Citrus Sinensis ID: 027965

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------

MMRQRIPVIAAKSRLSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDALLEGR

cccccccccccccccccccEEEEcccccccccccccHHHHHHHHHHHHHccccccEEEEEccccccccccEEEcccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccHHHHHccccccccEEEEEccccccHHHHHHHHHHHcccccccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHccc

ccccEHHHHHccccHccccEEEEEccccccHccccccHHHHHHHHHHHcccccccEEEEEEEcccccccEEEcccccccEEccccccHHHHcccccccccHHHHHHHHHHHHHccccccccccccccccccHHHHHHHcccccccEEEEEEcccccHHHHHHHHHHHHHHHHccEEEEEcccHHccHHHcccccccccHHHHHHHHHHHHHHHccc

MMRQRIPVIAAKSRLSVMDTFFishgsptlsideslparGFLQAWQAKvfsqrpnsILVISahwdtdfpsvnvvqrndtihdfygfpkqmydlkypapgapELAKRVKDLLKASGikhvnedrkrgldhgawvplmlmypeadipvcqlsvqmhhtGTYHYnigkalaplkeegvliigsgsathnLRALQFESSSISSWALEFDNWLKDALLEGR

mmrqripviaaksrlsvMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASgikhvnedrkrglDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDALLEGR

*******VIAAKSRLSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDAL****

*******************TFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDALLEG*

*MRQRIPVIAAKSRLSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDALLE**

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		216	2.2.26 [Sep-21-2011]
Q949R4		269	4,5-DOPA dioxygenase extr	yes	no	0.925	0.743	0.719	2e-80
Q7XA48		271	4,5-DOPA dioxygenase extr	N/A	no	0.962	0.767	0.528	1e-60
P24197		262	Uncharacterized protein Y	N/A	no	0.875	0.721	0.390	3e-36
O74741		297	4,5-DOPA dioxygenase extr	yes	no	0.851	0.619	0.302	3e-16

>sp\|Q949R4\|DIOXL_ARATH 4,5-DOPA dioxygenase extradiol-like protein OS=Arabidopsis thaliana GN=At4g15093 PE=2 SV=1	Back alignment and function desciption

 Score =  298 bits (762), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 146/203 (71%), Positives = 165/203 (81%), Gaps = 3/203 (1%)

Query: 17  VMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQR 76
           V  TFF+SHGSPTLSID+SL AR F ++W  KV  Q+P SILVISAHWDT FPSVN V R
Sbjct: 4   VNQTFFLSHGSPTLSIDDSLEARQFFKSWTQKVLPQKPKSILVISAHWDTKFPSVNTVLR 63

Query: 77  NDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLL-KASGIKHVNEDRKRGLDHGAWVPL 135
           N+TIHDF GFP  MY LKY APGA EL KRVK+LL K  G+K V+ED KRGLDHGAWVPL
Sbjct: 64  NNTIHDFSGFPDPMYKLKYEAPGAIELGKRVKELLMKEGGMKRVDEDTKRGLDHGAWVPL 123

Query: 136 MLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESS 195
           MLMYPEADIP+CQLSVQ +  G+YHYN+GKALA LK+EGVLIIGSGSATHNLR L F  +
Sbjct: 124 MLMYPEADIPICQLSVQSNQNGSYHYNMGKALASLKDEGVLIIGSGSATHNLRKLDFNIT 183

Query: 196 SIS--SWALEFDNWLKDALLEGR 216
             S   WALEFD+WL+D+LL+GR
Sbjct: 184 DGSPVPWALEFDHWLRDSLLQGR 206

May be involved in the metabolism of aromatic compounds.
Arabidopsis thaliana (taxid: 3702)
EC: 1EC: .EC: 1EC: 3EC: .EC: -EC: .EC: -

>sp\|Q7XA48\|DODA_PORGR 4,5-DOPA dioxygenase extradiol OS=Portulaca grandiflora GN=DODA PE=2 SV=1	Back alignment and function description

>sp\|P24197\|YGID_ECOLI Uncharacterized protein YgiD OS=Escherichia coli (strain K12) GN=ygiD PE=1 SV=3	Back alignment and function description

>sp\|O74741\|DIOXL_SCHPO 4,5-DOPA dioxygenase extradiol-like protein OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC1709.16c PE=3 SV=2	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		216
225441813		263	PREDICTED: 4,5-DOPA dioxygenase extradio	0.921	0.756	0.778	3e-88
356559963		266	PREDICTED: 4,5-DOPA dioxygenase extradio	0.930	0.755	0.748	2e-86
255644965		266	unknown [Glycine max]	0.930	0.755	0.748	2e-86
359480904		266	PREDICTED: 4,5-DOPA dioxygenase extradio	0.921	0.748	0.747	3e-84
357498833		266	4,5-DOPA dioxygenase extradiol-like prot	0.930	0.755	0.738	4e-84
217075713		266	unknown [Medicago truncatula]	0.930	0.755	0.738	5e-84
388491364		266	unknown [Medicago truncatula]	0.930	0.755	0.738	6e-84
224080093		265	predicted protein [Populus trichocarpa]	0.935	0.762	0.707	6e-84
388501808		267	unknown [Lotus japonicus]	0.935	0.756	0.738	7e-84
147844961		266	hypothetical protein VITISV_013290 [Viti	0.921	0.748	0.742	1e-83

>gi\|225441813\|ref\|XP_002283881.1\| PREDICTED: 4,5-DOPA dioxygenase extradiol-like protein [Vitis vinifera] gi\|147811122\|emb\|CAN61349.1\| hypothetical protein VITISV_021798 [Vitis vinifera] gi\|297739669\|emb\|CBI29851.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  330 bits (845), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 155/199 (77%), Positives = 173/199 (86%)

