Citrus Sinensis ID: 029487

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--

MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGTA

ccHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHcHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHcHHccc

ccccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHcccccccHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHccHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccc

mqftlgqdYIFVREFVAFAASVLVKAWkesddskgdtEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLEslmspevdYTVAITVFWAIEAVYQESFahclepdtntppeLQEVCQRwgndgfgqYCHSLKKIANRLLEKasddlimgkagdDVLKKAEVELIRVLEHEVEFWNMSRGTA

mqftlgqdyiFVREFVAFAASVLVKawkesddskgdTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVlehevefwnmsrgta

MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGTA

***TLGQDYIFVREFVAFAASVLVKAWKESD**KGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWN******

MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAH*********PELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLI**KAGDDVLKKAEVELIRVLEHEVEFWNMSRG**

MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGTA

*QFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSR***

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MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGTA

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		192	2.2.26 [Sep-21-2011]
Q9SWB6		229	Seed maturation protein P	yes	no	0.921	0.772	0.684	1e-70
Q9ASY9		221	Seed maturation protein P	yes	no	0.916	0.796	0.623	7e-59

>sp\|Q9SWB6\|PM36_SOYBN Seed maturation protein PM36 OS=Glycine max GN=PM36 PE=2 SV=1	Back alignment and function desciption

 Score =  265 bits (677), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 128/187 (68%), Positives = 147/187 (78%), Gaps = 10/187 (5%)

Query: 5   LGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVE 64
           L QDY+FVR FV F ASVL+KAWKESD S GD EVILGGMA L DEI+WFK EA+KWG+ 
Sbjct: 52  LAQDYLFVRAFVPFVASVLIKAWKESDCS-GDMEVILGGMASLEDEISWFKTEANKWGIS 110

Query: 65  LSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQ 124
           LS+ VPQ+AN+ YC  LESLMSP+ +YTVAIT FWAIE VYQESFAHC+E  + TPPEL+
Sbjct: 111 LSDVVPQQANKNYCGLLESLMSPDAEYTVAITAFWAIETVYQESFAHCIEEGSKTPPELK 170

Query: 125 EVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEF 184
           E C RWGN+ FG+YC SL+ IANR L+KAS         D+ LKKAEV L+ VLEHEVEF
Sbjct: 171 ETCVRWGNEAFGKYCQSLQNIANRCLQKAS---------DEELKKAEVMLLSVLEHEVEF 221

Query: 185 WNMSRGT 191
           WNMSRG 
Sbjct: 222 WNMSRGN 228

Glycine max (taxid: 3847)

>sp\|Q9ASY9\|PM36_ARATH Seed maturation protein PM36 homolog OS=Arabidopsis thaliana GN=At3g16990 PE=1 SV=3	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		192
296083260		204	unnamed protein product [Vitis vinifera]	0.916	0.862	0.725	1e-70
359477222		225	PREDICTED: seed maturation protein PM36	0.916	0.782	0.725	1e-70
351724199		229	seed maturation protein PM36 [Glycine ma	0.921	0.772	0.684	7e-69
357478951		231	Seed maturation protein PM36 [Medicago t	0.921	0.766	0.679	1e-68
357478949		318	Seed maturation protein PM36 [Medicago t	0.921	0.556	0.679	3e-68
224099175		225	predicted protein [Populus trichocarpa]	0.916	0.782	0.639	6e-61
388510064		225	unknown [Medicago truncatula]	0.786	0.671	0.717	6e-60
255625987		211	unknown [Glycine max]	0.786	0.715	0.703	6e-59
255556348		230	Seed maturation protein PM36, putative [	0.916	0.765	0.618	2e-58
449460951		244	PREDICTED: seed maturation protein PM36-	0.901	0.709	0.633	5e-58

>gi\|296083260\|emb\|CBI22896.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  271 bits (693), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 135/186 (72%), Positives = 151/186 (81%), Gaps = 10/186 (5%)

Query: 5   LGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVE 64
           LGQDYIFVR FV F+ASVL+KA KESD+S  D EVILGGMA L+DEIAWFKKEASKWG+E
Sbjct: 29  LGQDYIFVRAFVPFSASVLLKACKESDNS-SDMEVILGGMASLNDEIAWFKKEASKWGLE 87

Query: 65  LSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQ 124
           LS  VPQK NQ YCRFLESLMSP+V+YTVAIT FWAIEAVYQE FA CL+  + TPPEL+
Sbjct: 88  LSTIVPQKVNQEYCRFLESLMSPQVEYTVAITAFWAIEAVYQEGFALCLQDGSKTPPELK 147

Query: 125 EVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEF 184
           E CQRWGNDGFGQYC SL+ IANR L         GKA  DV+ +AEV L++VLE EVEF
Sbjct: 148 ETCQRWGNDGFGQYCRSLQNIANRHL---------GKAPPDVVARAEVALLQVLELEVEF 198

Query: 185 WNMSRG 190
           WNMS+G
Sbjct: 199 WNMSQG 204

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|359477222\|ref\|XP_002277268.2\| PREDICTED: seed maturation protein PM36 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|351724199\|ref\|NP_001238329.1\| seed maturation protein PM36 [Glycine max] gi\|62287132\|sp\|Q9SWB6.1\|PM36_SOYBN RecName: Full=Seed maturation protein PM36 gi\|5802242\|gb\|AAD51624.1\| seed maturation protein PM36 [Glycine max]	Back alignment and taxonomy information

