Citrus Sinensis ID: 023534

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-

MLCYDVLQRDAVTNDSTTSTELSIQNQKSEADKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYATTEAGKDSFDLINNLKSKISTEQENLGIYPDPSGDPTKVSSDSRCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

ccEEEEEEEccccccccccccccccccccHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccEEEccccccccHHHHHHHHHHHHccccccEEEEEEEEEcccEEEEEEEEEccccccEEEccccEEEEEEcEEEEEcccccEEEEEEEcccccccHHHHHHccccHHHHHHHHccHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHEEEEccccHHHHHHHHHHHHcccc

cccHHHHHHHcccccccccccccccccccHHHHHccccccccccccEEEcccHHHHHHHHHHHHHHHHHHccccccccccccEEEcccccEEEcccccccHHHHHHHccccEEEEEEEEEccccEEEEEEEEEEcccccEEEcccEEEEEEEEEEEEEEEccEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcc

mlcydvlqrdavtndsttstELSIQNQKSeadkivdgmdfgelcnefecissplvESTARQLVRDILELREGNRALGTFAVSvkykdptrsftgrekYKRRLWAttaldnpsvTVQEMVMLSTSVLSIKwtlrgkpksiiANIGGDLIVKVYSKFTLnqisgqvieheelwdlsasspvARAFFWASRRLYATTEAGKDSFDLINNLKSKIsteqenlgiypdpsgdptkvssdsrcfcfcfcltSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

mlcydvlqrdavtndsttstelsiqnqkseadKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELregnralgtfavsvkykdptrsftgrekykrrlwattaldnpsvtVQEMVMLSTSVLSikwtlrgkpksiIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYATteagkdsfDLINNLKSKISTEQENLGIYPDPSGDPTKVSSDSRCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

*********************************IVDGMDFGELCNEFECISSPLVESTARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYATTEAGKDSFDLINNL****************************RCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLV**

*LCYDVLQRDA**************************MDFGELCNEFECISSPLVESTARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYA*******************************PSGDPTKVSSDSRCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

MLCYDVLQRDA****************KSEADKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYATTEAGKDSFDLINNLKSKISTEQENLGIYPDPSGDPTKVSSDSRCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

MLCY*VLQRDA*******************ADKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLYATTEAGKDSFDLINNLKSKISTEQENLGIYPDPSGDPTKVSSDSRCFCFCFCLTSNVIYIAFASVITLSITHSKHYELLLLLYETRLVLS

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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

No hits with e-value below 0.001 by BLAST

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		281
225430926		301	PREDICTED: uncharacterized protein LOC10	0.779	0.727	0.809	1e-101
297735250		346	unnamed protein product [Vitis vinifera]	0.779	0.632	0.809	1e-101
147819671		298	hypothetical protein VITISV_020863 [Viti	0.775	0.731	0.812	1e-101
255547550		312	conserved hypothetical protein [Ricinus	0.797	0.717	0.764	2e-96
224128790		306	predicted protein [Populus trichocarpa]	0.775	0.712	0.788	5e-96
449442645		305	PREDICTED: uncharacterized protein LOC10	0.857	0.790	0.654	8e-93
356568505		307	PREDICTED: uncharacterized protein LOC10	0.768	0.703	0.770	7e-90
255638033		307	unknown [Glycine max]	0.768	0.703	0.765	2e-89
363807240		307	uncharacterized protein LOC100780920 pre	0.768	0.703	0.756	2e-87
388521943		309	unknown [Lotus japonicus]	0.779	0.708	0.725	3e-87

>gi\|225430926\|ref\|XP_002277168.1\| PREDICTED: uncharacterized protein LOC100263239 [Vitis vinifera]	Back alignment and taxonomy information

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 178/220 (80%), Positives = 200/220 (90%), Gaps = 1/220 (0%)

Query: 12  VTNDSTTST-ELSIQNQKSEADKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELR 70
           VTND    T E+SI++++SEADKIVDGMDFGELCNEFECISSPLVESTARQL RDILELR
Sbjct: 49  VTNDPNRRTAEVSIESERSEADKIVDGMDFGELCNEFECISSPLVESTARQLARDILELR 108

Query: 71  EGNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKW 130
           EGNRALGTFAVSVKYKDP RSFTGREKYKRRLW T ALD+PSVTVQEMVMLSTSVLSIKW
Sbjct: 109 EGNRALGTFAVSVKYKDPVRSFTGREKYKRRLWVTDALDDPSVTVQEMVMLSTSVLSIKW 168

Query: 131 TLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRL 190
           T++GKPKS++A+IGGDLI++V S+FTLNQISGQVIEHEE WDLSASS +A+A+FWASRRL
Sbjct: 169 TIKGKPKSLLASIGGDLIIRVNSQFTLNQISGQVIEHEEFWDLSASSAIAQAYFWASRRL 228

Query: 191 YATTEAGKDSFDLINNLKSKISTEQENLGIYPDPSGDPTK 230
           +A TEAGKD  D + N  S++STE+ENL IYPDPSGDPTK
Sbjct: 229 FAATEAGKDFADSVKNWGSRLSTEKENLEIYPDPSGDPTK 268

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|297735250\|emb\|CBI17612.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147819671\|emb\|CAN76393.1\| hypothetical protein VITISV_020863 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|255547550\|ref\|XP_002514832.1\| conserved hypothetical protein [Ricinus communis] gi\|223545883\|gb\|EEF47386.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|224128790\|ref\|XP_002328967.1\| predicted protein [Populus trichocarpa] gi\|222839201\|gb\|EEE77552.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|449442645\|ref\|XP_004139091.1\| PREDICTED: uncharacterized protein LOC101206988 [Cucumis sativus] gi\|449476192\|ref\|XP_004154667.1\| PREDICTED: uncharacterized protein LOC101230689 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356568505\|ref\|XP_003552451.1\| PREDICTED: uncharacterized protein LOC100791782 [Glycine max]	Back alignment and taxonomy information

>gi\|255638033\|gb\|ACU19331.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|363807240\|ref\|NP_001242357.1\| uncharacterized protein LOC100780920 precursor [Glycine max] gi\|255639967\|gb\|ACU20276.1\| unknown [Glycine max]	Back alignment and taxonomy information

>gi\|388521943\|gb\|AFK49033.1\| unknown [Lotus japonicus]	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		281
TAIR\|locus:2200410		286	AT1G65230 "AT1G65230" [Arabido	0.765	0.751	0.689	7.1e-77

TAIR\|locus:2200410 AT1G65230 "AT1G65230" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 774 (277.5 bits), Expect = 7.1e-77, P = 7.1e-77
 Identities = 151/219 (68%), Positives = 181/219 (82%)

