 4fhf_A*	Back alignment and structure

>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase, ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB: 3mp3_A* 3mp4_A 3mp5_A*	Back alignment and structure

>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural genomics, PSI, protein struct initiative; 2.30A {Brucella melitensis}	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		279
d1tv8a_		327	Molybdenum cofactor biosynthesis protein A MoaA {S	99.84
d1r30a_		312	Biotin synthase {Escherichia coli [TaxId: 562]}	99.31
d1olta_		441	Oxygen-independent coproporphyrinogen III oxidase	98.78
d1o98a1		234	2,3-Bisphosphoglycerate-independent phosphoglycera	81.0

>d1tv8a_ c.1.28.3 (A:) Molybdenum cofactor biosynthesis protein A MoaA {Staphylococcus aureus [TaxId: 1280]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Radical SAM enzymes
family: MoCo biosynthesis proteins
domain: Molybdenum cofactor biosynthesis protein A MoaA
species: Staphylococcus aureus [TaxId: 1280]

Probab=99.84  E-value=1.5e-19  Score=158.43  Aligned_cols=175  Identities=15%  Similarity=0.206  Sum_probs=130.9

Q ss_pred             eEEEEeccCCcCccCccccCCCC--------CCccCCCHHHHHHHHHHHhccCCCceEEEecCCccccCHHHHHHHHHHH
Q 023640           21 STLCISSQVGCKMGCNFCATGTM--------GFKSNLSSGEIVEQLVHASRLSNIRNVVFMGMGEPLNNYAALVEAVRIM   92 (279)
Q Consensus        21 ~~l~i~~~~gCNl~C~yC~~~~~--------~~~~~~~~~ei~~~i~~~~~~~~~~~I~fsG~GEPll~~~~i~~~i~~~   92 (279)
                      ..|++++|..||++|.||+.+..        .....++.+++.+.++++.+ .++..|.|+| |||+++++ +.+++.++
T Consensus        12 ~~l~ieiT~~CNlrC~~C~~~~~~~~~~~~~~~~~~ls~e~~~~li~~~~~-~g~~~v~~~G-GEp~l~~~-~~e~i~~~   88 (327)
T d1tv8a_          12 RDLRLSVTDRCNFRCDYCMPKEVFGDDFVFLPKNELLTFDEMARIAKVYAE-LGVKKIRITG-GEPLMRRD-LDVLIAKL   88 (327)
T ss_dssp             CEEEEECCSCCSCCCTTTSCTTTSSTTCCCCCGGGSCCHHHHHHHHHHHHH-TTCCEEEEES-SCGGGSTT-HHHHHHHH
T ss_pred             CcEEEEeccccCCcCcCCCCccccCCCCccCCccccCCHHHHHHHHHHHHH-cCCeEEEeCC-Cccccccc-HHHHHHHH
Confidence            46888999999999999985321        11345889988888777665 4789999999 99999855 55666666


Q ss_pred             hCCCCCCCCCeEEEEcCCchhh---hHHHhccCCCceEEEEeCCCCHHHHhhhcCCCCCCCHHHHHHHHHHHHHhhCCeE
Q 023640           93 TGLPFQVSPKRITVSTVGIVHA---INKFHSDLPGLNLAVSLHAPVQDVRCQIMPAARAFPLEKLMNALKEYQKNSQQKI  169 (279)
Q Consensus        93 ~~~g~~~~~~~v~i~TNG~~~~---~~~l~~~~~~~~i~iSld~~~~~~~~~i~~~~~~~~~~~i~~~l~~~~~~~~~~v  169 (279)
                      .+.+.    ....+.|||.+..   ..++.+.+ ...+.||+|+.+++.|+.+++.  .+.++.+++++ +.+.+.+..+
T Consensus        89 ~~~~~----~~~~~~Tng~ll~~~~~~~l~~~g-~~~i~iSldg~~~e~~~~~rg~--~g~~~~~~~~~-~~~~~~g~~~  160 (327)
T d1tv8a_          89 NQIDG----IEDIGLTTNGLLLKKHGQKLYDAG-LRRINVSLDAIDDTLFQSINNR--NIKATTILEQI-DYATSIGLNV  160 (327)
T ss_dssp             TTCTT----CCEEEEEECSTTHHHHHHHHHHHT-CCEEEEECCCSSHHHHHHHHSS--CCCHHHHHHHH-HHHHHTTCEE
T ss_pred             hhhcc----ccccccccccccchhHHHHHHHcC-CCEEeeecccCCHHHhhhheee--ccccchhhhHH-HHHHHcCCCc
Confidence            66541    4556667776543   44555554 3568899999999999988754  46799999999 6778899999


Q ss_pred             EEEEEEeCCCCCcHHHHHHHHHHHhhCCcEEEEEecCCC
Q 023640          170 FIEYIMLDGVNDEEQHAHQLGKLLETFQVVVNLIPFNPI  208 (279)
Q Consensus       170 ~i~~vv~~g~nd~~~~l~~l~~~l~~~~~~i~l~~~~p~  208 (279)
                      .+.++++++.|.  .++.++++++...++.+.+.++.+.
T Consensus       161 ~~~~~v~~~~n~--~~~~~~~~~~~~~~~~~~~~~~~~~  197 (327)
T d1tv8a_         161 KVNVVIQKGIND--DQIIPMLEYFKDKHIEIRFIEFMDV  197 (327)
T ss_dssp             EEEEEECTTTTG--GGHHHHHHHHHHTTCCEEEEECCCB
T ss_pred             ceeEEEecCccc--cccHHHHHHHHhhccccceeeeecc
Confidence            999999887654  4678888999888877665555443

PyMOL of d1tv8a_

>d1r30a_ c.1.28.1 (A:) Biotin synthase {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1olta_ c.1.28.2 (A:) Oxygen-independent coproporphyrinogen III oxidase HemN {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d1o98a1 c.105.1.1 (A:77-310) 2,3-Bisphosphoglycerate-independent phosphoglycerate mutase, substrate-binding domain {Bacillus stearothermophilus [TaxId: 1422]}	Back information, alignment and structure