>gi\|357478951\|ref\|XP_003609761.1\| Seed maturation protein PM36 [Medicago truncatula] gi\|355510816\|gb\|AES91958.1\| Seed maturation protein PM36 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|357478949\|ref\|XP_003609760.1\| Seed maturation protein PM36 [Medicago truncatula] gi\|355510815\|gb\|AES91957.1\| Seed maturation protein PM36 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|224099175\|ref\|XP_002311391.1\| predicted protein [Populus trichocarpa] gi\|222851211\|gb\|EEE88758.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|388510064\|gb\|AFK43098.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

>gi\|255625987\|gb\|ACU13338.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|255556348\|ref\|XP_002519208.1\| Seed maturation protein PM36, putative [Ricinus communis] gi\|223541523\|gb\|EEF43072.1\| Seed maturation protein PM36, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|449460951\|ref\|XP_004148207.1\| PREDICTED: seed maturation protein PM36-like [Cucumis sativus] gi\|449501520\|ref\|XP_004161390.1\| PREDICTED: seed maturation protein PM36-like [Cucumis sativus]	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		192
TAIR\|locus:2086052		221	AT3G16990 "AT3G16990" [Arabido	0.916	0.796	0.623	1.8e-55

TAIR\|locus:2086052 AT3G16990 "AT3G16990" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 572 (206.4 bits), Expect = 1.8e-55, P = 1.8e-55
 Identities = 116/186 (62%), Positives = 135/186 (72%)

Query:     5 LGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVE 64
             LGQDY+FVR FV F ASVL++A K+S +S  D EV+LGG+A L+DEI WFK+E SKW V+
Sbjct:    44 LGQDYLFVRRFVPFVASVLIRACKDSGESS-DMEVVLGGIASLNDEIEWFKREGSKWDVD 102

Query:    65 LSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQ 124
              S  VPQ+ANQ Y RFLE LMS EV Y V +T FWAIEAVYQESFAHCLE    TP EL 
Sbjct:   103 FSTVVPQRANQEYGRFLEDLMSSEVKYPVIMTAFWAIEAVYQESFAHCLEDGNKTPVELT 162

Query:   125 EVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEF 184
               C RWGNDGF QYC S+K IA R LE AS + ++G+A +DVL       +RVLE EV F
Sbjct:   163 GACHRWGNDGFKQYCSSVKNIAERCLENASGE-VLGEA-EDVL-------VRVLELEVAF 213

Query:   185 WNMSRG 190
             W MSRG
Sbjct:   214 WEMSRG 219


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.134   0.410    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      192       192   0.00096  110 3  11 22  0.46    32
                                                     31  0.43    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  613 (65 KB)
  Total size of DFA:  188 KB (2106 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  18.53u 0.09s 18.62t   Elapsed:  00:00:01
  Total cpu time:  18.53u 0.09s 18.62t   Elapsed:  00:00:01
  Start:  Fri May 10 23:15:07 2013   End:  Fri May 10 23:15:08 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

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)
Q9ASY9	PM36_ARATH	No assigned EC number	0.6236	0.9166	0.7963	yes	no
Q9SWB6	PM36_SOYBN	No assigned EC number	0.6844	0.9218	0.7729	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	1.3.3	LOW CONFIDENCE prediction!
3rd Layer	1.3.3.11	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00033127001	SubName- Full=Chromosome chr5 scaffold_64, whole genome shotgun sequence; (220 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00020443001	SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (281 aa)	•	0.537

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		192
pfam03070		210	pfam03070, TENA_THI-4, TENA/THI-4/PQQC family	3e-28
COG0819		218	COG0819, TenA, Putative transcription activator [T	3e-06

>gnl\|CDD\|217351 pfam03070, TENA_THI-4, TENA/THI-4/PQQC family	Back alignment and domain information

 Score =  104 bits (262), Expect = 3e-28
 Identities = 46/194 (23%), Positives = 77/194 (39%), Gaps = 18/194 (9%)

Query: 2   QFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKW 61
           Q  L QDY++++ F    A   + A K  D      E I   +  +  EI    + A   
Sbjct: 31  QAYLIQDYLYLKNFPRVLA---ILASKAPDLE-LRREWIDRILDHIGGEIELHLRLAEAL 86

Query: 62  GV---ELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLE-PDT 117
           G+   +LS+T P  A + Y  +L  L +    +  A+        VYQE      E  + 
Sbjct: 87  GLSREDLSKTEPLPAAKAYVNYLLDL-ARRGSWLEALAALLPCLFVYQEIAERLKEKING 145

Query: 118 NTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRV 177
            +  E  E    +G++ F       +++ N LL   S         D  L++ +   +  
Sbjct: 146 LSGSEYYEWIDDYGSEEFRSAVEEAERLLNHLLAYVS---------DSELEELQEIFLTS 196

Query: 178 LEHEVEFWNMSRGT 191
           LE E+ FW+M+   
Sbjct: 197 LEFELSFWDMAYDA 210

Members of this family are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes. In Bacillus subtilis, TENA is one of a number of proteins that enhance the expression of extracellular enzymes, such as alkaline protease, neutral protease and levansucrase. The THI-4 protein, which is involved in thiamine biosynthesis, is also a member of this family. The C-terminal part of these proteins consistently show significant sequence similarity to TENA proteins. This similarity was first noted with the Neurospora crassa THI-4. This family includes bacterial coenzyme PQQ synthesis protein C or PQQC proteins. Pyrroloquinoline quinone (PQQ) is the prosthetic group of several bacterial enzymes,including methanol dehydrogenase of methylotrophs and the glucose dehydrogenase of a number of bacteria. PQQC has been found to be required in the synthesis of PQQ but its function is unclear. The exact molecular function of members of this family is uncertain. Length = 210