Query:    12 VTNDSTTSTELSIQNQKSEADKIVDGMDFGELCNEFECISSPLVESTARQLVRDILELRE 71
             V NDST  TE+SI   KSE DK+VD +DFGELCN+FEC SSP VESTARQLVRDILE+RE
Sbjct:    39 VMNDSTR-TEVSID--KSEVDKLVDKIDFGELCNDFECTSSPQVESTARQLVRDILEIRE 95

Query:    72 GNRALGTFAVSVKYKDPTRSFTGREKYKRRLWATTALDNPSVTVQEMVMLSTSVLSIKWT 131
             GNRA   +AVSVKYKDP RSFTGREKYKR +W T+ L+NP+VTVQEMVMLSTSVL IKWT
Sbjct:    96 GNRAFACYAVSVKYKDPVRSFTGREKYKRPMWITSGLENPTVTVQEMVMLSTSVLRIKWT 155

Query:   132 LRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSASSPVARAFFWASRRLY 191
             ++GKPKSI+A + GDLIVKV S+FTLNQISGQV EHEE WDLS+SSP+A+A+FW SRRL+
Sbjct:   156 VKGKPKSILAAVSGDLIVKVKSEFTLNQISGQVFEHEESWDLSSSSPIAQAYFWTSRRLF 215

Query:   192 ATTEAGKDSFDLINNLKSKISTEQENLGIYPDPSGDPTK 230
             A +E+ KD  D+  +L + ++T +E+  IY DP+ DP K
Sbjct:   216 AASESAKDVADVTKDLTANLTTRKEDTDIYRDPT-DPNK 253


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        0.315   0.130   0.365    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      281       265   0.00093  114 3  11 22  0.37    34
                                                     32  0.50    36


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:  604 (64 KB)
  Total size of DFA:  188 KB (2108 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:  21.05u 0.21s 21.26t   Elapsed:  00:00:01
  Total cpu time:  21.05u 0.21s 21.26t   Elapsed:  00:00:01
  Start:  Fri May 10 06:58:41 2013   End:  Fri May 10 06:58:42 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0015979 "photosynthesis" evidence=RCA

GO:0016117 "carotenoid biosynthetic process" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0019760 "glucosinolate metabolic process" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

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

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00870040	hypothetical protein (306 aa)
		(Populus trichocarpa)
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		281
pfam10184		113	pfam10184, DUF2358, Uncharacterized conserved prot	8e-05

>gnl\|CDD\|220621 pfam10184, DUF2358, Uncharacterized conserved protein (DUF2358)	Back alignment and domain information

 Score = 40.7 bits (96), Expect = 8e-05
 Identities = 21/90 (23%), Positives = 35/90 (38%), Gaps = 9/90 (10%)

Query: 83  VKYKDPTRSFTGREKYKRRLWATTALD-----NPSVTVQEMVMLSTSVLSIKWTLRGKPK 137
           V ++DP   F G ++YKR  W    L      +  + + ++       +  +WTL G P+
Sbjct: 28  VYFEDPLNKFRGIDRYKRNFWLIRFLGRLFFADIRLELHDITQTPEDTIKTRWTLSGIPR 87

Query: 138 SIIANIGGDLIVKVYSKFTLNQISGQVIEH 167
                    L     S + LN   G +  H
Sbjct: 88  ---LPWKPRLTFDGTSTYKLNS-DGLIYSH 113

DUF2358 is a family of conserved proteins found from plants to humans. The function is unknown. Length = 113

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		281
PF10184		113	DUF2358: Uncharacterized conserved protein (DUF235	99.94
TIGR02096		129	conserved hypothetical protein, steroid delta-isom	99.25
cd00781		122	ketosteroid_isomerase ketosteroid isomerase: Many	99.12
PF12680		102	SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8	99.03
PF07366		126	SnoaL: SnoaL-like polyketide cyclase; InterPro: IP	99.03
PF07858		125	LEH: Limonene-1,2-epoxide hydrolase catalytic doma	97.74
KOG4457		202	consensus Uncharacterized conserved protein [Funct	97.66
PRK08241		339	RNA polymerase factor sigma-70; Validated	97.38
TIGR02960		324	SigX5 RNA polymerase sigma-70 factor, TIGR02960 fa	97.08
PF13474		121	SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE	93.99
cd00531		124	NTF2_like Nuclear transport factor 2 (NTF2-like) s	93.96
TIGR02246		128	conserved hypothetical protein. This family consis	93.73
COG4319		137	Ketosteroid isomerase homolog [Function unknown]	93.72
COG5485		131	Predicted ester cyclase [General function predicti	89.21
PF14534		107	DUF4440: Domain of unknown function (DUF4440); PDB	86.94
COG3631		133	Ketosteroid isomerase-related protein [General fun	85.81

>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins	Back alignment and domain information

Probab=99.94  E-value=3.5e-26  Score=184.77  Aligned_cols=107  Identities=25%  Similarity=0.447  Sum_probs=99.4

Q ss_pred             HHHHHHHHHHHHHhhCCccccccccceEeeCCcccccchHHHHhh----HHHHh-hcCCCeEEEEEEEEecCcEEEEEEE
Q 023534           57 STARQLVRDILELREGNRALGTFAVSVKYKDPTRSFTGREKYKRR----LWATT-ALDNPSVTVQEMVMLSTSVLSIKWT  131 (281)
Q Consensus        57 ~t~r~L~~Di~~~rtgnrt~sIYApDV~FkDPfn~F~GrerYkr~----~~M~~-~L~nPrf~V~ei~~~s~~~i~irWr  131 (281)
                      ++++.|++|+.+..+|+.+++||++||+|+||+++|+|+++|+++    .++.. ++.+|+++|++|.+.++++|++|||
T Consensus         2 ~~~~~Lr~D~~~~f~~~~~~~iY~~dv~F~Dp~~~f~g~~~Y~~~~~~l~~l~~~~~~~~~~~v~~i~~~~~~~I~~rW~   81 (113)
T PF10184_consen    2 DVIRTLREDLPRFFTGDLDYSIYDEDVVFIDPIVSFKGLDRYKRNLWALRFLGRLFFSDPSLEVLSIEQDGEDTIRARWR   81 (113)
T ss_pred             hHHHHHHHHHHHHhcCCCChhhcCCCeEEECCCCceecHHHHHHHHHHHHHHHhhccCCcEEEEEEEEECCCCEEEEEEE
Confidence            468899999999999999999999999999999999999999999    35555 6789999999998887779999999


Q ss_pred             EeeecCccccccCCceEEEEEeEEEEeCCCCcEEEE
Q 023534          132 LRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEH  167 (281)
Q Consensus       132 L~g~~klpwa~~ggrl~I~G~Sel~LN~isGrVvsH  167 (281)
                      ++|.+++||+   |++.++|.|+|++|+ +|+|++|
T Consensus        82 ~~g~~~l~w~---p~~~~~G~S~~~ln~-~g~I~~H  113 (113)
T PF10184_consen   82 LRGVPRLPWR---PRISFDGTSTYTLNS-DGLIYRH  113 (113)
T ss_pred             EEEEeCCCcC---CcEEEEEEEEEEECC-CCcEEeC
Confidence            9999999999   588899999999999 9999999

The function is unknown.