Query: 18  MDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRN 77
           MDTF+ISHGSPTLSIDESLPAR FL++W+ KV  QRP SILVISAHW+T  P+VNVV +N
Sbjct: 1   MDTFYISHGSPTLSIDESLPARHFLKSWKEKVMGQRPTSILVISAHWETHEPTVNVVPQN 60

Query: 78  DTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLML 137
           DTI+DFYGFPK MY LKYPAPGAPELAKRVK+LL AS  K V ED+KRGLDHGAWVPLML
Sbjct: 61  DTIYDFYGFPKSMYKLKYPAPGAPELAKRVKELLMASNFKSVKEDKKRGLDHGAWVPLML 120

Query: 138 MYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSSI 197
           MYPEADIPVCQLSVQ +  G+YHYN+G+ALAPL+EEGVLIIGSGSATHNLRAL   S S+
Sbjct: 121 MYPEADIPVCQLSVQTNRDGSYHYNMGRALAPLREEGVLIIGSGSATHNLRALNPNSESV 180

Query: 198 SSWALEFDNWLKDALLEGR 216
             WA EFD WLK+ALL+GR
Sbjct: 181 VPWAYEFDTWLKEALLDGR 199

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356559963\|ref\|XP_003548265.1\| PREDICTED: 4,5-DOPA dioxygenase extradiol-like protein-like [Glycine max]	Back alignment and taxonomy information

>gi\|255644965\|gb\|ACU22982.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|359480904\|ref\|XP_002267696.2\| PREDICTED: 4,5-DOPA dioxygenase extradiol-like protein-like [Vitis vinifera] gi\|296084824\|emb\|CBI27706.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|357498833\|ref\|XP_003619705.1\| 4,5-DOPA dioxygenase extradiol-like protein [Medicago truncatula] gi\|355494720\|gb\|AES75923.1\| 4,5-DOPA dioxygenase extradiol-like protein [Medicago truncatula]	Back alignment and taxonomy information

>gi\|217075713\|gb\|ACJ86216.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

>gi\|388491364\|gb\|AFK33748.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

>gi\|224080093\|ref\|XP_002306014.1\| predicted protein [Populus trichocarpa] gi\|118485928\|gb\|ABK94809.1\| unknown [Populus trichocarpa] gi\|222848978\|gb\|EEE86525.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|388501808\|gb\|AFK38970.1\| unknown [Lotus japonicus]	Back alignment and taxonomy information

>gi\|147844961\|emb\|CAN83326.1\| hypothetical protein VITISV_013290 [Vitis vinifera]	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		216
TAIR\|locus:505006468		269	LigB [Arabidopsis thaliana (ta	0.925	0.743	0.719	3.5e-75
UNIPROTKB\|Q0C3K9		258	HNE_0958 "Extradiol-type ring-	0.884	0.740	0.520	2.6e-47
DICTYBASE\|DDB_G0279843		271	DDB_G0279843 "Uncharacterized	0.912	0.726	0.415	1.6e-40
UNIPROTKB\|Q885Q5		255	PSPTO_1776 "Uncharacterized pr	0.865	0.733	0.446	2.9e-39
UNIPROTKB\|Q48FQ9		255	PSPPH_3633 "Extradiol-type rin	0.865	0.733	0.456	3.7e-39
UNIPROTKB\|Q8EFR0		269	SO_1909 "Catalytic subunit of	0.921	0.739	0.419	2.4e-37
TIGR_CMR\|SO_1909		269	SO_1909 "conserved hypothetica	0.921	0.739	0.419	2.4e-37
UNIPROTKB\|P24197		262	ygiD "predicted dioxygenase" [	0.861	0.709	0.391	3.5e-36
TIGR_CMR\|BA_1859		253	BA_1859 "oxidoreductase" [Baci	0.865	0.739	0.383	2.4e-35
UNIPROTKB\|G4NGD8		341	MGG_04343 "Extradiol ring-clea	0.717	0.454	0.412	1.5e-26

TAIR\|locus:505006468 LigB [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 758 (271.9 bits), Expect = 3.5e-75, P = 3.5e-75
 Identities = 146/203 (71%), Positives = 165/203 (81%)

Query:    17 VMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQR 76
             V  TFF+SHGSPTLSID+SL AR F ++W  KV  Q+P SILVISAHWDT FPSVN V R
Sbjct:     4 VNQTFFLSHGSPTLSIDDSLEARQFFKSWTQKVLPQKPKSILVISAHWDTKFPSVNTVLR 63

Query:    77 NDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLL-KASGIKHVNEDRKRGLDHGAWVPL 135
             N+TIHDF GFP  MY LKY APGA EL KRVK+LL K  G+K V+ED KRGLDHGAWVPL
Sbjct:    64 NNTIHDFSGFPDPMYKLKYEAPGAIELGKRVKELLMKEGGMKRVDEDTKRGLDHGAWVPL 123

Query:   136 MLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESS 195
             MLMYPEADIP+CQLSVQ +  G+YHYN+GKALA LK+EGVLIIGSGSATHNLR L F  +
Sbjct:   124 MLMYPEADIPICQLSVQSNQNGSYHYNMGKALASLKDEGVLIIGSGSATHNLRKLDFNIT 183

Query:   196 SISS--WALEFDNWLKDALLEGR 216
               S   WALEFD+WL+D+LL+GR
Sbjct:   184 DGSPVPWALEFDHWLRDSLLQGR 206

GO:0005737 "cytoplasm" evidence=ISM

GO:0006725 "cellular aromatic compound metabolic process" evidence=IEA;ISS

GO:0008198 "ferrous iron binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016491 "oxidoreductase activity" evidence=IEA;ISS

GO:0016701 "oxidoreductase activity, acting on single donors with incorporation of molecular oxygen" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