>gnl\|CDD\|223889 COG0819, TenA, Putative transcription activator [Transcription]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		192
COG0819		218	TenA Putative transcription activator [Transcripti	100.0
PRK14713		530	multifunctional hydroxymethylpyrimidine phosphokin	100.0
PRK09517		755	multifunctional thiamine-phosphate pyrophosphoryla	100.0
PF03070		210	TENA_THI-4: TENA/THI-4/PQQC family; InterPro: IPR0	100.0
PTZ00347		504	phosphomethylpyrimidine kinase; Provisional	100.0
KOG2598		523	consensus Phosphomethylpyrimidine kinase [Coenzyme	99.9
COG5424		242	Pyrroloquinoline quinone (Coenzyme PQQ) biosynthes	97.31
PRK05157		246	pyrroloquinoline quinone biosynthesis protein PqqC	96.98
TIGR02111		239	PQQ_syn_pqqC coenzyme PQQ biosynthesis protein C.	96.49
CHL00168		238	pbsA heme oxygenase; Provisional	87.89

>COG0819 TenA Putative transcription activator [Transcription]	Back alignment and domain information

Probab=100.00  E-value=4.5e-46  Score=298.64  Aligned_cols=175  Identities=23%  Similarity=0.301  Sum_probs=160.9

Q ss_pred             ChhHHHhhHHHHHHHHHHHHHHhhhhcCCCCCChhhHHHHHHHHhhHHH-HHHHHHHHHHHhCCCCC---CCCCchHHHH
Q 029487            1 MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHD-EIAWFKKEASKWGVELS---ETVPQKANQV   76 (192)
Q Consensus         1 f~~YL~QD~~YL~~y~r~~a~~~aka~~~~~~~~~~~~~~~~~~~~~~~-E~~~~~~~~~~~gi~~~---~~~~~p~t~~   76 (192)
                      |++||+|||+||.+|+|+++++++|+|   +  .+.+..+...+..+++ |+.+|+++++++||+.+   +.+|+|+|++
T Consensus        37 F~~YL~QDy~YL~~~~ra~~~~~~ka~---~--~~~~~~~~~~~~~~~~~E~~~h~~~~~~lgis~~~~~~~~~~~~~~a  111 (218)
T COG0819          37 FQFYLVQDYLYLVNFARALALLASKAP---D--LELMEELAKIIQFLVEGEMELHERLAEELGISLDELLKTEPSPANKA  111 (218)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCC---C--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHhcCCCchHHH
Confidence            799999999999999999999999999   4  6678899999998876 99999999999999973   3689999999


Q ss_pred             HHHHHHHhcC--CchHHHHHHHHHHHHHHHHHHHHhcccCCCCCCChhHHHHHHhhCChHHHHHHHHHHHHHHHHHhhcc
Q 029487           77 YCRFLESLMS--PEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKAS  154 (192)
Q Consensus        77 Y~~~l~~~a~--~~~~~~~al~pc~~~y~~~~~~~~~~~~~~~~~~~~y~~Wi~~y~~~~f~~~v~~l~~~ld~~~~~~~  154 (192)
                      |++||++++.  ++..+++||+||+|+|.+||+.+....  ..+++++|++||++|+|++|++.|+.++++||+++...+
T Consensus       112 Yt~ym~~~~~~g~~~~~~aAl~PC~~~Y~eig~~~~~~~--~~~~~~~Y~~Wi~~Y~s~ef~~~v~~~~~~ld~~~~~~~  189 (218)
T COG0819         112 YTRYLLDTAYSGSFAELLAALLPCLWGYAEIGKRLKAKP--RASPNPPYQEWIDTYASEEFQEAVEELEALLDSLAENSS  189 (218)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcc--ccCCCCcHHHHHHHcCCHHHHHHHHHHHHHHHHHHhcCC
Confidence            9999999988  699999999999999999999887432  124789999999999999999999999999999999888


Q ss_pred             hhhhhccchhHHHHHHHHHHHHHHHHHHHhhHhhhcC
Q 029487          155 DDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGT  191 (192)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~F~~~~~lE~~Fwd~a~~~  191 (192)
                      +         +++++|.+||++++++|.+||||||+.
T Consensus       190 ~---------~~~~~l~~iF~~ss~~E~~Fwd~a~~~  217 (218)
T COG0819         190 E---------EELEKLKQIFLTASRFELAFWDMAYRL  217 (218)
T ss_pred             H---------HHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            7         899999999999999999999999974

>PRK14713 multifunctional hydroxymethylpyrimidine phosphokinase/4-amino-5-aminomethyl-2-methylpyrimidine hydrolase; Provisional	Back alignment and domain information

>PRK09517 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional	Back alignment and domain information

>PF03070 TENA_THI-4: TENA/THI-4/PQQC family; InterPro: IPR004305 Proteins containing this domain are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes	Back alignment and domain information

>PTZ00347 phosphomethylpyrimidine kinase; Provisional	Back alignment and domain information

>KOG2598 consensus Phosphomethylpyrimidine kinase [Coenzyme transport and metabolism; Transcription]	Back alignment and domain information

>COG5424 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]	Back alignment and domain information

>PRK05157 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional	Back alignment and domain information

>TIGR02111 PQQ_syn_pqqC coenzyme PQQ biosynthesis protein C	Back alignment and domain information

>CHL00168 pbsA heme oxygenase; Provisional	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		192
2f2g_A		221	X-Ray Structure Of Gene Product From Arabidopsis Th		5e-58
1rtw_A		220	X-Ray Structure Of Pf1337, A Tena Homologue From Py		6e-05