>TIGR02096 conserved hypothetical protein, steroid delta-isomerase-related	Back alignment and domain information

>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon	Back alignment and domain information

>PF12680 SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8Z_A 3DMC_A 3FH1_A 1TUH_A 3F14_A 3ER7_A 1Z1S_A 3F7X_A	Back alignment and domain information

>PF07366 SnoaL: SnoaL-like polyketide cyclase; InterPro: IPR009959 This domain is found in SnoaL [] a polyketide cyclase involved in nogalamycin biosynthesis	Back alignment and domain information

>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism	Back alignment and domain information

>KOG4457 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>PRK08241 RNA polymerase factor sigma-70; Validated	Back alignment and domain information

>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family	Back alignment and domain information

>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B	Back alignment and domain information

>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily	Back alignment and domain information

>TIGR02246 conserved hypothetical protein	Back alignment and domain information

>COG4319 Ketosteroid isomerase homolog [Function unknown]	Back alignment and domain information

>COG5485 Predicted ester cyclase [General function prediction only]	Back alignment and domain information

>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A	Back alignment and domain information

>COG3631 Ketosteroid isomerase-related protein [General function prediction only]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		281
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>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

 Score = 47.5 bits (112), Expect = 3e-06
 Identities = 44/319 (13%), Positives = 85/319 (26%), Gaps = 114/319 (35%)

Query: 3   CYDVLQRDAVTNDSTTSTELSIQNQKSEADKIVDGMDFGELCNEFECISSPLVESTARQL 62
           C DV        D   S  LS    K E D I+                S    S   +L
Sbjct: 35  CKDVQ-------DMPKSI-LS----KEEIDHII---------------MSKDAVSGTLRL 67

Query: 63  VRDILELREGNRALGTF--------------AVSVKYKDPTRSFTGREKYKRRLWATTAL 108
               L L +    +  F               +  + + P+       + + RL+    +
Sbjct: 68  F-WTL-LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125

Query: 109 DNP-SVTVQEMVM-LSTSVLSIK---W-TLRGKP---KSIIANIGGDLIVKVYSKFTL-N 158
               +V+  +  + L  ++L ++      + G     K+        + + V   + +  
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTW-------VALDVCLSYKVQC 178

Query: 159 QISGQVIEHEELWDLSASSPVARAFFWASRRLYATTEAGKDSFDLINNLKSKISTEQENL 218
           ++  ++                   FW + +   + E      +++  L  +I     N 
Sbjct: 179 KMDFKI-------------------FWLNLKNCNSPE---TVLEMLQKLLYQID---PNW 213

Query: 219 GIYPDPSGDPTKVSSD-----SRCFC---FCFCL-------TSNVIYIAF---------- 253
               D S +             R      +  CL        +     AF          
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN-AFNLSCKILLTT 272