UNIPROTKB\|Q0C3K9 HNE_0958 "Extradiol-type ring-opening dioxygenase" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0279843 DDB_G0279843 "Uncharacterized protein ygiD" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

UNIPROTKB\|Q885Q5 PSPTO_1776 "Uncharacterized protein" [Pseudomonas syringae pv. tomato str. DC3000 (taxid:223283)]	Back alignment and assigned GO terms

UNIPROTKB\|Q48FQ9 PSPPH_3633 "Extradiol-type ring-opening dioxygenase" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8EFR0 SO_1909 "Catalytic subunit of aromatic ring-opening dioxygenase" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

TIGR_CMR\|SO_1909 SO_1909 "conserved hypothetical protein" [Shewanella oneidensis MR-1 (taxid:211586)]	Back alignment and assigned GO terms

UNIPROTKB\|P24197 ygiD "predicted dioxygenase" [Escherichia coli K-12 (taxid:83333)]	Back alignment and assigned GO terms

TIGR_CMR\|BA_1859 BA_1859 "oxidoreductase" [Bacillus anthracis str. Ames (taxid:198094)]	Back alignment and assigned GO terms

UNIPROTKB\|G4NGD8 MGG_04343 "Extradiol ring-cleavage dioxygenase" [Magnaporthe oryzae 70-15 (taxid:242507)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q949R4	DIOXL_ARATH	1, ., 1, 3, ., -, ., -	0.7192	0.9259	0.7434	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.13.11.16	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00025581001	SubName- Full=Putative uncharacterized protein (Chromosome chr8 scaffold_34, whole genome shotgun sequence); (263 aa)
		(Vitis vinifera)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

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		216
cd07363		253	cd07363, 45_DOPA_Dioxygenase, The Class III extrad	3e-98
COG3384		268	COG3384, COG3384, Aromatic ring-opening dioxygenas	1e-69
pfam02900		258	pfam02900, LigB, Catalytic LigB subunit of aromati	2e-65
PRK10628		246	PRK10628, PRK10628, LigB family dioxygenase; Provi	3e-53
cd07320		260	cd07320, Extradiol_Dioxygenase_3B_like, Subunit B	2e-21
cd07362		272	cd07362, HPCD_like, Class III extradiol dioxygenas	4e-11
cd07370		280	cd07370, HPCD, The Class III extradiol dioxygenase	2e-05
cd07951		256	cd07951, ED_3B_N_AMMECR1, The N-terminal domain, a	3e-05
cd07367		268	cd07367, CarBb, CarBb is the B subunit of the Clas	5e-05
PRK13364		278	PRK13364, PRK13364, protocatechuate 4,5-dioxygenas	1e-04
cd07359		271	cd07359, PCA_45_Doxase_B_like, Subunit B of the Cl	0.001
cd07364		277	cd07364, PCA_45_Dioxygenase_B, Subunit B of the Cl	0.001
PRK03881		467	PRK03881, PRK03881, hypothetical protein; Provisio	0.004
cd07371		268	cd07371, 2A5CPDO_AB, The alpha and beta subunits o	0.004

>gnl\|CDD\|153375 cd07363, 45_DOPA_Dioxygenase, The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine	Back alignment and domain information

 Score =  285 bits (731), Expect = 3e-98
 Identities = 112/197 (56%), Positives = 147/197 (74%), Gaps = 5/197 (2%)

Query: 20  TFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDT 79
             FISHGSP L+++++ PA  FL+    ++   +P +ILVISAHW+T  P+V    R +T
Sbjct: 2   VLFISHGSPMLALEDN-PATAFLRELGKELP--KPKAILVISAHWETRGPTVTASARPET 58

Query: 80  IHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMY 139
           I+DFYGFP ++Y+++YPAPG+PELA+RV +LLKA+GI     D +RGLDHGAWVPL LMY
Sbjct: 59  IYDFYGFPPELYEIQYPAPGSPELAERVAELLKAAGIP-ARLDPERGLDHGAWVPLKLMY 117

Query: 140 PEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFESSS-IS 198
           P+ADIPV QLS+        HY +G+ALAPL++EGVLIIGSGS+ HNLRAL++   +   
Sbjct: 118 PDADIPVVQLSLPASLDPAEHYALGRALAPLRDEGVLIIGSGSSVHNLRALRWGGPAPPP 177

Query: 199 SWALEFDNWLKDALLEG 215
            WALEFD+WLKDAL  G
Sbjct: 178 PWALEFDDWLKDALTAG 194

This subfamily is composed of plant 4,5-DOPA Dioxygenase, the uncharacterized Escherichia coli protein Jw3007, and similar proteins. 4,5-DOPA Dioxygenase catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine (4,5-DOPA). The reaction results in the opening of the cyclic ring between carbons 4 and 5 and producing an unstable seco-DOPA that rearranges to betalamic acid. 4,5-DOPA Dioxygenase is a key enzyme in the biosynthetic pathway of the plant pigment betalain. Homologs of DODA are present not only in betalain-producing plants but also in bacteria and archaea. This enzyme is a member of the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Length = 253

>gnl\|CDD\|225919 COG3384, COG3384, Aromatic ring-opening dioxygenase, catalytic LigB subunit related enzyme [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|217276 pfam02900, LigB, Catalytic LigB subunit of aromatic ring-opening dioxygenase	Back alignment and domain information

>gnl\|CDD\|182598 PRK10628, PRK10628, LigB family dioxygenase; Provisional	Back alignment and domain information

>gnl\|CDD\|153371 cd07320, Extradiol_Dioxygenase_3B_like, Subunit B of Class III Extradiol ring-cleavage dioxygenases	Back alignment and domain information

>gnl\|CDD\|153374 cd07362, HPCD_like, Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate	Back alignment and domain information

>gnl\|CDD\|153382 cd07370, HPCD, The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate	Back alignment and domain information

>gnl\|CDD\|153388 cd07951, ED_3B_N_AMMECR1, The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain	Back alignment and domain information

>gnl\|CDD\|153379 cd07367, CarBb, CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol	Back alignment and domain information

>gnl\|CDD\|184003 PRK13364, PRK13364, protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>gnl\|CDD\|153372 cd07359, PCA_45_Doxase_B_like, Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes	Back alignment and domain information

>gnl\|CDD\|153376 cd07364, PCA_45_Dioxygenase_B, Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate	Back alignment and domain information

>gnl\|CDD\|235170 PRK03881, PRK03881, hypothetical protein; Provisional	Back alignment and domain information

>gnl\|CDD\|153383 cd07371, 2A5CPDO_AB, The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		216
COG3384		268	Aromatic ring-opening dioxygenase, catalytic LigB	100.0
cd07363		253	45_DOPA_Dioxygenase The Class III extradiol dioxyg	100.0
PRK10628		246	LigB family dioxygenase; Provisional	100.0
PF02900		272	LigB: Catalytic LigB subunit of aromatic ring-open	100.0
TIGR02298		282	HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase	100.0
cd07370		280	HPCD The Class III extradiol dioxygenase, homoprot	100.0
cd07373		271	2A5CPDO_A The alpha subunit of the Class III extra	100.0
cd07362		272	HPCD_like Class III extradiol dioxygenases with si	100.0
cd07371		268	2A5CPDO_AB The alpha and beta subunits of the Clas	100.0
cd07952		256	ED_3B_like Uncharacterized class III extradiol dio	100.0
cd07367		268	CarBb CarBb is the B subunit of the Class III Extr	100.0
cd07372		294	2A5CPDO_B The beta subunit of the Class III extrad	100.0
cd07320		260	Extradiol_Dioxygenase_3B_like Subunit B of Class I	100.0
cd07949		276	PCA_45_Doxase_B_like_1 The B subunit of unknown Cl	100.0
cd07359		271	PCA_45_Doxase_B_like Subunit B of the Class III Ex	100.0
cd07364		277	PCA_45_Dioxygenase_B Subunit B of the Class III ex	100.0
PRK13366		284	protocatechuate 4,5-dioxygenase subunit beta; Prov	100.0
cd07368		277	PhnC_Bs_like PhnC is a Class III Extradiol ring-cl	100.0
PRK03881		467	hypothetical protein; Provisional	100.0
cd07951		256	ED_3B_N_AMMECR1 The N-terminal domain, an extradio	100.0
PRK13358		269	protocatechuate 4,5-dioxygenase subunit beta; Prov	100.0
cd07369		329	PydA_Rs_like PydA is a Class III Extradiol ring-cl	100.0
cd07950		277	Gallate_Doxase_N The N-terminal domain of the Clas	100.0
PRK13372		444	pcmA protocatechuate 4,5-dioxygenase; Provisional	100.0
PRK13364		278	protocatechuate 4,5-dioxygenase subunit beta; Prov	100.0
PRK13367		420	protocatechuate 4,5-dioxygenase; Provisional	100.0
PRK13365		279	protocatechuate 4,5-dioxygenase subunit beta; Prov	100.0
PRK13370		313	mhpB 3-(2,3-dihydroxyphenyl)propionate dioxygenase	100.0
cd07365		310	MhpB_like Subunit B of the Class III Extradiol rin	100.0
cd07366		328	3MGA_Dioxygenase Subunit B of the Class III Extrad	100.0
PRK13363		335	protocatechuate 4,5-dioxygenase subunit beta; Prov	100.0
PRK13373		344	putative dioxygenase; Provisional	100.0
COG3885		261	Uncharacterized conserved protein [Function unknow	99.84
cd07361		266	MEMO_like Memo (mediator of ErbB2-driven cell moti	99.83
PRK00782		267	hypothetical protein; Provisional	99.69
COG1355		279	Predicted dioxygenase [General function prediction	98.79
PF01875		276	Memo: Memo-like protein; InterPro: IPR002737 This	98.69
KOG3086		296	consensus Predicted dioxygenase [General function	88.7
PRK03995		267	hypothetical protein; Provisional	86.22
PF04414		213	tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterP	81.99

>COG3384 Aromatic ring-opening dioxygenase, catalytic LigB subunit related enzyme [Amino acid transport and metabolism]	Back alignment and domain information

Probab=100.00  E-value=3.7e-57  Score=385.88  Aligned_cols=195  Identities=47%  Similarity=0.880  Sum_probs=183.2

Q ss_pred             CcccEEEEcCCCCCCCCCCChhHHHHHHHHHHHhhcCCCCEEEEEeCCCCCCC-CeEEEccCCCccCCCCCCCccccccc
Q 027965           16 SVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDF-PSVNVVQRNDTIHDFYGFPKQMYDLK   94 (216)
Q Consensus        16 ~~~P~~fisHG~P~~~~~~~~~~~~~l~~l~~~l~~~~Pd~IVviS~H~~~~~-~~i~~~~~~~~~~Df~Gfp~~~~~~~   94 (216)
                      ..+|++|+|||||++.+ +.++++++++++++++.+.+||+|||+|+||.++. ..|++.+.++++|||+|||+++|+++
T Consensus         7 ~~~p~LflshgsP~~~~-~~n~~~~~l~~lG~~~~e~rp~tIiV~SaHw~t~~~~~v~~~e~~~~i~DfygFP~~ly~~~   85 (268)
T COG3384           7 TMMPALFLSHGSPMLAL-EDNAATRGLRELGRELPELRPDTIIVFSAHWETRGAYHVTASEHPETIHDFYGFPDELYDVK   85 (268)
T ss_pred             hhccceeecCCCccccc-CccHHHHHHHHHHHhhhhcCCCEEEEEeceEEecCceeEEcccCcceeeccCCCCHHHHhcc
Confidence            35699999999999999 55789999999999999999999999999999987 88999999999999999999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCcccccCCCCcccchhhhhhhhccCCCCCeeEeeeCCCCCHHHHHHHHHHhhccccCC
Q 027965           95 YPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEG  174 (216)
Q Consensus        95 y~~~gd~~lA~~l~~~l~~~g~d~~~~~~~~~lDHG~~vPL~~l~p~~~iPVV~isi~~~~~~~~~~~lG~aL~~~~d~r  174 (216)
                      |+++|+|+||++|+++|.+.|++ ... .+||+|||+|+||++|||++++||||||+++..+++.||++|++|+++++|.
T Consensus        86 Y~a~G~peLa~~i~~~l~~~~v~-a~~-~~~gLDHGtwvpL~~M~PdadipVV~iSi~~~~~~~~h~~lG~al~~lree~  163 (268)
T COG3384          86 YPAPGSPELAQRIVELLAKLGVP-ADA-PSWGLDHGTWVPLRYMFPDADIPVVQISIDCTLSPADHYELGRALRKLREEG  163 (268)
T ss_pred             CCCCCCHHHHHHHHHHhcccCcc-ccC-CccCCCccceeeehhhCCccCCcEEEEecCCCCCHHHHHHHHHHHHHHHhCC
Confidence            99999999999999999999994 333 6899999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEecCCcccccccccCCCCCChhHHHHHHHHHHHHH
Q 027965          175 VLIIGSGSATHNLRALQFESSSISSWALEFDNWLKDALL  213 (216)
Q Consensus       175 v~iIaSG~lSH~l~~~~~~~~~~~~~~~~FD~~v~~~l~  213 (216)
                      |+|||||+++|||....+.+.+.+||+.+||+|+++.|.
T Consensus       164 vlilaSGs~~H~l~~~~~~~~~~~~~a~~F~~~~~~~v~  202 (268)
T COG3384         164 VLILASGSLVHNLRLLKWAGDGPYPWAREFDEWMKKNVV  202 (268)
T ss_pred             EEEEecCcceeehhhhhhcCCCCChhHHHHHHHHHHHHH
Confidence            999999999999999988655577999999999999996

>cd07363 45_DOPA_Dioxygenase The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine	Back alignment and domain information

>PRK10628 LigB family dioxygenase; Provisional	Back alignment and domain information

>PF02900 LigB: Catalytic LigB subunit of aromatic ring-opening dioxygenase; InterPro: IPR004183 Dioxygenases catalyse the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms	Back alignment and domain information

>TIGR02298 HpaD_Fe 3,4-dihydroxyphenylacetate 2,3-dioxygenase	Back alignment and domain information

>cd07370 HPCD The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate	Back alignment and domain information

>cd07373 2A5CPDO_A The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol	Back alignment and domain information

>cd07362 HPCD_like Class III extradiol dioxygenases with similarity to homoprotocatechuate 2,3-dioxygenase, which catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate	Back alignment and domain information

>cd07371 2A5CPDO_AB The alpha and beta subunits of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol	Back alignment and domain information

>cd07952 ED_3B_like Uncharacterized class III extradiol dioxygenases	Back alignment and domain information

>cd07367 CarBb CarBb is the B subunit of the Class III Extradiol ring-cleavage dioxygenase, 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol	Back alignment and domain information

>cd07372 2A5CPDO_B The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol	Back alignment and domain information

>cd07320 Extradiol_Dioxygenase_3B_like Subunit B of Class III Extradiol ring-cleavage dioxygenases	Back alignment and domain information

>cd07949 PCA_45_Doxase_B_like_1 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase	Back alignment and domain information

>cd07359 PCA_45_Doxase_B_like Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes	Back alignment and domain information

>cd07364 PCA_45_Dioxygenase_B Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate	Back alignment and domain information

>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>cd07368 PhnC_Bs_like PhnC is a Class III Extradiol ring-cleavage dioxygenase involved in the polycyclic aromatic hydrocarbon (PAH) catabolic pathway	Back alignment and domain information

>PRK03881 hypothetical protein; Provisional	Back alignment and domain information

>cd07951 ED_3B_N_AMMECR1 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain	Back alignment and domain information

>PRK13358 protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>cd07369 PydA_Rs_like PydA is a Class III Extradiol ring-cleavage dioxygenase required for the degradation of 3-hydroxy-4-pyridone (HP)	Back alignment and domain information

>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate	Back alignment and domain information

>PRK13372 pcmA protocatechuate 4,5-dioxygenase; Provisional	Back alignment and domain information

>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>PRK13367 protocatechuate 4,5-dioxygenase; Provisional	Back alignment and domain information

>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>PRK13370 mhpB 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional	Back alignment and domain information

>cd07365 MhpB_like Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate	Back alignment and domain information

>cd07366 3MGA_Dioxygenase Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate	Back alignment and domain information

>PRK13363 protocatechuate 4,5-dioxygenase subunit beta; Provisional	Back alignment and domain information

>PRK13373 putative dioxygenase; Provisional	Back alignment and domain information

>COG3885 Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>cd07361 MEMO_like Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility	Back alignment and domain information

>PRK00782 hypothetical protein; Provisional	Back alignment and domain information

>COG1355 Predicted dioxygenase [General function prediction only]	Back alignment and domain information

>PF01875 Memo: Memo-like protein; InterPro: IPR002737 This entry contains proteins from all branches of life	Back alignment and domain information

>KOG3086 consensus Predicted dioxygenase [General function prediction only]	Back alignment and domain information

>PRK03995 hypothetical protein; Provisional	Back alignment and domain information

>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules	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		216
2pw6_A		271	Crystal Structure Of Uncharacterized Protein Jw3007		6e-35

>pdb|2PW6|A Chain A, Crystal Structure Of Uncharacterized Protein Jw3007 From Escherichia Coli K12 Length = 271

Back alignment and structure

Iteration: 1

Score = 143 bits (361), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 77/207 (37%), Positives = 120/207 (57%), Gaps = 11/207 (5%) Query: 8 VIAAKSRLSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFS-QRPNSILVISAHWDT 66 +I + +R + F+ HGSP ++++L + ++WQ + RP +I+V+SAHW T Sbjct: 8 IIXSSTRXPAL---FLGHGSPXNVLEDNL----YTRSWQKLGXTLPRPQAIVVVSAHWFT 60 Query: 67 DFPSVNVVQRNDTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRG 126 V + TIHDF GFP+ +YD YPAPG+P LA+R+ +LL I + G Sbjct: 61 RGTGVTAXETPPTIHDFGGFPQALYDTHYPAPGSPALAQRLVELLAP--IPVTLDKEAWG 118 Query: 127 LDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHN 186 DHG+W L+ YP+ADIP QLS+ +H+ G+ LA L++EG+ ++ SG+ HN Sbjct: 119 FDHGSWGVLIKXYPDADIPXVQLSIDSSKPAAWHFEXGRKLAALRDEGIXLVASGNVVHN 178 Query: 187 LRALQFES-SSISSWALEFDNWLKDAL 212 LR +++ SS WA F+ ++K L Sbjct: 179 LRTVKWHGDSSPYPWATSFNEYVKANL 205

PyMOL of 2pw6

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		216
2pw6_A		271	Uncharacterized protein YGID; JW3007, escherichia	1e-63
1b4u_B		302	LIGA, LIGB, protocatechuate 4,5-dioxygenase; extra	4e-22

>2pw6_A Uncharacterized protein YGID; JW3007, escherichia coli structural genomics, protein structure, riken and PSI, protein structu initiative; 2.27A {Escherichia coli} SCOP: c.56.6.1 Length = 271	Back alignment and structure

 Score =  197 bits (502), Expect = 1e-63
 Identities = 76/198 (38%), Positives = 117/198 (59%), Gaps = 6/198 (3%)

Query: 18  MDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRN 77
           M   F+ HGSP   ++++L  R   Q     +   RP +I+V+SAHW T    V  ++  
Sbjct: 15  MPALFLGHGSPMNVLEDNLYTR-SWQKLGMTL--PRPQAIVVVSAHWFTRGTGVTAMETP 71

Query: 78  DTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLML 137
            TIHDF GFP+ +YD  YPAPG+P LA+R+ +LL    +    +    G DHG+W  L+ 
Sbjct: 72  PTIHDFGGFPQALYDTHYPAPGSPALAQRLVELLAPIPVTL--DKEAWGFDHGSWGVLIK 129

Query: 138 MYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFES-SS 196
           MYP+ADIP+ QLS+       +H+ +G+ LA L++EG++++ SG+  HNLR +++   SS
Sbjct: 130 MYPDADIPMVQLSIDSSKPAAWHFEMGRKLAALRDEGIMLVASGNVVHNLRTVKWHGDSS 189

Query: 197 ISSWALEFDNWLKDALLE 214
              WA  F+ ++K  L  
Sbjct: 190 PYPWATSFNEYVKANLTW 207

PyMOL of 2pw6

>1b4u_B LIGA, LIGB, protocatechuate 4,5-dioxygenase; extradiol type dioxygenase, non-heme iron protein; HET: DHB; 2.20A {Sphingomonas paucimobilis} SCOP: c.56.6.1 PDB: 1bou_B Length = 302	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		216
2pw6_A		271	Uncharacterized protein YGID; JW3007, escherichia	100.0
3vsj_B		312	2-amino-5-chlorophenol 1,6-dioxygenase beta subun;	100.0
3vsj_A		271	2-amino-5-chlorophenol 1,6-dioxygenase alpha SUBU;	100.0
1b4u_B		302	LIGA, LIGB, protocatechuate 4,5-dioxygenase; extra	100.0
3bcz_A		293	Protein MEMO1; alpha/beta structure, peptide bindi	99.65

>2pw6_A Uncharacterized protein YGID; JW3007, escherichia coli structural genomics, protein structure, riken and PSI, protein structu initiative; 2.27A {Escherichia coli} SCOP: c.56.6.1	Back alignment and structure

Probab=100.00  E-value=1.1e-58  Score=402.29  Aligned_cols=196  Identities=38%  Similarity=0.756  Sum_probs=166.5

Q ss_pred             cCcccEEEEcCCCCCCCCCCChhHHHHHHHHHHHhhcCCCCEEEEEeCCCCCCCCeEEEccCCCccCCCCCCCccccccc
Q 027965           15 LSVMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLK   94 (216)
Q Consensus        15 ~~~~P~~fisHG~P~~~~~~~~~~~~~l~~l~~~l~~~~Pd~IVviS~H~~~~~~~i~~~~~~~~~~Df~Gfp~~~~~~~   94 (216)
                      ..++|++|+|||||++.+++ +.+.++++++++++.  +||+||||||||++..++|++.+.++++|||+|||+++|+++
T Consensus        12 ~~~~P~~flsHGsP~~~~~~-~~~~~~l~~l~~~l~--~P~aIvviSaHw~~~~~~V~~~~~~~~i~Df~gfp~~ly~~~   88 (271)
T 2pw6_A           12 STRMPALFLGHGSPMNVLED-NLYTRSWQKLGMTLP--RPQAIVVVSAHWFTRGTGVTAMETPPTIHDFGGFPQALYDTH   88 (271)
T ss_dssp             --CCCEEEEECC-CCCCSSC-CHHHHHHHHHHHHSC--CCSEEEEEEEEEEESSEEEECCCC-------------CCSCC
T ss_pred             CCcCCEEEECCCCCccCCCc-hHHHHHHHHHHHhCC--CCCEEEEEcCCCCCCceEEEeCCCCCCcCCcCcCCCcCcccc
Confidence            34799999999999999854 578899999999985  999999999999999999998888899999999999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhCCCCcccccCCCCcccchhhhhhhhccCCCCCeeEeeeCCCCCHHHHHHHHHHhhccccCC
Q 027965           95 YPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEG  174 (216)
Q Consensus        95 y~~~gd~~lA~~l~~~l~~~g~d~~~~~~~~~lDHG~~vPL~~l~p~~~iPVV~isi~~~~~~~~~~~lG~aL~~~~d~r  174 (216)
                      |+++||++||++|++.|.++||+ +.. .++++|||+|+||++|+|++|+||||||+|...++++||+||++|++++++|
T Consensus        89 y~~~g~peLA~~i~~~l~~~g~~-~~~-~~~glDHG~~vPL~~m~p~adiPVVqlSi~~~~~p~~~~~lG~aL~~lrd~~  166 (271)
T 2pw6_A           89 YPAPGSPALAQRLVELLAPIPVT-LDK-EAWGFDHGSWGVLIKMYPDADIPMVQLSIDSSKPAAWHFEMGRKLAALRDEG  166 (271)
T ss_dssp             CCCCBCHHHHHHHHHHHTTSCEE-EES-SCCCCCHHHHHHHHHHSTTCCSCEEEEEEETTSCHHHHHHHHHHHGGGGGGT
T ss_pred             cCCCCCHHHHHHHHHHHHhcCCc-ccc-cccCCCcchhhhHHHhcCCCCCCEEEEeCCCCCCHHHHHHHHHHHHHHHHcC
Confidence            99999999999999999999995 544 6799999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEecCCcccccccccCC-CCCChhHHHHHHHHHHHHH-cC
Q 027965          175 VLIIGSGSATHNLRALQFES-SSISSWALEFDNWLKDALL-EG  215 (216)
Q Consensus       175 v~iIaSG~lSH~l~~~~~~~-~~~~~~~~~FD~~v~~~l~-~g  215 (216)
                      |+|||||++||||...++.+ .+..+|+.+||+|++++|+ +|
T Consensus       167 VlIigSG~lsHnL~~~~~~~~~~~~~~~~eFD~~~~~~l~~~g  209 (271)
T 2pw6_A          167 IMLVASGNVVHNLRTVKWHGDSSPYPWATSFNEYVKANLTWQG  209 (271)
T ss_dssp             EEEEEEECSSCCTTSCCSSSCCCCCHHHHHHHHHHHTTTTCCS
T ss_pred             cEEEEeCccccCCCcccccCcCCCCchHHHHHHHHHHHHHhcC
Confidence            99999999999999887632 2456999999999999998 76

PyMOL of 2pw6

>3vsj_B 2-amino-5-chlorophenol 1,6-dioxygenase beta subun; CNBC,oxidoreductase, 2-His-1-carboxylate facial triad motif, extradiol dioxygenase,; HET: 2XP; 2.30A {Comamonas testosteroni} PDB: 3vsh_B 3vsi_B* 3vsg_B*	Back alignment and structure

>3vsj_A 2-amino-5-chlorophenol 1,6-dioxygenase alpha SUBU; CNBC,oxidoreductase, 2-His-1-carboxylate facial triad motif, extradiol dioxygenase,; HET: 2XP; 2.30A {Comamonas testosteroni} PDB: 3vsh_A 3vsi_A* 3vsg_A*	Back alignment and structure

>1b4u_B LIGA, LIGB, protocatechuate 4,5-dioxygenase; extradiol type dioxygenase, non-heme iron protein; HET: DHB; 2.20A {Sphingomonas paucimobilis} SCOP: c.56.6.1 PDB: 1bou_B	Back alignment and structure

>3bcz_A Protein MEMO1; alpha/beta structure, peptide binding protein; 2.10A {Homo sapiens} PDB: 3bd0_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		216
d2pw6a1		258	c.56.6.1 (A:14-271) Uncharacterized protein YgiD {	1e-61
d1b4ub_		298	c.56.6.1 (B:) LigB subunit of an aromatic-ring-ope	8e-23

>d2pw6a1 c.56.6.1 (A:14-271) Uncharacterized protein YgiD {Escherichia coli [TaxId: 562]} Length = 258	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: LigB-like
family: LigB-like
domain: Uncharacterized protein YgiD
species: Escherichia coli [TaxId: 562]

 Score =  191 bits (485), Expect = 1e-61
 Identities = 76/199 (38%), Positives = 117/199 (58%), Gaps = 6/199 (3%)

Query: 18  MDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRN 77
           M   F+ HGSP   ++++L  R   Q     +   RP +I+V+SAHW T    V  ++  
Sbjct: 2   MPALFLGHGSPMNVLEDNLYTR-SWQKLGMTL--PRPQAIVVVSAHWFTRGTGVTAMETP 58

Query: 78  DTIHDFYGFPKQMYDLKYPAPGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLML 137
            TIHDF GFP+ +YD  YPAPG+P LA+R+ +LL    +    +    G DHG+W  L+ 
Sbjct: 59  PTIHDFGGFPQALYDTHYPAPGSPALAQRLVELLAPIPVTL--DKEAWGFDHGSWGVLIK 116

Query: 138 MYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVLIIGSGSATHNLRALQFES-SS 196
           MYP+ADIP+ QLS+       +H+ +G+ LA L++EG++++ SG+  HNLR +++   SS
Sbjct: 117 MYPDADIPMVQLSIDSSKPAAWHFEMGRKLAALRDEGIMLVASGNVVHNLRTVKWHGDSS 176

Query: 197 ISSWALEFDNWLKDALLEG 215
              WA  F+ ++K  L   
Sbjct: 177 PYPWATSFNEYVKANLTWQ 195

PyMOL of d2pw6a1

>d1b4ub_ c.56.6.1 (B:) LigB subunit of an aromatic-ring-opening dioxygenase LigAB {Pseudomonas paucimobilis [TaxId: 13689]} Length = 298	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		216
d2pw6a1		258	Uncharacterized protein YgiD {Escherichia coli [Ta	100.0
d1b4ub_		298	LigB subunit of an aromatic-ring-opening dioxygena	100.0

>d2pw6a1 c.56.6.1 (A:14-271) Uncharacterized protein YgiD {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Phosphorylase/hydrolase-like
superfamily: LigB-like
family: LigB-like
domain: Uncharacterized protein YgiD
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=3.7e-58  Score=394.17  Aligned_cols=194  Identities=38%  Similarity=0.742  Sum_probs=165.6

Q ss_pred             cccEEEEcCCCCCCCCCCChhHHHHHHHHHHHhhcCCCCEEEEEeCCCCCCCCeEEEccCCCccCCCCCCCcccccccCC
Q 027965           17 VMDTFFISHGSPTLSIDESLPARGFLQAWQAKVFSQRPNSILVISAHWDTDFPSVNVVQRNDTIHDFYGFPKQMYDLKYP   96 (216)
Q Consensus        17 ~~P~~fisHG~P~~~~~~~~~~~~~l~~l~~~l~~~~Pd~IVviS~H~~~~~~~i~~~~~~~~~~Df~Gfp~~~~~~~y~   96 (216)
                      |+|++|+|||+|+++++ ++++.++|+++++.+  .|||+||||||||++.++.|++.+.++++|||+|||+++|+++|+
T Consensus         1 r~P~lFisHG~P~~~l~-~~~~~~~l~~lg~~l--~kP~aIvviSaHw~~~~~~v~~~~~~~~~~Df~gFp~~ly~~~y~   77 (258)
T d2pw6a1           1 RMPALFLGHGSPMNVLE-DNLYTRSWQKLGMTL--PRPQAIVVVSAHWFTRGTGVTAMETPPTIHDFGGFPQALYDTHYP   77 (258)
T ss_dssp             CCCEEEEECC-CCCCSS-CCHHHHHHHHHHHHS--CCCSEEEEEEEEEEESSEEEECCCC-------------CCSCCCC
T ss_pred             CCCeEEeCCCCcccCcC-CcHHHHHHHHHHHhc--CCCCEEEEECCCcCCCCceEEecCCCCccccccccchhhccccCc
Confidence            68999999999999994 457889999999987  589999999999999999999988999999999999999999999


Q ss_pred             CCCcHHHHHHHHHHHHhCCCCcccccCCCCcccchhhhhhhhccCCCCCeeEeeeCCCCCHHHHHHHHHHhhccccCCeE
Q 027965           97 APGAPELAKRVKDLLKASGIKHVNEDRKRGLDHGAWVPLMLMYPEADIPVCQLSVQMHHTGTYHYNIGKALAPLKEEGVL  176 (216)
Q Consensus        97 ~~gd~~lA~~l~~~l~~~g~d~~~~~~~~~lDHG~~vPL~~l~p~~~iPVV~isi~~~~~~~~~~~lG~aL~~~~d~rv~  176 (216)
                      ++|+++||++|++.+++.|+ ++. +.++++|||+||||++|+|+.++||||||++...+++++|+||++|+++++|+|+
T Consensus        78 ~~g~~~La~~i~~~l~~~gi-~~~-~~~~glDHG~~vPL~~m~p~~~~pvv~iS~~~~~~~~~~~~lG~aL~~lr~e~vl  155 (258)
T d2pw6a1          78 APGSPALAQRLVELLAPIPV-TLD-KEAWGFDHGSWGVLIKMYPDADIPMVQLSIDSSKPAAWHFEMGRKLAALRDEGIM  155 (258)
T ss_dssp             CCBCHHHHHHHHHHHTTSCE-EEE-SSCCCCCHHHHHHHHHHSTTCCSCEEEEEEETTSCHHHHHHHHHHHGGGGGGTEE
T ss_pred             CCCCHHHHHHHHHHhccCCc-ccc-CCCccccccceeeeeEecCcccceEEEEecCCCCCHHHHHHHHHHHHHHHHCCEE
Confidence            99999999999999999999 443 5679999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCcccccccccCC-CCCChhHHHHHHHHHHHHHcC
Q 027965          177 IIGSGSATHNLRALQFES-SSISSWALEFDNWLKDALLEG  215 (216)
Q Consensus       177 iIaSG~lSH~l~~~~~~~-~~~~~~~~~FD~~v~~~l~~g  215 (216)
                      |||||++||||+..++.+ ....+|+.+||+|+.+.|+++
T Consensus       156 iIgSG~lsHnL~~~~~~~~~~~~~~a~~Fd~w~~~~l~~~  195 (258)
T d2pw6a1         156 LVASGNVVHNLRTVKWHGDSSPYPWATSFNEYVKANLTWQ  195 (258)
T ss_dssp             EEEEECSSCCTTSCCSSSCCCCCHHHHHHHHHHHTTTTCC
T ss_pred             EEEecccccccccccccCCCCCCcHHHHHHHHHHHHHhcC
Confidence            999999999998876643 335699999999999998875

PyMOL of d2pw6a1

>d1b4ub_ c.56.6.1 (B:) LigB subunit of an aromatic-ring-opening dioxygenase LigAB {Pseudomonas paucimobilis [TaxId: 13689]}	Back information, alignment and structure