>pdb|2F2G|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana At3g16990 Length = 221

Back alignment and structure

Iteration: 1

Score = 219 bits (559), Expect = 5e-58, Method: Compositional matrix adjust. Identities = 114/186 (61%), Positives = 129/186 (69%), Gaps = 10/186 (5%) Query: 5 LGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVE 64 LGQDY+FVR FV F ASVL++A K+S +S D EV+LGG+A L+DEI WFK+E SKW V+ Sbjct: 44 LGQDYLFVRRFVPFVASVLIRACKDSGESS-DXEVVLGGIASLNDEIEWFKREGSKWDVD 102 Query: 65 LSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQ 124 S VPQ+ANQ Y RFLE L S EV Y V T FWAIEAVYQESFAHCLE TP EL Sbjct: 103 FSTVVPQRANQEYGRFLEDLXSSEVKYPVIXTAFWAIEAVYQESFAHCLEDGNKTPVELT 162 Query: 125 EVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEHEVEF 184 C RWGNDGF QYC S+K IA R LE AS +VL +AE L+RVLE EV F Sbjct: 163 GACHRWGNDGFKQYCSSVKNIAERCLENAS---------GEVLGEAEDVLVRVLELEVAF 213 Query: 185 WNMSRG 190 W SRG Sbjct: 214 WEXSRG 219

PyMOL of 2f2g

>pdb|1RTW|A Chain A, X-Ray Structure Of Pf1337, A Tena Homologue From Pyrococcus Furiosus. Northeast Structural Genomics Research Consortium (Nesg) Target Pfr34 Length = 220

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		192
1wwm_A		190	Hypothetical protein TT2028; TENA/THI-4 family, pu	3e-42
2f2g_A		221	SEED maturation protein PM36 homolog; TENA_THI-4 d	1e-35
1rtw_A		220	Transcriptional activator, putative; PF1337, TENA,	1e-19
2qcx_A		263	Transcriptional activator TENA; UP-DOWN bundle, hy	7e-19
3ibx_A		221	TENA, HP1287, putative thiaminase II; vitamin B1,	2e-17
3mvu_A		226	TENA family transcriptional regulator; TENA/THI-4/	2e-16
2qzc_A		214	Transcriptional activator TENA-1; heme oxygenase-l	1e-14
2gm8_A		221	TENA homolog/THI-4 thiaminase; transcription, tran	2e-14
1udd_A		226	Transcriptional regulator; helix-bundle, lipid bin	5e-14
1z72_A		225	Transcriptional regulator, putative; structu genom	2e-13
3no6_A		248	Transcriptional activator TENA; structural genomic	1e-12
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-08
2a2m_A		258	Hypothetical protein BT3146; putative TENA family	2e-07

>1wwm_A Hypothetical protein TT2028; TENA/THI-4 family, putative transctiption activator, structu genomics; 2.61A {Thermus thermophilus} SCOP: a.132.1.3 Length = 190	Back alignment and structure

 Score =  139 bits (351), Expect = 3e-42
 Identities = 33/187 (17%), Positives = 65/187 (34%), Gaps = 29/187 (15%)

Query: 1   MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASK 60
            +F L QDY FV     +   +L++A +           ++  +    +E+ W   + + 
Sbjct: 31  FRFWLQQDYPFVEALYRYQVGLLLEAPQAHR------APLVQALMATVEELDWLLLQGAS 84

Query: 61  WGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTP 120
                           Y   LE +    + Y   +  F+ +  ++ E++AH +  +    
Sbjct: 85  PSAP-----VHPVRAGYIALLEEM--GRLPYAYRVVFFYFLNGLFLEAWAHHVPEE---- 133

Query: 121 PELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEH 180
               E+ Q W    F    + L+ +A  L E    +                 L R+LE 
Sbjct: 134 GPWAELSQHWFAPEFQAVLYDLEVLARGLWEDLDPE------------VVRTYLRRILEA 181

Query: 181 EVEFWNM 187
           E   W++
Sbjct: 182 EKATWSL 188

PyMOL of 1wwm

>2f2g_A SEED maturation protein PM36 homolog; TENA_THI-4 domain, TENA/THI-4/PQQC family, AT3G16990, struct genomics, protein structure initiative; HET: HMH; 2.10A {Arabidopsis thaliana} SCOP: a.132.1.3 PDB: 2q4x_A* Length = 221	Back alignment and structure

>1rtw_A Transcriptional activator, putative; PF1337, TENA, thiamin, structural genomics, PSI, protein STR initiative; HET: MP5; 2.35A {Pyrococcus furiosus} SCOP: a.132.1.3 Length = 220	Back alignment and structure

>2qcx_A Transcriptional activator TENA; UP-DOWN bundle, hydrolase; HET: PF1; 2.20A {Bacillus subtilis} PDB: 1yak_A* 1yaf_A* 1to9_A* 1tyh_A Length = 263	Back alignment and structure

>3ibx_A TENA, HP1287, putative thiaminase II; vitamin B1, hydrol; 2.40A {Helicobacter pylori} PDB: 2rd3_A Length = 221	Back alignment and structure

>3mvu_A TENA family transcriptional regulator; TENA/THI-4/PQQC family, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP} Length = 226	Back alignment and structure

>2qzc_A Transcriptional activator TENA-1; heme oxygenase-like fold, structural genomics, joint center structural genomics, JCSG; 1.50A {Sulfolobus solfataricus P2} Length = 214	Back alignment and structure