Query: 254 --ASVIT-LSITHSKHYEL 269
               V   LS   + H  L
Sbjct: 273 RFKQVTDFLSAATTTHISL 291

PyMOL of 1vt4

>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		281
3dxo_A		121	Uncharacterized snoal-like protein; putative isome	99.45
4h3u_A		158	Hypothetical protein; structural genomics, PSI-bio	99.39
2a15_A		139	Hypothetical protein RV0760C; beta-alpha-barrel, s	99.39
2gey_A		158	ACLR protein; alpha+beta barrel, oxidoreductase; H	99.35
3rga_A		283	Epoxide hydrolase; NTF2-like, epoxide-opening cycl	99.33
2gex_A		152	SNOL; alpha+beta barrel, oxidoreductase; 2.50A {St	99.31
3rga_A		283	Epoxide hydrolase; NTF2-like, epoxide-opening cycl	99.3
3kkg_A		146	Putative snoal-like polyketide cyclase; structural	99.27
3f9s_A		146	Putative polyketide cyclase; structural genomics,	99.24
2f99_A		153	Aklanonic acid methyl ester cyclase, AKNH; anthrac	99.23
3ehc_A		128	Snoal-like polyketide cyclase; structural genomics	99.23
3k0z_A		159	Putative polyketide cyclase; structural genomics,	99.23
1oh0_A		131	Steroid delta-isomerase; ketosteroid isomerase, KS	99.19
1sjw_A		144	Nogalonic acid methyl ester cyclase; anthracycline	99.19
3fh1_A		129	Uncharacterized NTF2-like protein; structural geno	99.19
1ohp_A		125	Steroid delta-isomerase; inhibitor; HET: ESR; 1.53	99.17
3ebt_A		132	Uncharacterized NTF2-like protein; structural geno	99.15
3fgy_A		135	Uncharacterized NTF2-like protein; structural geno	99.1
3mso_A		143	Steroid delta-isomerase; structural genomics, join	99.1
3ec9_A		140	Uncharacterized NTF2-like protein; structural geno	99.09
3i0y_A		140	Putative polyketide cyclase; cystatin-like fold, s	99.07
3hk4_A		136	MLR7391 protein; NTF2-like protein, structural gen	99.06
3dm8_A		143	Uncharacterized protein RPA4348; siras, putative i	99.04
1z1s_A		163	Hypothetical protein PA3332; beta barrel, conserve	99.02
1s5a_A		150	Hypothetical protein YESE; structural genomics, PS	98.99
3h3h_A		122	Uncharacterized snoal-like protein; structural gen	98.97
3g8z_A		148	Protein of unknown function with cystatin-like FO;	98.95
1nww_A		149	Limonene-1,2-epoxide hydrolase; HET: MES; 1.20A {R	98.94
3f7x_A		151	Putative polyketide cyclase; structural genomics,	98.93
3er7_A		131	Uncharacterized NTF2-like protein; YP_001812677.1,	98.91
3f8h_A		150	Putative polyketide cyclase; structural genomics,	98.88
2k54_A		123	Protein ATU0742; protein of unknown function, stru	98.86
3f8x_A		148	Putative delta-5-3-ketosteroid isomerase; structur	98.86
2bng_A		149	MB2760; epoxide hydrolase, limonene, hydrolase, st	98.79
3grd_A		134	Uncharacterized NTF2-superfamily protein; NP_97724	98.77
3g16_A		156	Uncharacterized protein with cystatin-like fold; Y	98.71
1tuh_A		156	BAL32A, hypothetical protein EGC068; unknown funct	98.69
3g0k_A		148	Putative membrane protein; snoal-like polyketide c	98.66
3jum_A		185	Phenazine biosynthesis protein A/B; chirality, dru	98.58
3dmc_A		134	NTF2-like protein; structural genomics, joint cent	98.51
3hx8_A		129	MLR2180 protein, putative ketosteroid isomerase; s	98.4
3ff2_A		117	Uncharacterized cystatin fold protein (YP_497570.	98.36
3en8_A		128	Uncharacterized NTF-2 like protein; YP_553245.1, N	98.34
3f14_A		112	Uncharacterized NTF2-like protein; YP_680363.1, NT	98.15
3ff0_A		163	Phenazine biosynthesis protein PHZB 2; cystatin-li	98.11
3flj_A		155	Uncharacterized protein conserved in bacteria WIT	98.04
3f40_A		114	Uncharacterized NTF2-like protein; YP_677363.1, NT	97.88
3h51_A		156	Putative calcium/calmodulin dependent protein KIN	97.75
3d9r_A		135	Ketosteroid isomerase-like protein; YP_049581.1, s	97.7
3gzb_A		154	Putative snoal-like polyketide cyclase; YP_0011826	97.67
3ke7_A		134	Putative ketosteroid isomerase; structural genomic	97.26
3f7s_A		142	Uncharacterized NTF2-like protein; structural geno	97.06
2gxf_A		142	Hypothetical protein YYBH; alpha-beta protein., st	96.87
3rob_A		139	Uncharacterized conserved protein; structural geno	96.79
3bb9_A		148	Putative orphan protein; structural genomics, join	96.76
3cu3_A		172	Domain of unknown function with A cystatin-like F;	96.32
2ux0_A		143	Calcium-calmodulin dependent protein kinase (CAM I	96.22
3gzr_A		146	Uncharacterized protein with A NTF2-like fold; str	95.47
1tp6_A		128	Hypothetical protein PA1314; structural genomics,	94.99
3b7c_A		122	Uncharacterized protein; NTF-2 like protein, struc	94.68
3gwr_A		144	Putative calcium/calmodulin-dependent protein KIN	93.2
3fsd_A		134	NTF2-like protein of unknown function in nutrient;	92.5
2chc_A		170	Protein RV3472; hypothetical protein; 1.69A {Mycob	91.47
3b8l_A		163	Uncharacterized protein; putative aromatic ring hy	91.18
4i4k_A		143	Uncharacterized protein SGCJ; structural genomics,	89.38
2rfr_A		155	Uncharacterized protein; structural genomics, join	88.75
3mg1_A		323	OCP, orange carotenoid protein; carotenoid binding	87.75
3a76_A		176	Gamma-hexachlorocyclohexane dehydrochlorinase; bar	83.74
2f86_B		143	Hypothetical protein K11E8.1D; UNC-43, oligomeriza	83.38
3cnx_A		170	Uncharacterized protein; putative dehydratase, NTF	81.44

>3dxo_A Uncharacterized snoal-like protein; putative isomerase of the snoal-like family; HET: MSE PGE; 2.70A {Agrobacterium tumefaciens str} SCOP: d.17.4.19	Back alignment and structure

Probab=99.45  E-value=1.4e-12  Score=102.69  Aligned_cols=107  Identities=15%  Similarity=0.135  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHHh-hCC------ccccccccceEeeCCcccccchHHHHhh-HHHHhhcCCCeEEEE-EEEEecCcEEEEE
Q 023534           59 ARQLVRDILELR-EGN------RALGTFAVSVKYKDPTRSFTGREKYKRR-LWATTALDNPSVTVQ-EMVMLSTSVLSIK  129 (281)
Q Consensus        59 ~r~L~~Di~~~r-tgn------rt~sIYApDV~FkDPfn~F~GrerYkr~-~~M~~~L~nPrf~V~-ei~~~s~~~i~ir  129 (281)
                      .+.+++.++++. +++      .+.++|++|+.|.||...++|++.+.+. ..+...+.+.+|+++ .+ ...++.+..+
T Consensus         5 ~~~~v~ry~~aw~~~d~~~~~~~l~~l~a~D~~~~dP~~~~~G~~ai~~~~~~~~~~~~~~~f~~~~~~-~~~~~~~~~~   83 (121)
T 3dxo_A            5 HLTIAQTYLAAWNEEDNERRRHLVGQAWAENTRYVDPLMQGEGQQGIAAMIEAARQKFPGYRFVLAGTP-DGHGNFTRFS   83 (121)
T ss_dssp             HHHHHHHHHHHHHCSCHHHHHHHHHHHEEEEEEEECSSCEEEHHHHHHHHHHHHHHHSTTCEEEEEEEE-EEETTEEEEE
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHhcCCCeEEECCCCCcCCHHHHHHHHHHHHHHCCCcEEEEccCc-ceeCCEEEEE
Confidence            455666676665 333      4899999999999999999999999999 888999999999998 64 3568899999


Q ss_pred             EEEeeecCccccccCCceEEEEEeEEEEeCCCCcEEEEeeeccCCC
Q 023534          130 WTLRGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDLSA  175 (281)
Q Consensus       130 WrL~g~~klpwa~~ggrl~I~G~Sel~LN~isGrVvsH~DyWD~S~  175 (281)
                      |++..  +      +|+..+.|.+.++||+ +|||.++..|||.-+
T Consensus        84 w~~~~--~------~g~~~~~G~d~l~~~~-dGrI~~~~~f~d~~p  120 (121)
T 3dxo_A           84 WRLIS--P------DGDDVAGGTDVVSLNT-EGRIDNVVGFLDGAV  120 (121)
T ss_dssp             EEEEC--T------TSCEEEEEEEEEEECT-TSSEEEEEEEEEC--
T ss_pred             EEEeC--C------CCCceeeEEEEEEECC-CCCEEEEEEecCCCC
Confidence            99971  1      4667899999999998 899999999999765

PyMOL of 3dxo

>4h3u_A Hypothetical protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, unknown function; HET: MSE; 1.15A {Catenulispora acidiphila}	Back alignment and structure

>2a15_A Hypothetical protein RV0760C; beta-alpha-barrel, structural genomics, PSI, protein structure initiative; 1.68A {Mycobacterium tuberculosis} SCOP: d.17.4.3 PDB: 2z76_A* 2z77_A* 2z7a_A	Back alignment and structure