>2gm8_A TENA homolog/THI-4 thiaminase; transcription, transferase; HET: HMH; 2.50A {Pyrobaculum aerophilum} SCOP: a.132.1.3 PDB: 2gm7_A* Length = 221	Back alignment and structure

>1udd_A Transcriptional regulator; helix-bundle, lipid binding protein; 2.15A {Pyrococcus horikoshii} SCOP: a.132.1.3 Length = 226	Back alignment and structure

>1z72_A Transcriptional regulator, putative; structu genomics, PSI, protein structure initiative, midwest center structural genomics, MCSG; 1.45A {Streptococcus pneumoniae} SCOP: a.132.1.3 PDB: 2a6b_A Length = 225	Back alignment and structure

>3no6_A Transcriptional activator TENA; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.65A {Staphylococcus epidermidis} Length = 248	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

>2a2m_A Hypothetical protein BT3146; putative TENA family transcriptional regulator, structural G joint center for structural genomics; 1.88A {Bacteroides thetaiotaomicron} SCOP: a.132.1.3 PDB: 2a2o_A Length = 258	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		192
3ibx_A		221	TENA, HP1287, putative thiaminase II; vitamin B1,	100.0
3mvu_A		226	TENA family transcriptional regulator; TENA/THI-4/	100.0
3no6_A		248	Transcriptional activator TENA; structural genomic	100.0
4fn6_A		229	Thiaminase-2, thiaminase II; alpha-helix, vitamin	100.0
2qcx_A		263	Transcriptional activator TENA; UP-DOWN bundle, hy	100.0
2f2g_A		221	SEED maturation protein PM36 homolog; TENA_THI-4 d	100.0
1wwm_A		190	Hypothetical protein TT2028; TENA/THI-4 family, pu	100.0
3rm5_A		550	Hydroxymethylpyrimidine/phosphomethylpyrimidine K	100.0
1z72_A		225	Transcriptional regulator, putative; structu genom	100.0
1rtw_A		220	Transcriptional activator, putative; PF1337, TENA,	100.0
2gm8_A		221	TENA homolog/THI-4 thiaminase; transcription, tran	100.0
1udd_A		226	Transcriptional regulator; helix-bundle, lipid bin	100.0
2qzc_A		214	Transcriptional activator TENA-1; heme oxygenase-l	100.0
2a2m_A		258	Hypothetical protein BT3146; putative TENA family	100.0
3oql_A		262	TENA homolog; transcriptional activator, structura	99.96
1rcw_A		231	CT610, CADD; iron, DI-iron, redox enzyme, metallo	99.92
3dde_A		239	TENA/THI-4 protein, domain of unknown function WI	99.82
3hlx_A		258	Pyrroloquinoline-quinone synthase; PQQC, PQQ biosy	99.81
3bjd_A		332	Putative 3-oxoacyl-(acyl-carrier-protein) synthas;	99.65
3b5o_A		244	CADD-like protein of unknown function; structural	98.41

>3ibx_A TENA, HP1287, putative thiaminase II; vitamin B1, hydrol; 2.40A {Helicobacter pylori} PDB: 2rd3_A	Back alignment and structure

Probab=100.00  E-value=7.2e-45  Score=292.82  Aligned_cols=175  Identities=16%  Similarity=0.198  Sum_probs=159.4

Q ss_pred             ChhHHHhhHHHHHHHHHHHHHHhhhhcCCCCCChhhHHHHHHHHhhHHH-HHHHHHHHHHHhCCCCCC---CCCchHHHH
Q 029487            1 MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHD-EIAWFKKEASKWGVELSE---TVPQKANQV   76 (192)
Q Consensus         1 f~~YL~QD~~YL~~y~r~~a~~~aka~~~~~~~~~~~~~~~~~~~~~~~-E~~~~~~~~~~~gi~~~~---~~~~p~t~~   76 (192)
                      |++||+||++||++|+|+++.+++|+|   +  .++++.+.+.+.++.+ |+++|+.+++++|++.++   .+++|+|++
T Consensus        41 f~~YL~QD~~yl~~~~r~~a~~~aka~---~--~~~~~~~~~~~~~~~~~E~~~h~~~~~~~Gi~~~~~~~~~~~p~~~a  115 (221)
T 3ibx_A           41 FRFYIIQDYLYLLEYAKVFALGVVKAC---D--EAVMREFSNAIQDILNNEMSIHNHYIRELQITQKELQNACPTLANKS  115 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCC---S--HHHHHHHHHHHHHHHSCTTSHHHHHHHHTTCCHHHHHHCCCCHHHHH
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHhCC---C--HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHhhccCCHHHHH
Confidence            689999999999999999999999999   4  5678999999988865 999999999999998754   688999999


Q ss_pred             HHHHHHHhcC--CchHHHHHHHHHHHHHHHHHHHHhcccCCCCCCChhHHHHHHhhCChHHHHHHHHHHHHHHHHHhhcc
Q 029487           77 YCRFLESLMS--PEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKAS  154 (192)
Q Consensus        77 Y~~~l~~~a~--~~~~~~~al~pc~~~y~~~~~~~~~~~~~~~~~~~~y~~Wi~~y~~~~f~~~v~~l~~~ld~~~~~~~  154 (192)
                      |++||++++.  ++..+++||+||.|+|.++|+.+....  ...++++|++||++|+|++|.++|++++++||+++...+
T Consensus       116 Y~~~l~~~a~~~~~~~~~aAl~pc~~~Y~~ig~~l~~~~--~~~~~~~y~~WI~~y~~~~f~~~v~~~~~~ld~~~~~~~  193 (221)
T 3ibx_A          116 YTSYMLAEGFKGSIKEVAAAVLSCGWSYLVIAQNLSQIP--NALEHAFYGHWIKGYSSKEFQACVNWNINLLDSLTLASS  193 (221)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHTHHHHHHHHHHHHHHTCSS--STTTCTTTHHHHHHTTSHHHHHHHHHHHHHHHHHCTTCC
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC--CCCCCChHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhCC
Confidence            9999999876  899999999999999999999887322  113578999999999999999999999999999998888