>2gey_A ACLR protein; alpha+beta barrel, oxidoreductase; HET: PG4; 1.80A {Streptomyces galilaeus} SCOP: d.17.4.9	Back alignment and structure

>3rga_A Epoxide hydrolase; NTF2-like, epoxide-opening cyclic ether formation, isomerase; HET: LSB ILD; 1.59A {Streptomyces lasaliensis}	Back alignment and structure

>2gex_A SNOL; alpha+beta barrel, oxidoreductase; 2.50A {Streptomyces nogalater} SCOP: d.17.4.9	Back alignment and structure

>3rga_A Epoxide hydrolase; NTF2-like, epoxide-opening cyclic ether formation, isomerase; HET: LSB ILD; 1.59A {Streptomyces lasaliensis}	Back alignment and structure

>3kkg_A Putative snoal-like polyketide cyclase; structural genomics, center for structural genomics, JCSG, protein structure INI PSI-2, lyase; HET: MSE PGE; 1.40A {Jannaschia SP}	Back alignment and structure

>3f9s_A Putative polyketide cyclase; structural genomics, joint center for structural genomics, J protein structure initiative; 1.76A {Acidithiobacillus ferrooxidans atcc 23}	Back alignment and structure

>2f99_A Aklanonic acid methyl ester cyclase, AKNH; anthracycline,polyketide cyclase,stereoselectivity, aklavino biosynthetic protein; HET: AKV; 1.90A {Streptomyces galilaeus} SCOP: d.17.4.9 PDB: 2f98_A*	Back alignment and structure

>3ehc_A Snoal-like polyketide cyclase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.12A {Agrobacterium tumefaciens str}	Back alignment and structure

>3k0z_A Putative polyketide cyclase; structural genomics, joint CENT structural genomics, JCSG, protein structure initiative, PS lipoprotein; HET: NHE; 1.91A {Bacillus cereus}	Back alignment and structure

>1oh0_A Steroid delta-isomerase; ketosteroid isomerase, KSI, equilenin, PI, LBHB; HET: EQU; 1.1A {Pseudomonas putida} SCOP: d.17.4.3 PDB: 1e3v_A* 1opy_A 1dmq_A 1dmm_A 1ea2_A 3cpo_A 1e3r_A* 1ogx_A 2inx_A 2pzv_A 1c7h_A 1dmn_A 1k41_A 1oho_A* 3fzw_A* 1cqs_A* 1w00_A 1e97_A 1w6y_A* 3ipt_A* ...	Back alignment and structure

>1sjw_A Nogalonic acid methyl ester cyclase; anthracyclines, nogalamycin, snoal, aldol condensation, LYAS structural genomics; HET: NGV; 1.35A {Streptomyces nogalater} SCOP: d.17.4.9	Back alignment and structure

>3fh1_A Uncharacterized NTF2-like protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.60A {Mesorhizobium loti}	Back alignment and structure

>1ohp_A Steroid delta-isomerase; inhibitor; HET: ESR; 1.53A {Pseudomonas testosteroni} SCOP: d.17.4.3 PDB: 1qjg_A* 8cho_A* 1ohs_A* 1ocv_A 1isk_A 3nuv_A* 1ogz_A* 3nhx_A* 3m8c_A* 3nxj_A* 3myt_A* 3mki_A 3mhe_A 1buq_A* 3nbr_A* 3t8u_A 3ov4_A* 3nm2_A	Back alignment and structure

>3ebt_A Uncharacterized NTF2-like protein; structural genomics, joint center for structural genomics, J protein structure initiative; 1.30A {Burkholderia pseudomallei K96243} SCOP: d.17.4.9	Back alignment and structure

>3fgy_A Uncharacterized NTF2-like protein; structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.59A {Burkholderia xenovorans LB400} SCOP: d.17.4.0	Back alignment and structure

>3mso_A Steroid delta-isomerase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 2.57A {Pseudomonas aeruginosa}	Back alignment and structure

>3ec9_A Uncharacterized NTF2-like protein; structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.60A {Burkholderia thailandensis E264} SCOP: d.17.4.10	Back alignment and structure

>3i0y_A Putative polyketide cyclase; cystatin-like fold, structural genomics, joint center for ST genomics, JCSG, protein structure initiative; HET: MSE UNL; 1.50A {Xanthomonas campestris PV}	Back alignment and structure

>3hk4_A MLR7391 protein; NTF2-like protein, structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2, lyase; HET: MSE; 1.96A {Mesorhizobium loti}	Back alignment and structure

>3dm8_A Uncharacterized protein RPA4348; siras, putative isomerase, structural genomics, PSI-2, prote structure initiative; HET: CE9; 1.80A {Rhodopseudomonas palustris} SCOP: d.17.4.20	Back alignment and structure

>1z1s_A Hypothetical protein PA3332; beta barrel, conserved hypothetical protein, structural genomics, PSI, protein structure initiative; HET: PGE; 1.49A {Pseudomonas aeruginosa PAO1} SCOP: d.17.4.10	Back alignment and structure

>1s5a_A Hypothetical protein YESE; structural genomics, PSI, protein STRU initiative, midwest center for structural genomics, MCSG, U function; 1.70A {Bacillus subtilis} SCOP: d.17.4.10	Back alignment and structure

>3h3h_A Uncharacterized snoal-like protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: MSE UNL MES; 1.60A {Burkholderia thailandensis E264}	Back alignment and structure

>3g8z_A Protein of unknown function with cystatin-like FO; NP_639274.1, snoal-like polyketide cyclase; HET: MSE; 1.90A {Xanthomonas campestris PV}	Back alignment and structure

>1nww_A Limonene-1,2-epoxide hydrolase; HET: MES; 1.20A {Rhodococcus erythropolis} SCOP: d.17.4.8 PDB: 1nu3_A*	Back alignment and structure

>3f7x_A Putative polyketide cyclase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE UNL; 1.24A {Pseudomonas putida KT2440}	Back alignment and structure

>3er7_A Uncharacterized NTF2-like protein; YP_001812677.1, NTF2-like protein of unknown function, struc genomics; HET: MSE; 1.50A {Exiguobacterium sibiricum 255-15} SCOP: d.17.4.24	Back alignment and structure

>3f8h_A Putative polyketide cyclase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: MSE; 2.00A {Silicibacter SP}	Back alignment and structure

>2k54_A Protein ATU0742; protein of unknown function, structural genomics, PSI-2, Pro structure initiative; NMR {Agrobacterium tumefaciens str} SCOP: d.17.4.29	Back alignment and structure

>3f8x_A Putative delta-5-3-ketosteroid isomerase; structural genomics, joint center for structural genomics; HET: MSE; 1.55A {Pectobacterium atrosepticum SCRI1043}	Back alignment and structure

>2bng_A MB2760; epoxide hydrolase, limonene, hydrolase, structural proteomics in europe, spine, structural genomics; 2.5A {Mycobacterium tuberculosis} SCOP: d.17.4.8	Back alignment and structure

>3grd_A Uncharacterized NTF2-superfamily protein; NP_977240.1, NTF2-superfamily protein with unknown function, structural genomics; HET: MSE; 1.25A {Bacillus cereus atcc 10987} SCOP: d.17.4.0	Back alignment and structure

>3g16_A Uncharacterized protein with cystatin-like fold; YP_001022489.1, protein of unknown function with cystatin-LI structural genomics; HET: MSE; 1.45A {Methylibium petroleiphilum PM1}	Back alignment and structure

>1tuh_A BAL32A, hypothetical protein EGC068; unknown function; 1.85A {Uncultured bacterium} SCOP: d.17.4.11	Back alignment and structure

>3g0k_A Putative membrane protein; snoal-like polyketide cyclase, structural genomics, joint CE structural genomics, JCSG; HET: MSE; 1.30A {Novosphingobium aromaticivorans}	Back alignment and structure

>3jum_A Phenazine biosynthesis protein A/B; chirality, drug design, medicinal CH inhibitor, biosynthetic protein; HET: AOD; 1.45A {Burkholderia SP} PDB: 3b4o_A* 3b4p_A* 3dzl_A* 3ex9_A 3cnm_A* 3jun_A* 3juo_A* 3jup_A* 3juq_A*	Back alignment and structure

>3dmc_A NTF2-like protein; structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2, unknow function; 1.65A {Anabaena variabilis atcc 29413} SCOP: d.17.4.10	Back alignment and structure

>3hx8_A MLR2180 protein, putative ketosteroid isomerase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: MSE UNL PG4; 1.45A {Mesorhizobium loti}	Back alignment and structure

>3ff2_A Uncharacterized cystatin fold protein (YP_497570. NTF2 superfamily; structural genomics; 1.90A {Novosphingobium aromaticivorans dsm 12ORGANISM_TAXID}	Back alignment and structure

>3en8_A Uncharacterized NTF-2 like protein; YP_553245.1, NTF-2 like protein of unknown function, structu genomics; HET: MSE PG4; 1.85A {Burkholderia xenovorans LB400} SCOP: d.17.4.20	Back alignment and structure

>3f14_A Uncharacterized NTF2-like protein; YP_680363.1, NTF2-like protein of unknown function, structur genomics; HET: MSE TRS PGE; 1.45A {Cytophaga hutchinsonii atcc 33406}	Back alignment and structure

>3ff0_A Phenazine biosynthesis protein PHZB 2; cystatin-like fold, antibiotic biosynthesis, virulence, STRU genomics; 1.90A {Pseudomonas aeruginosa}	Back alignment and structure

>3flj_A Uncharacterized protein conserved in bacteria WIT cystatin-like fold; YP_168589.1; HET: MSE; 2.00A {Silicibacter pomeroyi dss-3}	Back alignment and structure

>3f40_A Uncharacterized NTF2-like protein; YP_677363.1, NTF2-like protein of unknown function, structural genomics; HET: MSE; 1.27A {Cytophaga hutchinsonii atcc 33406}	Back alignment and structure

>3h51_A Putative calcium/calmodulin dependent protein KIN association domain; NP_636218.1; HET: MSE PG4; 1.70A {Xanthomonas campestris PV}	Back alignment and structure

>3d9r_A Ketosteroid isomerase-like protein; YP_049581.1, structural joint center for structural genomics, JCSG, protein structu initiative; HET: MSE; 2.40A {Pectobacterium atrosepticum} SCOP: d.17.4.27	Back alignment and structure

>3gzb_A Putative snoal-like polyketide cyclase; YP_001182657.1, STRU genomics, joint center for structural genomics, JCSG; HET: MSE; 1.44A {Shewanella putrefaciens} PDB: 3lza_A*	Back alignment and structure

>3ke7_A Putative ketosteroid isomerase; structural genomics, joint C structural genomics, JCSG, protein structure initiative; HET: MSE BCN; 1.45A {Parabacteroides distasonis atcc 8503}	Back alignment and structure

>3f7s_A Uncharacterized NTF2-like protein; structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2; 2.11A {Pseudomonas putida KT2440}	Back alignment and structure

>2gxf_A Hypothetical protein YYBH; alpha-beta protein., structural genomics, PSI, protein structure initiative; HET: MES; 3.10A {Bacillus subtilis} SCOP: d.17.4.22	Back alignment and structure

>3rob_A Uncharacterized conserved protein; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 1.48A {Planctomyces limnophilus}	Back alignment and structure

>3bb9_A Putative orphan protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.80A {Shewanella frigidimarina} SCOP: d.17.4.16	Back alignment and structure

>3cu3_A Domain of unknown function with A cystatin-like F; structural genomics, joint center for structural genomics, J protein structure initiative; 2.00A {Nostoc punctiforme} SCOP: d.17.4.28	Back alignment and structure

>2ux0_A Calcium-calmodulin dependent protein kinase (CAM II gamma; transferase, oligomerisation DOM serine- threonine kinase, ATP-binding; 2.46A {Homo sapiens} SCOP: d.17.4.7 PDB: 2w2c_A 1hkx_A*	Back alignment and structure

>3gzr_A Uncharacterized protein with A NTF2-like fold; structural genomics, joint center for struct genomics, JCSG, protein structure initiative; HET: MSE GOL; 1.40A {Caulobacter vibrioides}	Back alignment and structure

>1tp6_A Hypothetical protein PA1314; structural genomics, alpha-beta sandwich, PSI, protein structure initiative; 1.50A {Pseudomonas aeruginosa PAO1} SCOP: d.17.4.12	Back alignment and structure

>3b7c_A Uncharacterized protein; NTF-2 like protein, structural genomics, joint center for ST genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 1.70A {Shewanella oneidensis} SCOP: d.17.4.16	Back alignment and structure

>3gwr_A Putative calcium/calmodulin-dependent protein KIN II association domain; YP_315894.1; HET: MSE PG4; 2.01A {Thiobacillus denitrificans atcc 25259}	Back alignment and structure

>3fsd_A NTF2-like protein of unknown function in nutrient; YP_427473.1, NTF2-like protein of unknown function in nutrie uptake; HET: UNL; 1.70A {Rhodospirillum rubrum atcc 11170} SCOP: d.17.4.0	Back alignment and structure