Q ss_pred             hhhhhccchhHHHHHHHHHHHHHHHHHHHhhHhhhcC
Q 029487          155 DDLIMGKAGDDVLKKAEVELIRVLEHEVEFWNMSRGT  191 (192)
Q Consensus       155 ~~~~~~~~~~~~~~~~~~~F~~~~~lE~~Fwd~a~~~  191 (192)
                      +         +++++|+++|+++|+||++||||||++
T Consensus       194 ~---------~~~~~~~~~F~~a~~lE~~Fwd~a~~~  221 (221)
T 3ibx_A          194 K---------QEIEKLKEIFITTSEYEYLFWDMAYQS  221 (221)
T ss_dssp             H---------HHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             H---------HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            7         899999999999999999999999974

PyMOL of 3ibx

>3mvu_A TENA family transcriptional regulator; TENA/THI-4/PQQC family, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.80A {Ruegeria SP} SCOP: a.132.1.0	Back alignment and structure

>3no6_A Transcriptional activator TENA; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.65A {Staphylococcus epidermidis} SCOP: a.132.1.0	Back alignment and structure

>4fn6_A Thiaminase-2, thiaminase II; alpha-helix, vitamin B1, BI-functional enzyme, C of thiamine INTO HMP and THZ; HET: CME; 2.69A {Staphylococcus aureus}	Back alignment and structure

>2qcx_A Transcriptional activator TENA; UP-DOWN bundle, hydrolase; HET: PF1; 2.20A {Bacillus subtilis} PDB: 1yak_A* 1yaf_A* 1to9_A* 1tyh_A	Back alignment and structure

>2f2g_A SEED maturation protein PM36 homolog; TENA_THI-4 domain, TENA/THI-4/PQQC family, AT3G16990, struct genomics, protein structure initiative; HET: HMH; 2.10A {Arabidopsis thaliana} SCOP: a.132.1.3 PDB: 2q4x_A*	Back alignment and structure

>1wwm_A Hypothetical protein TT2028; TENA/THI-4 family, putative transctiption activator, structu genomics; 2.61A {Thermus thermophilus} SCOP: a.132.1.3	Back alignment and structure

>3rm5_A Hydroxymethylpyrimidine/phosphomethylpyrimidine K THI20; HMP kinase (THID), thiaminase II, transferase; 2.68A {Saccharomyces cerevisiae}	Back alignment and structure

>1z72_A Transcriptional regulator, putative; structu genomics, PSI, protein structure initiative, midwest center structural genomics, MCSG; 1.45A {Streptococcus pneumoniae} SCOP: a.132.1.3 PDB: 2a6b_A	Back alignment and structure

>1rtw_A Transcriptional activator, putative; PF1337, TENA, thiamin, structural genomics, PSI, protein STR initiative; HET: MP5; 2.35A {Pyrococcus furiosus} SCOP: a.132.1.3	Back alignment and structure

>2gm8_A TENA homolog/THI-4 thiaminase; transcription, transferase; HET: HMH; 2.50A {Pyrobaculum aerophilum} SCOP: a.132.1.3 PDB: 2gm7_A*	Back alignment and structure

>1udd_A Transcriptional regulator; helix-bundle, lipid binding protein; 2.15A {Pyrococcus horikoshii} SCOP: a.132.1.3	Back alignment and structure

>2qzc_A Transcriptional activator TENA-1; heme oxygenase-like fold, structural genomics, joint center structural genomics, JCSG; 1.50A {Sulfolobus solfataricus P2}	Back alignment and structure

>2a2m_A Hypothetical protein BT3146; putative TENA family transcriptional regulator, structural G joint center for structural genomics; 1.88A {Bacteroides thetaiotaomicron} SCOP: a.132.1.3 PDB: 2a2o_A	Back alignment and structure

>3oql_A TENA homolog; transcriptional activator, structural genomics, joint center structural genomics, JCSG, protein structure initiative; 2.54A {Pseudomonas syringae PV}	Back alignment and structure

>1rcw_A CT610, CADD; iron, DI-iron, redox enzyme, metallo enzyme, oxidoreductase,; 2.50A {Chlamydia trachomatis} SCOP: a.132.1.4	Back alignment and structure

>3dde_A TENA/THI-4 protein, domain of unknown function WI oxygenase-like fold; structural genomics, joint center for structural genomics; HET: MSE PGE; 2.30A {Shewanella denitrificans OS217}	Back alignment and structure

>3hlx_A Pyrroloquinoline-quinone synthase; PQQC, PQQ biosynthesis, oxidase, complex, all helical, oxido; HET: PQQ; 1.30A {Klebsiella pneumoniae subsp} SCOP: a.132.1.4 PDB: 3hml_A* 1otv_A 3hnh_A* 1otw_A*	Back alignment and structure

>3bjd_A Putative 3-oxoacyl-(acyl-carrier-protein) synthas; structural genomics, APC5632, 3-oxoacyl-(acyl-carrier-protei synthase, PSI-2; HET: MSE; 1.85A {Pseudomonas aeruginosa PAO1}	Back alignment and structure

>3b5o_A CADD-like protein of unknown function; structural genomics, center for structural genomics, JCSG, protein structure INI PSI-2, oxidoreductase; HET: MSE; 1.35A {Nostoc punctiforme} PDB: 3b5p_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		192
d2f2ga1		215	a.132.1.3 (A:5-219) Seed maturation protein-relate	2e-29
d1wwma1		180	a.132.1.3 (A:11-190) Hypothetical protein TTHA0169	4e-29
d1rtwa_		206	a.132.1.3 (A:) Putative transcriptional activator	9e-19
d1to9a_		225	a.132.1.3 (A:) Transcriptional activator TenA {Bac	1e-17
d1udda_		215	a.132.1.3 (A:) Hypothetical transcriptional regula	1e-16
d1z72a1		217	a.132.1.3 (A:4-220) Putative transcriptional regul	1e-16
d2gm8a1		211	a.132.1.3 (A:2-212) TenA homolog PAE0170 {Archaeon	4e-15
d2a2ma1		231	a.132.1.3 (A:10-240) Hypothetical protein BT3146 {	6e-15

>d2f2ga1 a.132.1.3 (A:5-219) Seed maturation protein-related At3g16990 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 215	Back information, alignment and structure


class: All alpha proteins
fold: Heme oxygenase-like
superfamily: Heme oxygenase-like
family: TENA/THI-4
domain: Seed maturation protein-related At3g16990
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  106 bits (264), Expect = 2e-29
 Identities = 116/190 (61%), Positives = 133/190 (70%), Gaps = 10/190 (5%)

Query: 1   MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASK 60
            +  LGQDY+FVR FV F ASVL++A K+S +S  D EV+LGG+A L+DEI WFK+E SK
Sbjct: 36  FRTWLGQDYLFVRRFVPFVASVLIRACKDSGESS-DMEVVLGGIASLNDEIEWFKREGSK 94

Query: 61  WGVELSETVPQKANQVYCRFLESLMSPEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTP 120
           W V+ S  VPQ+ANQ Y RFLE LMS EV Y V +T FWAIEAVYQESFAHCLE    TP
Sbjct: 95  WDVDFSTVVPQRANQEYGRFLEDLMSSEVKYPVIMTAFWAIEAVYQESFAHCLEDGNKTP 154

Query: 121 PELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIMGKAGDDVLKKAEVELIRVLEH 180
            EL   C RWGNDGF QYC S+K IA R LE AS          +VL +AE  L+RVLE 
Sbjct: 155 VELTGACHRWGNDGFKQYCSSVKNIAERCLENAS---------GEVLGEAEDVLVRVLEL 205

Query: 181 EVEFWNMSRG 190
           EV FW MSRG
Sbjct: 206 EVAFWEMSRG 215

PyMOL of d2f2ga1

>d1wwma1 a.132.1.3 (A:11-190) Hypothetical protein TTHA0169 (TT2028) {Thermus thermophilus [TaxId: 274]} Length = 180	Back information, alignment and structure

>d1rtwa_ a.132.1.3 (A:) Putative transcriptional activator PF1337 {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 206	Back information, alignment and structure

>d1to9a_ a.132.1.3 (A:) Transcriptional activator TenA {Bacillus subtilis [TaxId: 1423]} Length = 225	Back information, alignment and structure

>d1udda_ a.132.1.3 (A:) Hypothetical transcriptional regulator PH1161 {Pyrococcus horikoshii [TaxId: 53953]} Length = 215	Back information, alignment and structure

>d1z72a1 a.132.1.3 (A:4-220) Putative transcriptional regulator SP0716 (SPr0628) {Streptococcus pneumoniae [TaxId: 1313]} Length = 217	Back information, alignment and structure

>d2gm8a1 a.132.1.3 (A:2-212) TenA homolog PAE0170 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 211	Back information, alignment and structure

>d2a2ma1 a.132.1.3 (A:10-240) Hypothetical protein BT3146 {Bacteroides thetaiotaomicron [TaxId: 818]} Length = 231	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		192
d1wwma1		180	Hypothetical protein TTHA0169 (TT2028) {Thermus th	100.0
d1to9a_		225	Transcriptional activator TenA {Bacillus subtilis	100.0
d2f2ga1		215	Seed maturation protein-related At3g16990 {Thale c	100.0
d1rtwa_		206	Putative transcriptional activator PF1337 {Archaeo	100.0
d1udda_		215	Hypothetical transcriptional regulator PH1161 {Pyr	100.0
d2gm8a1		211	TenA homolog PAE0170 {Archaeon Pyrobaculum aerophi	100.0
d2a2ma1		231	Hypothetical protein BT3146 {Bacteroides thetaiota	100.0
d1z72a1		217	Putative transcriptional regulator SP0716 (SPr0628	100.0
d1rcwa_		213	Hypothetical protein CT610 {Chlamydia trachomatis	99.82
d1otva_		254	Coenzyme PQQ synthesis protein C, PqqC {Klebsiella	99.6
d1wzda1		207	Heme oxygenase HmuO {Corynebacterium diphtheriae [	89.99

>d1wwma1 a.132.1.3 (A:11-190) Hypothetical protein TTHA0169 (TT2028) {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

class: All alpha proteins
fold: Heme oxygenase-like
superfamily: Heme oxygenase-like
family: TENA/THI-4
domain: Hypothetical protein TTHA0169 (TT2028)
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=6.1e-42  Score=266.09  Aligned_cols=159  Identities=19%  Similarity=0.261  Sum_probs=140.9

Q ss_pred             ChhHHHhhHHHHHHHHHHHHHHhhhhcCCCCCChhhHHHHHHHHhhHHHHHHHHHHHHHHhCCCCCCCCCchHHHHHHHH
Q 029487            1 MQFTLGQDYIFVREFVAFAASVLVKAWKESDDSKGDTEVILGGMAGLHDEIAWFKKEASKWGVELSETVPQKANQVYCRF   80 (192)
Q Consensus         1 f~~YL~QD~~YL~~y~r~~a~~~aka~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~~~~~~gi~~~~~~~~p~t~~Y~~~   80 (192)
                      |++||+||++||++|+|+++++++|||+      +++..+.+.+.++.+|+++|+..++++|     ++++|+|++|++|
T Consensus        21 F~~YL~QD~~yl~~~~r~~a~~~~ka~~------~~~~~~~~~~~~~~~E~~~~~~~~~~~~-----~~~~p~~~~Y~~~   89 (180)
T d1wwma1          21 FRFWLQQDYPFVEALYRYQVGLLLEAPQ------AHRAPLVQALMATVEELDWLLLQGASPS-----APVHPVRAGYIAL   89 (180)
T ss_dssp             HHHHHHTTHHHHHHHHHHHHHHHHHCCH------HHHHHHHHHHHHHHHHHHHHHTTTCCSS-----SCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCCC------HHHHHHHHHHHHHHHHHHHHHHHHHhcC-----CCCChHHHHHHHH
Confidence            7899999999999999999999999994      3477777888888889999988766655     4678999999999


Q ss_pred             HHHhcC-CchHHHHHHHHHHHHHHHHHHHHhcccCCCCCCChhHHHHHHhhCChHHHHHHHHHHHHHHHHHhhcchhhhh
Q 029487           81 LESLMS-PEVDYTVAITVFWAIEAVYQESFAHCLEPDTNTPPELQEVCQRWGNDGFGQYCHSLKKIANRLLEKASDDLIM  159 (192)
Q Consensus        81 l~~~a~-~~~~~~~al~pc~~~y~~~~~~~~~~~~~~~~~~~~y~~Wi~~y~~~~f~~~v~~l~~~ld~~~~~~~~~~~~  159 (192)
                      |++++. ++...+++|+||.|+|..+|+...   +    .++||++||++|+||+|+++|+++++++|+.+.+.++    
T Consensus        90 l~~~a~~~~~~~l~al~pc~~~Y~~~~~~~~---~----~~~~y~eWI~~y~~~~F~~~v~~l~~~vd~~~~~~~~----  158 (180)
T d1wwma1          90 LEEMGRLPYAYRVVFFYFLNGLFLEAWAHHV---P----EEGPWAELSQHWFAPEFQAVLYDLEVLARGLWEDLDP----  158 (180)
T ss_dssp             HHHHHHSCHHHHHHHHHHHHHHHHHHHHHHS---C----SSSHHHHHHHHHSCTTHHHHHHHHHHHHHHHHTTSCH----
T ss_pred             HHHHhccChHHHHHHHHHHHHHHHHHHHHhc---c----cCchHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCCH----
Confidence            999877 889999999999999999998654   2    4678999999999999999999999999999988775    


Q ss_pred             ccchhHHHHHHHHHHHHHHHHHHHhhHhhh
Q 029487          160 GKAGDDVLKKAEVELIRVLEHEVEFWNMSR  189 (192)
Q Consensus       160 ~~~~~~~~~~~~~~F~~~~~lE~~Fwd~a~  189 (192)
                           +   ++.++|+++|+||++||||++
T Consensus       159 -----~---~~~~~F~~~~~lE~~FW~m~l  180 (180)
T d1wwma1         159 -----E---VVRTYLRRILEAEKATWSLLL  180 (180)
T ss_dssp             -----H---HHHHHHHHHHHHHHHHHHTTC
T ss_pred             -----H---HHHHHHHHHHHHHHHHHhhcC
Confidence                 3   567789999999999999985

PyMOL of d1wwma1

>d1to9a_ a.132.1.3 (A:) Transcriptional activator TenA {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d2f2ga1 a.132.1.3 (A:5-219) Seed maturation protein-related At3g16990 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

>d1rtwa_ a.132.1.3 (A:) Putative transcriptional activator PF1337 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	Back information, alignment and structure

>d1udda_ a.132.1.3 (A:) Hypothetical transcriptional regulator PH1161 {Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

>d2gm8a1 a.132.1.3 (A:2-212) TenA homolog PAE0170 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}	Back information, alignment and structure

>d2a2ma1 a.132.1.3 (A:10-240) Hypothetical protein BT3146 {Bacteroides thetaiotaomicron [TaxId: 818]}	Back information, alignment and structure

>d1z72a1 a.132.1.3 (A:4-220) Putative transcriptional regulator SP0716 (SPr0628) {Streptococcus pneumoniae [TaxId: 1313]}	Back information, alignment and structure

>d1rcwa_ a.132.1.4 (A:) Hypothetical protein CT610 {Chlamydia trachomatis [TaxId: 813]}	Back information, alignment and structure

>d1otva_ a.132.1.4 (A:) Coenzyme PQQ synthesis protein C, PqqC {Klebsiella pneumoniae [TaxId: 573]}	Back information, alignment and structure

>d1wzda1 a.132.1.1 (A:7-213) Heme oxygenase HmuO {Corynebacterium diphtheriae [TaxId: 1717]}	Back information, alignment and structure