>2chc_A Protein RV3472; hypothetical protein; 1.69A {Mycobacterium tuberculosis} SCOP: d.17.4.25	Back alignment and structure

>3b8l_A Uncharacterized protein; putative aromatic ring hydroxylase, structural genomics, JOI for structural genomics, JCSG; HET: MSE; 1.75A {Novosphingobium aromaticivorans} SCOP: d.17.4.28	Back alignment and structure

>4i4k_A Uncharacterized protein SGCJ; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: CIT PG4 1PE; 1.70A {Streptomyces globisporus}	Back alignment and structure

>2rfr_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 1.16A {Novosphingobium aromaticivorans} SCOP: d.17.4.28	Back alignment and structure

>3mg1_A OCP, orange carotenoid protein; carotenoid binding protein, echinone, phycobilisome; HET: ECH; 1.65A {Synechocystis SP} PDB: 3mg2_A* 3mg3_A* 1m98_A*	Back alignment and structure

>3a76_A Gamma-hexachlorocyclohexane dehydrochlorinase; barrel fold, lyase, detoxification; HET: SPD; 2.25A {Sphingomonas paucimobilis}	Back alignment and structure

>2f86_B Hypothetical protein K11E8.1D; UNC-43, oligomerization domain, transferase; 2.64A {Caenorhabditis elegans} SCOP: d.17.4.7	Back alignment and structure

>3cnx_A Uncharacterized protein; putative dehydratase, NTF2-like protein, structural genomics center for structural genomics, JCSG; HET: MSE PGE PG6; 2.10A {Streptomyces avermitilis} SCOP: d.17.4.17	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		281
d3dxoa1		117	Uncharacterized protein Atu0744 {Agrobacterium tum	99.56
d2gexa1		138	Nogalamycin biosynthesis protein SnoL {Streptomyce	99.37
d1oh0a_		125	Delta-5-3-ketosteroid isomerase, steroid delta-iso	99.32
d2a15a1		132	Hypothetical protein Rv0760c {Mycobacterium tuberc	99.29
d1ohpa1		125	Delta-5-3-ketosteroid isomerase, steroid delta-iso	99.24
d2geya1		144	Putative hydroxylase AclR {Streptomyces galilaeus	99.09
d1nwwa_		145	Limonene-1,2-epoxide hydrolase {Rhodococcus erythr	99.09
d1z1sa1		129	Uncharacterized protein PA3332 {Pseudomonas aerugi	99.03
d3ebta1		131	Uncharacterized protein BPSS0132 {Burkholderia pse	98.98
d2bnga1		132	Uncharacterized protein Mb2760 {Mycobacterium tube	98.97
d3dm8a1		135	Uncharacterized protein Rpa4348 {Rhodopseudomonas	98.93
d1s5aa_		139	Hypothetical protein YesE {Bacillus subtilis [TaxI	98.89
d2f99a1		140	Aklanonic acid methyl ester cyclase, AknH {Strepto	98.85
d1sjwa_		142	Nogalonic acid methyl ester cyclase SnoaL {Strepto	98.73
d3dmca1		133	Uncharacterized protein Ava2261 {Anabaena variabil	98.66
d3ec9a1		130	Uncharacterized protein BTHI0051 {Burkholderia tha	98.66
d3en8a1		127	Uncharacterized protein BxeB2092 {Burkholderia xen	98.64
d1tuha_		131	Hypothetical protein egc068 from a soil-derived mo	98.4
d2k54a1		123	Uncharacterized protein Atu0742 {Agrobacterium tum	98.05
d1m98a2		142	Orange carotenoid protein, C-terminal domain {Cyan	97.6
d3d9ra1		132	Uncharacterized protein ECA1476 {Pectobacterium at	97.39
d3bb9a1		121	Uncharacterized protein Sfri1973 {Shewanella frigi	96.47
d2gxfa1		128	Hypothetical protein YybH {Bacillus subtilis [TaxI	95.81
d3cu3a1		162	Uncharacterized protein NpunR1993 {Nostoc punctifo	92.54
d2rgqa1		133	Uncharacterized protein NpunR3134 {Nostoc punctifo	92.45
d2rcda1		127	Uncharacterized protein ECA3500 {Pectobacterium at	91.21
d3ef8a1		149	Uncharacterized protein Saro1465 {Novosphingobium	90.29
d3cnxa1		153	Uncharacterized protein SAV4671 {Streptomyces aver	90.23
d3er7a1		118	Uncharacterized protein Exig0174 {Exiguobacterium	88.57
d2chca1		167	Uncharacterized protein Rv3472 {Mycobacterium tube	85.15
d2r4ia1		122	Uncharacterized protein CHU142 {Cytophaga hutchins	84.35
d2owpa1		128	Hypothetical protein BxeB1374 {Burkholderia xenovo	83.75
d2ux0a1		135	Association domain of calcium/calmodulin-dependent	83.59

>d3dxoa1 d.17.4.19 (A:1-117) Uncharacterized protein Atu0744 {Agrobacterium tumefaciens [TaxId: 358]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: Atu0744-like
domain: Uncharacterized protein Atu0744
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=99.56  E-value=2.5e-14  Score=109.72  Aligned_cols=104  Identities=15%  Similarity=0.139  Sum_probs=87.7

Q ss_pred             HHHHHHHHHh-hC------CccccccccceEeeCCcccccchHHHHhh-HHHHhhcCCCeEEEEEEEEecCcEEEEEEEE
Q 023534           61 QLVRDILELR-EG------NRALGTFAVSVKYKDPTRSFTGREKYKRR-LWATTALDNPSVTVQEMVMLSTSVLSIKWTL  132 (281)
Q Consensus        61 ~L~~Di~~~r-tg------nrt~sIYApDV~FkDPfn~F~GrerYkr~-~~M~~~L~nPrf~V~ei~~~s~~~i~irWrL  132 (281)
                      .|++.++++- +.      +.+.++|++||.|.||++.++|++.++++ ..++..+.++++.+++.....++.+..+|+|
T Consensus         6 ~~~~~y~~awn~~d~~~~~~~l~~~~a~d~~~~dP~~~~~G~~ai~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~w~~   85 (117)
T d3dxoa1           6 TIAQTYLAAWNEEDNERRRHLVGQAWAENTRYVDPLMQGEGQQGIAAMIEAARQKFPGYRFVLAGTPDGHGNFTRFSWRL   85 (117)
T ss_dssp             HHHHHHHHHHHCSCHHHHHHHHHHHEEEEEEEECSSCEEEHHHHHHHHHHHHHHHSTTCEEEEEEEEEEETTEEEEEEEE
T ss_pred             HHHHHHHHHHhccCchhhHHHHHHHccCCEEEECCCCCcccHHHHHHHHHHHHHhCCCcEEEEEEEEecCCCEEEEEEEE
Confidence            3556677663 11      12678999999999999999999999999 8999999999999876445668999999998


Q ss_pred             eeecCccccccCCceEEEEEeEEEEeCCCCcEEEEeeeccC
Q 023534          133 RGKPKSIIANIGGDLIVKVYSKFTLNQISGQVIEHEELWDL  173 (281)
Q Consensus       133 ~g~~klpwa~~ggrl~I~G~Sel~LN~isGrVvsH~DyWD~  173 (281)
                      .+.        +|.+.+.|++.++||+ +|||.++++|||.
T Consensus        86 ~~~--------~~~~~~~G~d~~~~~~-dGkI~~~~~f~D~  117 (117)
T d3dxoa1          86 ISP--------DGDDVAGGTDVVSLNT-EGRIDNVVGFLDG  117 (117)
T ss_dssp             ECT--------TSCEEEEEEEEEEECT-TSSEEEEEEEEEC
T ss_pred             ecC--------CCCeEEEEEEEEEECC-CCCEEEEEEEccC
Confidence            763        4567799999999999 9999999999994

PyMOL of d3dxoa1

>d2gexa1 d.17.4.9 (A:2-139) Nogalamycin biosynthesis protein SnoL {Streptomyces nogalater [TaxId: 38314]}	Back information, alignment and structure

>d1oh0a_ d.17.4.3 (A:) Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI {Pseudomonas putida [TaxId: 303]}	Back information, alignment and structure

>d2a15a1 d.17.4.3 (A:5-136) Hypothetical protein Rv0760c {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d1ohpa1 d.17.4.3 (A:1-125) Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI {Comamonas testosteroni, also known as Pseudomonas testosteroni [TaxId: 285]}	Back information, alignment and structure

>d2geya1 d.17.4.9 (A:2-145) Putative hydroxylase AclR {Streptomyces galilaeus [TaxId: 33899]}	Back information, alignment and structure

>d1nwwa_ d.17.4.8 (A:) Limonene-1,2-epoxide hydrolase {Rhodococcus erythropolis [TaxId: 1833]}	Back information, alignment and structure

>d1z1sa1 d.17.4.10 (A:1-129) Uncharacterized protein PA3332 {Pseudomonas aeruginosa [TaxId: 287]}	Back information, alignment and structure

>d3ebta1 d.17.4.9 (A:1-131) Uncharacterized protein BPSS0132 {Burkholderia pseudomallei [TaxId: 28450]}	Back information, alignment and structure

>d2bnga1 d.17.4.8 (A:13-144) Uncharacterized protein Mb2760 {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d3dm8a1 d.17.4.20 (A:1-135) Uncharacterized protein Rpa4348 {Rhodopseudomonas palustris [TaxId: 1076]}	Back information, alignment and structure

>d1s5aa_ d.17.4.10 (A:) Hypothetical protein YesE {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d2f99a1 d.17.4.9 (A:2-141) Aklanonic acid methyl ester cyclase, AknH {Streptomyces galilaeus [TaxId: 33899]}	Back information, alignment and structure

>d1sjwa_ d.17.4.9 (A:) Nogalonic acid methyl ester cyclase SnoaL {Streptomyces nogalater [TaxId: 38314]}	Back information, alignment and structure

>d3dmca1 d.17.4.10 (A:1-133) Uncharacterized protein Ava2261 {Anabaena variabilis [TaxId: 1172]}	Back information, alignment and structure

>d3ec9a1 d.17.4.10 (A:10-139) Uncharacterized protein BTHI0051 {Burkholderia thailandensis [TaxId: 57975]}	Back information, alignment and structure

>d3en8a1 d.17.4.20 (A:1-127) Uncharacterized protein BxeB2092 {Burkholderia xenovorans [TaxId: 36873]}	Back information, alignment and structure

>d1tuha_ d.17.4.11 (A:) Hypothetical protein egc068 from a soil-derived mobile gene cassette {uncultured organism [TaxId: 155900]}	Back information, alignment and structure

>d2k54a1 d.17.4.29 (A:1-123) Uncharacterized protein Atu0742 {Agrobacterium tumefaciens [TaxId: 358]}	Back information, alignment and structure

>d1m98a2 d.17.4.6 (A:176-317) Orange carotenoid protein, C-terminal domain {Cyanobacteria (Arthrospira maxima) [TaxId: 129910]}	Back information, alignment and structure

>d3d9ra1 d.17.4.27 (A:3-134) Uncharacterized protein ECA1476 {Pectobacterium atrosepticum [TaxId: 29471]}	Back information, alignment and structure

>d3bb9a1 d.17.4.16 (A:27-147) Uncharacterized protein Sfri1973 {Shewanella frigidimarina [TaxId: 56812]}	Back information, alignment and structure

>d2gxfa1 d.17.4.22 (A:1-128) Hypothetical protein YybH {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d3cu3a1 d.17.4.28 (A:9-170) Uncharacterized protein NpunR1993 {Nostoc punctiforme [TaxId: 272131]}	Back information, alignment and structure

>d2rgqa1 d.17.4.25 (A:1-133) Uncharacterized protein NpunR3134 {Nostoc punctiforme [TaxId: 272131]}	Back information, alignment and structure

>d2rcda1 d.17.4.18 (A:1-127) Uncharacterized protein ECA3500 {Pectobacterium atrosepticum [TaxId: 29471]}	Back information, alignment and structure

>d3ef8a1 d.17.4.28 (A:1-149) Uncharacterized protein Saro1465 {Novosphingobium aromaticivorans [TaxId: 48935]}	Back information, alignment and structure

>d3cnxa1 d.17.4.17 (A:5-157) Uncharacterized protein SAV4671 {Streptomyces avermitilis [TaxId: 33903]}	Back information, alignment and structure

>d3er7a1 d.17.4.24 (A:5-122) Uncharacterized protein Exig0174 {Exiguobacterium sibiricum 255-15 [TaxId: 262543]}	Back information, alignment and structure

>d2chca1 d.17.4.25 (A:1-167) Uncharacterized protein Rv3472 {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d2r4ia1 d.17.4.15 (A:1-122) Uncharacterized protein CHU142 {Cytophaga hutchinsonii [TaxId: 985]}	Back information, alignment and structure

>d2owpa1 d.17.4.18 (A:1-128) Hypothetical protein BxeB1374 {Burkholderia xenovorans [TaxId: 36873]}	Back information, alignment and structure

>d2ux0a1 d.17.4.7 (A:387-521) Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure