Citrus Sinensis ID: 034819

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--
Protein Sequence
MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSKEKLEPSKQQPVAVA
Secondary Structure (PSIPRED)
ccccEEEEcccEEcccccEEEEEccccccEEEcHHHHHcccEEEEccccccEEEEEEEccccccccccccccccccccEEEc
Secondary Structure Prediction (SSPRO)
ccccEEEEEcccccccccEEEcccccccEEEEEHHHHHccccEEEccccEEEEEEEEcHHHHccccccccccccccccEEEc
Coil and Loop (DISEMBL)
MSYDDVEIEDMEWNEElqaytypcpcgdlfqitKDELRIGeeiarcpscslYITVIYNIEdfldnkskeklepskqqpvava
Flexible Loop (DISEMBL)
MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKskeklepskqqpvava
Low Complexity Region (SEG)
MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSKEKLEPSKQQPVAVA
Disordered region (IsUnstruct)
*********DMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFL*******************
Disordered Region (DISOPRED)
MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED*****************V***
Disordered Region (DISEMBL)
********EDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSK**************
Disordered Region (DISPRO)
*SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLD******************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSKEKLEPSKQQPVAVA
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	82	2.2.26 [Sep-21-2011]
Q6CMG4	82	Diphthamide biosynthesis	yes	no	0.975	0.975	0.512	2e-17
P0C0V4	83	Diphthamide biosynthesis	no	no	0.817	0.807	0.567	7e-16
Q74Z32	82	Diphthamide biosynthesis	yes	no	0.865	0.865	0.521	1e-15
Q3E840	82	Diphthamide biosynthesis	yes	no	0.963	0.963	0.469	3e-15
P0CN22	153	Diphthamide biosynthesis	yes	no	0.756	0.405	0.564	7e-15
P0CN23	153	Diphthamide biosynthesis	N/A	no	0.756	0.405	0.564	7e-15
Q4WPU8	106	Diphthamide biosynthesis	yes	no	0.926	0.716	0.486	8e-15
Q4P8G2	89	Diphthamide biosynthesis	N/A	no	0.817	0.752	0.492	9e-15
Q6VUC1	82	DPH3 homolog OS=Cricetulu	yes	no	0.743	0.743	0.557	1e-14
Q8K0W9	82	DPH3 homolog OS=Mus muscu	yes	no	0.743	0.743	0.557	1e-14

>sp|Q6CMG4|DPH3_KLULA Diphthamide biosynthesis protein 3 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) GN=DPH3 PE=3 SV=1

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/80 (51%), Positives = 58/80 (72%)

Query: 2  SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
          +YD+VEIEDM ++ + Q +TYPCPCGD FQI+ D++  GE+IA CPSCSL I V+++ ED
Sbjct: 3  TYDEVEIEDMTFDPDTQIFTYPCPCGDRFQISIDDMYDGEDIAVCPSCSLMIQVVFDKED 62

Query: 62 FLDNKSKEKLEPSKQQPVAV 81
           ++   +  LEP  +  VAV
Sbjct: 63 LVEYYVEANLEPPGKIAVAV 82

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.
Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37) (taxid: 284590)

>sp|P0C0V4|DPH3_EMENI Diphthamide biosynthesis protein 3 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=dph3 PE=3 SV=1

 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 38/67 (56%), Positives = 48/67 (71%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIEDM ++  LQ Y YPCPCGD F+I  D+LR GE+IA CPSCSL I VI++  D 
Sbjct: 9  YDEIEIEDMTFDANLQIYHYPCPCGDRFEIAIDDLRYGEDIAVCPSCSLMIKVIFDQSDL 68

Query: 63 LDNKSKE 69
             + KE
Sbjct: 69 PKEEKKE 75

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

>sp|Q74Z32|DPH3_ASHGO Diphthamide biosynthesis protein 3 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=DPH3 PE=3 SV=1

 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 51/71 (71%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD+VEIEDM ++ + Q +TYPCPCGD FQI+ D++  GE+IA CPSCSL I V+Y + D 
Sbjct: 4  YDEVEIEDMTFDPDTQLFTYPCPCGDRFQISIDDMCDGEDIAVCPSCSLMIKVVYELHDL 63

Query: 63 LDNKSKEKLEP 73
           +   +  +EP
Sbjct: 64 QEYYDEAGVEP 74

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) (taxid: 284811)

>sp|Q3E840|DPH3_YEAST Diphthamide biosynthesis protein 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=KTI11 PE=1 SV=1

 Score = 80.1 bits (196), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 38/81 (46%), Positives = 55/81 (67%), Gaps = 2/81 (2%)

Query: 2  SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
          +YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED
Sbjct: 3  TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKED 62

Query: 62 FLDNKSKEKLEPSKQQPVAVA 82
            +   +  + P   +P+A A
Sbjct: 63 LAEYYEEAGIHPP--EPIAAA 81

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2. Required for conferring sensitivity to K.lactis zymocin.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|P0CN22|DPH3_CRYNJ Diphthamide biosynthesis protein 3 OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) GN=DPH3 PE=3 SV=1

 Score = 79.0 bits (193), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 35/62 (56%), Positives = 46/62 (74%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIED  W+   + + YPCPCGD F+I+K +LR GEEIA CPSCSL + VIY+  D+
Sbjct: 5  YDELEIEDFAWDPVARVFHYPCPCGDRFEISKGQLRDGEEIAICPSCSLIVRVIYDYLDW 64

Query: 63 LD 64
           D
Sbjct: 65 ED 66

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (taxid: 214684)

>sp|P0CN23|DPH3_CRYNB Diphthamide biosynthesis protein 3 OS=Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) GN=DPH3 PE=3 SV=1

 Score = 79.0 bits (193), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 35/62 (56%), Positives = 46/62 (74%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIED  W+   + + YPCPCGD F+I+K +LR GEEIA CPSCSL + VIY+  D+
Sbjct: 5  YDELEIEDFAWDPVARVFHYPCPCGDRFEISKGQLRDGEEIAICPSCSLIVRVIYDYLDW 64

Query: 63 LD 64
           D
Sbjct: 65 ED 66

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) (taxid: 283643)

>sp|Q4WPU8|DPH3_ASPFU Diphthamide biosynthesis protein 3 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=dph3 PE=3 SV=1

 Score = 79.0 bits (193), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 37/76 (48%), Positives = 51/76 (67%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIEDM ++  LQ Y YPCPCGD F+I  D+LR GE+IA CPSCSL I VI+ +   
Sbjct: 9  YDEIEIEDMIFDPNLQIYHYPCPCGDRFEIAIDDLRDGEDIAVCPSCSLMIRVIFEVVCS 68

Query: 63 LDNKSKEKLEPSKQQP 78
          L   ++ ++  +   P
Sbjct: 69 LPASTRSRIWDADNVP 84

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) (taxid: 330879)

>sp|Q4P8G2|DPH3_USTMA Diphthamide biosynthesis protein 3 OS=Ustilago maydis (strain 521 / FGSC 9021) GN=DPH3 PE=3 SV=1

 Score = 79.0 bits (193), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 33/67 (49%), Positives = 49/67 (73%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++E+EDM +++E   + YPCPCGD F+IT+ +L+  E++ARCPSCSL I V+++  DF
Sbjct: 6  YDEIELEDMSYDDEKDVFHYPCPCGDRFEITRQQLKDAEDVARCPSCSLIIRVVFDPIDF 65

Query: 63 LDNKSKE 69
           D    E
Sbjct: 66 EDGDEDE 72

Required for the first step of diphthamide biosynthesis, the transfer of 3-amino-3-carboxypropyl from S-adenosyl-L-methionine to a histidine residue. Diphthamide is a post-translational modification of histidine which occurs in elongation factor 2.

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

>sp|Q6VUC1|DPH3_CRIGR DPH3 homolog OS=Cricetulus griseus GN=DPH3 PE=3 SV=1

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/61 (55%), Positives = 48/61 (78%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 5  HDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query: 63 L 63
          +
Sbjct: 65 M 65

Down-regulation increases extracellular release of proteoglycans, indicating a possible role in the secretion process. Stimulates binding of GNEFR to SEC5.

Cricetulus griseus (taxid: 10029)

>sp|Q8K0W9|DPH3_MOUSE DPH3 homolog OS=Mus musculus GN=Dph3 PE=1 SV=1

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/61 (55%), Positives = 48/61 (78%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 5  HDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query: 63 L 63
          +
Sbjct: 65 M 65

Down-regulation increases extracellular release of proteoglycans, indicating a possible role in the secretion process. Stimulates binding of GNEFR to SEC5.

Mus musculus (taxid: 10090)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	82
255556187	84	Diphthamide biosynthesis protein, putati	1.0	0.976	0.880	2e-35
147834327	85	hypothetical protein VITISV_009998 [Viti	1.0	0.964	0.858	5e-35
110294136	83	unknown [Prosopis juliflora]	1.0	0.987	0.843	5e-33
449438452	85	PREDICTED: diphthamide biosynthesis prot	1.0	0.964	0.788	6e-33
224105489	85	predicted protein [Populus trichocarpa]	1.0	0.964	0.8	1e-32
356545359	86	PREDICTED: DPH3 homolog [Glycine max]	1.0	0.953	0.790	1e-32
388508344	86	unknown [Lotus japonicus]	1.0	0.953	0.779	5e-32
357473125	83	Diphthamide biosynthesis protein [Medica	0.975	0.963	0.814	7e-32
15226643	367	CSL zinc finger domain-containing protei	0.963	0.215	0.787	6e-31
334184248	81	CSL zinc finger domain-containing protei	0.987	1.0	0.792	7e-31

>gi|255556187|ref|XP_002519128.1| Diphthamide biosynthesis protein, putative [Ricinus communis] gi|223541791|gb|EEF43339.1| Diphthamide biosynthesis protein, putative [Ricinus communis]

 Score =  152 bits (385), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 74/84 (88%), Positives = 80/84 (95%), Gaps = 2/84 (2%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITK++LR+GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKEDLRLGEEIARCPSCSLYITVIYNME 60

Query: 61 DFLDNKSKEK--LEPSKQQPVAVA 82
          DFLD+KSK K  +EP KQQPVAVA
Sbjct: 61 DFLDDKSKNKKNIEPPKQQPVAVA 84

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147834327|emb|CAN72115.1| hypothetical protein VITISV_009998 [Vitis vinifera]

 Score =  151 bits (381), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 73/85 (85%), Positives = 79/85 (92%), Gaps = 3/85 (3%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQA+TYPCPCGDLFQITKDELR+GEEIARCPSCSL+ITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQAFTYPCPCGDLFQITKDELRMGEEIARCPSCSLFITVIYNME 60

Query: 61 DFL---DNKSKEKLEPSKQQPVAVA 82
          DF    D K+K+ LEPSKQQPVAVA
Sbjct: 61 DFAGGSDPKTKKGLEPSKQQPVAVA 85

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110294136|gb|ABG66529.1| unknown [Prosopis juliflora]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 70/83 (84%), Positives = 75/83 (90%), Gaps = 1/83 (1%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITK+EL++GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKEELKLGEEIARCPSCSLYITVIYNME 60

Query: 61 DFL-DNKSKEKLEPSKQQPVAVA 82
          DFL D  SK+ LEP  QQ V VA
Sbjct: 61 DFLNDQNSKKNLEPPAQQAVTVA 83

Source: Prosopis juliflora

Species: Prosopis juliflora

Genus: Prosopis

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438452|ref|XP_004137002.1| PREDICTED: diphthamide biosynthesis protein 3-like [Cucumis sativus] gi|449523417|ref|XP_004168720.1| PREDICTED: diphthamide biosynthesis protein 3-like [Cucumis sativus]

 Score =  144 bits (363), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 67/85 (78%), Positives = 78/85 (91%), Gaps = 3/85 (3%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWN+ELQA+TYPCPCGDLFQITK++L++GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNDELQAFTYPCPCGDLFQITKEDLKLGEEIARCPSCSLYITVIYNME 60

Query: 61 DFLDN---KSKEKLEPSKQQPVAVA 82
          DFLD+   K+ + LEPSKQ P+ VA
Sbjct: 61 DFLDHSNQKNNKGLEPSKQHPIVVA 85

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224105489|ref|XP_002313828.1| predicted protein [Populus trichocarpa] gi|222850236|gb|EEE87783.1| predicted protein [Populus trichocarpa]

 Score =  144 bits (362), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/85 (80%), Positives = 76/85 (89%), Gaps = 3/85 (3%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQA+TYPCPCGDLFQITKD+LR+GEEIARCPSCSLYITV+YN E
Sbjct: 1  MSYDDVEIEDMEWNEELQAFTYPCPCGDLFQITKDDLRLGEEIARCPSCSLYITVVYNQE 60

Query: 61 DFL---DNKSKEKLEPSKQQPVAVA 82
          DFL   D   K+ LEP+KQ P++VA
Sbjct: 61 DFLGDNDKSKKKNLEPAKQLPISVA 85

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356545359|ref|XP_003541111.1| PREDICTED: DPH3 homolog [Glycine max]

 Score =  143 bits (360), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 68/86 (79%), Positives = 76/86 (88%), Gaps = 4/86 (4%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITK++L +GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKEDLMLGEEIARCPSCSLYITVIYNLE 60

Query: 61 DFL----DNKSKEKLEPSKQQPVAVA 82
          DFL     N+  + L+PSKQQP+ VA
Sbjct: 61 DFLADSDQNRRNKGLQPSKQQPLTVA 86

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508344|gb|AFK42238.1| unknown [Lotus japonicus]

 Score =  141 bits (355), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 67/86 (77%), Positives = 75/86 (87%), Gaps = 4/86 (4%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITK++L++GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKEDLKLGEEIARCPSCSLYITVIYNME 60

Query: 61 DFLD----NKSKEKLEPSKQQPVAVA 82
          DFL     N   + L+PSKQQ V +A
Sbjct: 61 DFLGDSDQNHRNKGLQPSKQQTVTIA 86

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473125|ref|XP_003606847.1| Diphthamide biosynthesis protein [Medicago truncatula] gi|355507902|gb|AES89044.1| Diphthamide biosynthesis protein [Medicago truncatula]

 Score =  140 bits (354), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 66/81 (81%), Positives = 75/81 (92%), Gaps = 1/81 (1%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEELQ+YTYPCPCGDLFQITK++L++GEEIARCPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEELQSYTYPCPCGDLFQITKEDLKLGEEIARCPSCSLYITVIYNME 60

Query: 61 DFLDNKSKEKLEPSKQQPVAV 81
          DF  + +K  L+PSKQQPV V
Sbjct: 61 DFTADSNK-ALQPSKQQPVTV 80

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226643|ref|NP_179191.1| CSL zinc finger domain-containing protein [Arabidopsis thaliana] gi|5306242|gb|AAD41975.1| unknown protein [Arabidopsis thaliana] gi|330251353|gb|AEC06447.1| CSL zinc finger domain-containing protein [Arabidopsis thaliana]

 Score =  137 bits (346), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 63/80 (78%), Positives = 71/80 (88%), Gaps = 1/80 (1%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEE+QAYTYPCPCGDLFQITK++LR+GEEIA CPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEEIQAYTYPCPCGDLFQITKEDLRLGEEIANCPSCSLYITVIYNME 60

Query: 61 DFLDNKSKEKLEPSKQQPVA 80
          DF  N +K+  EP  + PVA
Sbjct: 61 DF-QNDTKKNNEPKTRHPVA 79

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334184248|ref|NP_001189532.1| CSL zinc finger domain-containing protein [Arabidopsis thaliana] gi|26450811|dbj|BAC42514.1| unknown protein [Arabidopsis thaliana] gi|28416775|gb|AAO42918.1| At2g15910 [Arabidopsis thaliana] gi|330251354|gb|AEC06448.1| CSL zinc finger domain-containing protein [Arabidopsis thaliana]

 Score =  137 bits (346), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 65/82 (79%), Positives = 73/82 (89%), Gaps = 1/82 (1%)

Query: 1  MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
          MSYDDVEIEDMEWNEE+QAYTYPCPCGDLFQITK++LR+GEEIA CPSCSLYITVIYN+E
Sbjct: 1  MSYDDVEIEDMEWNEEIQAYTYPCPCGDLFQITKEDLRLGEEIANCPSCSLYITVIYNME 60

Query: 61 DFLDNKSKEKLEPSKQQPVAVA 82
          DF  N +K+  EP  + PVAVA
Sbjct: 61 DF-QNDTKKNNEPKTRHPVAVA 81

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	82
TAIR|locus:2044606	367	AT2G15910 "AT2G15910" [Arabido	0.963	0.215	0.787	6e-32
DICTYBASE|DDB_G0277061	175	dph3 "diphthamide biosynthesis	0.817	0.382	0.552	7.5e-18
FB|FBgn0037883	86	CG14701 [Drosophila melanogast	0.817	0.779	0.597	1.2e-17
WB|WBGene00010484	80	dph-3 [Caenorhabditis elegans	0.878	0.9	0.531	1.2e-17
ZFIN|ZDB-GENE-050522-545	85	zgc:112231 "zgc:112231" [Danio	0.743	0.717	0.590	2e-17
UNIPROTKB|E1BRJ8	82	DPH3 "Uncharacterized protein"	0.743	0.743	0.573	2.5e-17
SGD|S000007587	82	KTI11 "Zn-ribbon protein requi	0.963	0.963	0.469	8.6e-17
RGD|1590566	82	Dph3 "DPH3, KTI11 homolog (S.	0.743	0.743	0.557	1.1e-16
UNIPROTKB|Q6VUC1	82	DPH3 "DPH3 homolog" [Cricetulu	0.743	0.743	0.557	1.4e-16
UNIPROTKB|Q96FX2	82	DPH3 "DPH3 homolog" [Homo sapi	0.743	0.743	0.557	1.8e-16

TAIR|locus:2044606 AT2G15910 "AT2G15910" [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 63/80 (78%), Positives = 71/80 (88%)

Query:     1 MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIE 60
             MSYDDVEIEDMEWNEE+QAYTYPCPCGDLFQITK++LR+GEEIA CPSCSLYITVIYN+E
Sbjct:     1 MSYDDVEIEDMEWNEEIQAYTYPCPCGDLFQITKEDLRLGEEIANCPSCSLYITVIYNME 60

Query:    61 DFLDNKSKEKLEPSKQQPVA 80
             DF  N +K+  EP  + PVA
Sbjct:    61 DF-QNDTKKNNEPKTRHPVA 79

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

DICTYBASE|DDB_G0277061 dph3 "diphthamide biosynthesis protein 3" [Dictyostelium discoideum (taxid:44689)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 37/67 (55%), Positives = 54/67 (80%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             YD+++IEDM++NE+ + + YPCPCGD F+IT++E+  GEEIA CPSCSL + VIY+ EDF
Sbjct:   109 YDEIDIEDMDFNEDERIFYYPCPCGDRFRITEEEILQGEEIAICPSCSLLLKVIYSPEDF 168

Query:    63 LDNKSKE 69
             +  + +E
Sbjct:   169 VIEEEEE 175

GO:0003674 "molecular_function" evidence=ND

GO:0017183 "peptidyl-diphthamide biosynthetic process from peptidyl-histidine" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

FB|FBgn0037883 CG14701 [Drosophila melanogaster (taxid:7227)]

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 40/67 (59%), Positives = 51/67 (76%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED E++EE + Y YPCPCGD FQI+K+EL  GEE+A CPSCSL I VIY+ E F
Sbjct:     5 HDEVEIEDFEYDEEEEMYYYPCPCGDRFQISKEELIEGEEVATCPSCSLVIKVIYDPEMF 64

Query:    63 LDNKSKE 69
                + +E
Sbjct:    65 KAEEDEE 71

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

WB|WBGene00010484 dph-3 [Caenorhabditis elegans (taxid:6239)]

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 42/79 (53%), Positives = 57/79 (72%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED E++EE   Y YPCPCGD F+I ++ L +GE++A+CPSCSL I VIY+ EDF
Sbjct:     5 HDEVEIEDFEFDEEKDVYHYPCPCGDRFEIPREMLEMGEDVAQCPSCSLLIRVIYDPEDF 64

Query:    63 LDNKSKEKLEP-SKQQPVA 80
             +      KLE  S  +P+A
Sbjct:    65 V------KLETISTSKPIA 77

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

ZFIN|ZDB-GENE-050522-545 zgc:112231 "zgc:112231" [Danio rerio (taxid:7955)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 36/61 (59%), Positives = 48/61 (78%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED E++EE + Y +PCPCGD F ITK++L  GEE+A CPSCSL + VIY+ E F
Sbjct:     5 HDEVEIEDFEYDEETETYYFPCPCGDRFAITKEDLENGEEVATCPSCSLIVKVIYDKEQF 64

Query:    63 L 63
             +
Sbjct:    65 M 65

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|E1BRJ8 DPH3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 35/61 (57%), Positives = 49/61 (80%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED E++EE + Y+YPCPCGD F IT+++L  GE++A CPSCSL + VIY+ E F
Sbjct:     5 HDEVEIEDFEYDEETETYSYPCPCGDRFLITREDLENGEDVATCPSCSLILRVIYDQEQF 64

Query:    63 L 63
             +
Sbjct:    65 M 65

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0050709 "negative regulation of protein secretion" evidence=IEA

GO:0051099 "positive regulation of binding" evidence=IEA

SGD|S000007587 KTI11 "Zn-ribbon protein required for synthesis of diphthamide on eEF2" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 38/81 (46%), Positives = 55/81 (67%)

Query:     2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
             +YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED
Sbjct:     3 TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKED 62

Query:    62 FLDNKSKEKLEPSKQQPVAVA 82
               +   +  + P   +P+A A
Sbjct:    63 LAEYYEEAGIHPP--EPIAAA 81

GO:0008270 "zinc ion binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA;IDA

GO:0009055 "electron carrier activity" evidence=IDA

GO:0005506 "iron ion binding" evidence=IDA

GO:0005634 "nucleus" evidence=IEA;IDA

GO:0002098 "tRNA wobble uridine modification" evidence=IMP

GO:0046872 "metal ion binding" evidence=IEA

GO:0017183 "peptidyl-diphthamide biosynthetic process from peptidyl-histidine" evidence=IMP

RGD|1590566 Dph3 "DPH3, KTI11 homolog (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 34/61 (55%), Positives = 48/61 (78%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct:     5 HDEVEIEDFQYDEDTETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query:    63 L 63
             +
Sbjct:    65 M 65

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0050709 "negative regulation of protein secretion" evidence=IEA;ISO

GO:0051099 "positive regulation of binding" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|Q6VUC1 DPH3 "DPH3 homolog" [Cricetulus griseus (taxid:10029)]

 Score = 205 (77.2 bits), Expect = 1.4e-16, P = 1.4e-16
 Identities = 34/61 (55%), Positives = 48/61 (78%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct:     5 HDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query:    63 L 63
             +
Sbjct:    65 M 65

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0017183 "peptidyl-diphthamide biosynthetic process from peptidyl-histidine" evidence=IDA

GO:0050709 "negative regulation of protein secretion" evidence=ISS

GO:0051099 "positive regulation of binding" evidence=ISS

UNIPROTKB|Q96FX2 DPH3 "DPH3 homolog" [Homo sapiens (taxid:9606)]

 Score = 204 (76.9 bits), Expect = 1.8e-16, P = 1.8e-16
 Identities = 34/61 (55%), Positives = 48/61 (78%)

Query:     3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
             +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct:     5 HDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query:    63 L 63
             +
Sbjct:    65 V 65

GO:0046872 "metal ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0051099 "positive regulation of binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0017183 "peptidyl-diphthamide biosynthetic process from peptidyl-histidine" evidence=ISS

GO:0050709 "negative regulation of protein secretion" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

---

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)
Q6C0G3	DPH3_YARLI	No assigned EC number	0.5833	0.7317	0.8695	yes	no
Q6CMG4	DPH3_KLULA	No assigned EC number	0.5125	0.9756	0.9756	yes	no
Q8STR6	DPH3_ENCCU	No assigned EC number	0.5084	0.7195	0.6344	yes	no
Q96FX2	DPH3_HUMAN	No assigned EC number	0.5573	0.7439	0.7439	yes	no
Q3E840	DPH3_YEAST	No assigned EC number	0.4691	0.9634	0.9634	yes	no
Q9UT33	DPH3_SCHPO	No assigned EC number	0.4366	0.8658	0.8987	yes	no
Q21102	DPH3_CAEEL	No assigned EC number	0.5238	0.6829	0.7	yes	no
Q5R7N8	DPH3_PONAB	No assigned EC number	0.5573	0.7439	0.7439	yes	no
Q8K0W9	DPH3_MOUSE	No assigned EC number	0.5573	0.7439	0.7439	yes	no
Q74Z32	DPH3_ASHGO	No assigned EC number	0.5211	0.8658	0.8658	yes	no
Q1LZC9	DPH3_BOVIN	No assigned EC number	0.5666	0.7317	0.7317	yes	no
Q6VUC1	DPH3_CRIGR	No assigned EC number	0.5573	0.7439	0.7439	yes	no
Q6FXS6	DPH3_CANGA	No assigned EC number	0.5737	0.7439	0.7439	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

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	82
pfam05207	55	pfam05207, zf-CSL, CSL zinc finger	1e-22
COG5216	67	COG5216, COG5216, Uncharacterized conserved protei	8e-22

>gnl|CDD|191232 pfam05207, zf-CSL, CSL zinc finger

 Score = 81.5 bits (202), Expect = 1e-22
 Identities = 30/55 (54%), Positives = 44/55 (80%)

Query: 4  DDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYN 58
          D+VE+ED E++EE  ++ YPC CGD F+IT+++L  GE + +CPSCSL+I VIY+
Sbjct: 1  DEVELEDFEFDEEEGSFYYPCRCGDEFEITEEDLEEGEVVVQCPSCSLWIKVIYD 55

This is a zinc binding motif which contains four cysteine residues which chelate zinc. This domain is often found associated with a pfam00226 domain. This domain is named after the conserved motif of the final cysteine. Length = 55

>gnl|CDD|227541 COG5216, COG5216, Uncharacterized conserved protein [Function unknown]

 Score = 79.9 bits (197), Expect = 8e-22
 Identities = 33/62 (53%), Positives = 48/62 (77%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIED  ++ E + +TYPCPCGD F+I+ ++LR GE +ARCPSCSL + V+Y+ ED 
Sbjct: 4  YDEIEIEDFTFSREEKTFTYPCPCGDRFEISLEDLRNGEVVARCPSCSLIVCVVYDAEDL 63

Query: 63 LD 64
           +
Sbjct: 64 EE 65

Length = 67

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	82
KOG2923	67	consensus Uncharacterized conserved protein [Funct	99.95
PF05207	55	zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc	99.94
COG5216	67	Uncharacterized conserved protein [Function unknow	99.91
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	96.94
PF13719	37	zinc_ribbon_5: zinc-ribbon domain	95.87
smart00834	41	CxxC_CXXC_SSSS Putative regulatory protein. CxxC_C	95.79
PF05180	66	zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc	95.64
PF09723	42	Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR0134	95.03
PF13717	36	zinc_ribbon_4: zinc-ribbon domain	95.03
COG1996	49	RPC10 DNA-directed RNA polymerase, subunit RPC10 (	94.37
TIGR01206	54	lysW lysine biosynthesis protein LysW. This very s	94.14
KOG3277	165	consensus Uncharacterized conserved protein [Funct	93.67
TIGR02605	52	CxxC_CxxC_SSSS putative regulatory protein, FmdB f	92.76
PF14354	61	Lar_restr_allev: Restriction alleviation protein L	85.89
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	84.69
PRK00464	154	nrdR transcriptional regulator NrdR; Validated	84.25
smart00659	44	RPOLCX RNA polymerase subunit CX. present in RNA p	82.77
PF12662	24	cEGF: Complement Clr-like EGF-like	81.58
PF05280	175	FlhC: Flagellar transcriptional activator (FlhC);	80.46

>KOG2923 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.95  E-value=1.5e-28  Score=152.48  Aligned_cols=65  Identities=63%  Similarity=1.162  Sum_probs=62.3

Q ss_pred             CccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccc
Q 034819            1 MSYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDN   65 (82)
Q Consensus         1 ~~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~   65 (82)
                      ++||+|.|+||+|+++++.|+|||||||.|+|++++|+.|+.+++|+||||.|+|+|+.+++++.
T Consensus         2 ~~ydeVeiedfe~~~e~~~y~yPCpCGDrf~It~edL~~ge~Va~CpsCSL~I~ViYd~edf~~~   66 (67)
T KOG2923|consen    2 SFYDEVEIEDFEFDEENQTYYYPCPCGDRFQITLEDLENGEDVARCPSCSLIIRVIYDKEDFAEY   66 (67)
T ss_pred             cccceEEeecceeccCCCeEEcCCCCCCeeeecHHHHhCCCeeecCCCceEEEEEEeCHHHhhcc
Confidence            57999999999999999999999999999999999999999999999999999999999988764

>PF05207 zf-CSL: CSL zinc finger; InterPro: IPR007872 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.94  E-value=3.9e-27  Score=141.15  Aligned_cols=55  Identities=49%  Similarity=1.058  Sum_probs=49.2

Q ss_pred             ceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEee
Q 034819            4 DDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYN   58 (82)
Q Consensus         4 d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~   58 (82)
                      |+|+|+||+|+++++.|+|+|||||.|.|++++|++++.+++|++|||||||+|+
T Consensus         1 dev~l~d~~~~~~~~~~~y~CRCG~~f~i~e~~l~~~~~iv~C~sCSL~I~V~~~   55 (55)
T PF05207_consen    1 DEVSLDDMEFDEEEGVYSYPCRCGGEFEISEEDLEEGEVIVQCDSCSLWIRVNYD   55 (55)
T ss_dssp             -EEETTTSEEETTTTEEEEEETTSSEEEEEHHHHHCT--EEEETTTTEEEEEE--
T ss_pred             CeEEhhhceecCCCCEEEEcCCCCCEEEEcchhccCcCEEEECCCCccEEEEEeC
Confidence            6899999999999999999999999999999999999999999999999999985

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a probable zinc binding motif that contains four cysteines and may chelate zinc, known as the DPH-type after the diphthamide (DPH) biosynthesis protein in which it was first characterised, including the proteins DPH3 and DPH4. This domain is also found associated with N-terminal domain of heat shock protein DnaJ IPR001623 from INTERPRO domain. Diphthamide is a unique post-translationally modified histidine residue found only in translation elongation factor 2 (eEF-2). It is conserved from archaea to humans and serves as the target for diphteria toxin and Pseudomonas exotoxin A. These two toxins catalyse the transfer of ADP-ribose to diphtamide on eEF-2, thus inactivating eEF-2, halting cellular protein synthesis, and causing cell death []. The biosynthesis of diphtamide is dependent on at least five proteins, DPH1 to -5, and a still unidentified amidating enzyme. DPH3 and DPH4 share a conserved region, which encode a putative zinc finger, the DPH-type or CSL-type (after the conserved motif of the final cysteine) zinc finger [, ]. The function of this motif is unknown. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2L6L_A 1WGE_A 2JR7_A 1YOP_A 1YWS_A.

>COG5216 Uncharacterized conserved protein [Function unknown]

Probab=99.91  E-value=1e-24  Score=134.44  Aligned_cols=64  Identities=52%  Similarity=1.096  Sum_probs=61.9

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccc
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDN   65 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~   65 (82)
                      +||+|.++||+|+.+++.|+||||||+.|+|+.++|.+|+.++.|+||||.|.|+|+.+++.+.
T Consensus         3 fYDEieiedftf~~e~~~ftyPCPCGDRFeIsLeDl~~GE~VArCPSCSLiv~vvyd~edl~ey   66 (67)
T COG5216           3 FYDEIEIEDFTFSREEKTFTYPCPCGDRFEISLEDLRNGEVVARCPSCSLIVCVVYDAEDLEEY   66 (67)
T ss_pred             ccceeEeeeeEEcCCCceEEecCCCCCEeEEEHHHhhCCceEEEcCCceEEEEEEecHHHHhhh
Confidence            7999999999999999999999999999999999999999999999999999999999998764

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=96.94  E-value=0.0019  Score=34.96  Aligned_cols=35  Identities=23%  Similarity=0.568  Sum_probs=29.9

Q ss_pred             EEeCC-CCCceeeehhhhhcCceEEEcCCCcceEEE
Q 034819           21 TYPCP-CGDLFQITKDELRIGEEIARCPSCSLYITV   55 (82)
Q Consensus        21 ~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I~V   55 (82)
                      ...|+ ||..|.|..+.+......+.|+.|...+.+
T Consensus         2 ~~~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~~   37 (38)
T TIGR02098         2 RIQCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWYA   37 (38)
T ss_pred             EEECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEEe
Confidence            35796 999999999999765568999999998876

This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.

>PF13719 zinc_ribbon_5: zinc-ribbon domain

Probab=95.87  E-value=0.012  Score=32.22  Aligned_cols=33  Identities=33%  Similarity=0.858  Sum_probs=28.7

Q ss_pred             EeCC-CCCceeeehhhhhcCceEEEcCCCcceEE
Q 034819           22 YPCP-CGDLFQITKDELRIGEEIARCPSCSLYIT   54 (82)
Q Consensus        22 y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I~   54 (82)
                      -.|| |+-.|.|+.+.|..+...+.|+.|.-...
T Consensus         3 i~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~   36 (37)
T PF13719_consen    3 ITCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR   36 (37)
T ss_pred             EECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence            3697 99999999999988778999999986654

>smart00834 CxxC_CXXC_SSSS Putative regulatory protein

Probab=95.79  E-value=0.0064  Score=32.82  Aligned_cols=33  Identities=30%  Similarity=0.845  Sum_probs=25.2

Q ss_pred             eEEEeCC-CCCceeeehhhhhcCceEEEcCCCcceE
Q 034819           19 AYTYPCP-CGDLFQITKDELRIGEEIARCPSCSLYI   53 (82)
Q Consensus        19 ~y~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I   53 (82)
                      .|.|.|+ ||..|.+....-+  ...+.|+.|.--+
T Consensus         3 ~Y~y~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~~~   36 (41)
T smart00834        3 IYEYRCEDCGHTFEVLQKISD--DPLATCPECGGDV   36 (41)
T ss_pred             CEEEEcCCCCCEEEEEEecCC--CCCCCCCCCCCcc
Confidence            5899998 9999987765332  4677899998743

CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=95.64  E-value=0.019  Score=35.72  Aligned_cols=37  Identities=27%  Similarity=0.631  Sum_probs=28.2

Q ss_pred             EEEeCC-CC--CceeeehhhhhcCceEEEcCCCcceEEEE
Q 034819           20 YTYPCP-CG--DLFQITKDELRIGEEIARCPSCSLYITVI   56 (82)
Q Consensus        20 y~y~CR-CG--g~f~i~~~~Le~g~~iv~C~sCSL~I~V~   56 (82)
                      ..|.|. ||  ..-.|++...+.|.++++|++|.-+=.|-
T Consensus         3 l~FTC~~C~~Rs~~~~sk~aY~~GvViv~C~gC~~~HlIa   42 (66)
T PF05180_consen    3 LTFTCNKCGTRSAKMFSKQAYHKGVVIVQCPGCKNRHLIA   42 (66)
T ss_dssp             EEEEETTTTEEEEEEEEHHHHHTSEEEEE-TTS--EEES-
T ss_pred             EEEEcCCCCCccceeeCHHHHhCCeEEEECCCCcceeeeh
Confidence            578896 99  56789999999999999999998775553

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.

>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria

Probab=95.03  E-value=0.012  Score=32.88  Aligned_cols=31  Identities=29%  Similarity=0.857  Sum_probs=24.5

Q ss_pred             eEEEeCC-CCCceeeehhhhhcCceEEEcCCCcc
Q 034819           19 AYTYPCP-CGDLFQITKDELRIGEEIARCPSCSL   51 (82)
Q Consensus        19 ~y~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL   51 (82)
                      .|.|.|+ ||..|++...--+  ...+.|+.|.-
T Consensus         3 ~Yey~C~~Cg~~fe~~~~~~~--~~~~~CP~Cg~   34 (42)
T PF09723_consen    3 IYEYRCEECGHEFEVLQSISE--DDPVPCPECGS   34 (42)
T ss_pred             CEEEEeCCCCCEEEEEEEcCC--CCCCcCCCCCC
Confidence            5899998 9999998764333  57789999976

The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.

>PF13717 zinc_ribbon_4: zinc-ribbon domain

Probab=95.03  E-value=0.029  Score=30.64  Aligned_cols=32  Identities=22%  Similarity=0.669  Sum_probs=27.5

Q ss_pred             EeCC-CCCceeeehhhhhcCceEEEcCCCcceE
Q 034819           22 YPCP-CGDLFQITKDELRIGEEIARCPSCSLYI   53 (82)
Q Consensus        22 y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I   53 (82)
                      -.|+ |+-.|.|.++.+-..-..++|+.|+-..
T Consensus         3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f   35 (36)
T PF13717_consen    3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF   35 (36)
T ss_pred             EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence            3686 9999999999998877899999998643

>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]

Probab=94.37  E-value=0.069  Score=31.54  Aligned_cols=34  Identities=35%  Similarity=0.639  Sum_probs=25.5

Q ss_pred             ceEEEeC-CCCCceeeehhhhhcCceEEEcCCCcceEEEE
Q 034819           18 QAYTYPC-PCGDLFQITKDELRIGEEIARCPSCSLYITVI   56 (82)
Q Consensus        18 ~~y~y~C-RCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~   56 (82)
                      ....|-| |||..|     ++......+.|+-|+..|-+.
T Consensus         3 ~~~~Y~C~~Cg~~~-----~~~~~~~~irCp~Cg~rIl~K   37 (49)
T COG1996           3 AMMEYKCARCGREV-----ELDQETRGIRCPYCGSRILVK   37 (49)
T ss_pred             ceEEEEhhhcCCee-----ehhhccCceeCCCCCcEEEEe
Confidence            4578999 799988     222234668999999988774

>TIGR01206 lysW lysine biosynthesis protein LysW

Probab=94.14  E-value=0.11  Score=30.99  Aligned_cols=32  Identities=34%  Similarity=0.944  Sum_probs=25.7

Q ss_pred             EeCC-CCCceeeehhhhhcCceEEEcCCCcceEEEE
Q 034819           22 YPCP-CGDLFQITKDELRIGEEIARCPSCSLYITVI   56 (82)
Q Consensus        22 y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~   56 (82)
                      ..|+ ||..+.+....+  | .++.|+.|..-+.|.
T Consensus         3 ~~CP~CG~~iev~~~~~--G-eiV~Cp~CGaeleVv   35 (54)
T TIGR01206         3 FECPDCGAEIELENPEL--G-ELVICDECGAELEVV   35 (54)
T ss_pred             cCCCCCCCEEecCCCcc--C-CEEeCCCCCCEEEEE
Confidence            4697 999998865544  4 477999999999995

This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.

>KOG3277 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.67  E-value=0.087  Score=37.95  Aligned_cols=45  Identities=22%  Similarity=0.487  Sum_probs=36.0

Q ss_pred             ceeccCCceEEEeCC-CC--CceeeehhhhhcCceEEEcCCCcceEEE
Q 034819           11 MEWNEELQAYTYPCP-CG--DLFQITKDELRIGEEIARCPSCSLYITV   55 (82)
Q Consensus        11 m~~~e~~~~y~y~CR-CG--g~f~i~~~~Le~g~~iv~C~sCSL~I~V   55 (82)
                      |....-.....|.|- ||  ..-.|++...+.|.++|+|++|...=.|
T Consensus        69 ~~~~kp~m~l~yTCkvCntRs~ktisk~AY~~GvVivqC~gC~~~Hli  116 (165)
T KOG3277|consen   69 FKVPKPRMQLAYTCKVCNTRSTKTISKQAYEKGVVIVQCPGCKNHHLI  116 (165)
T ss_pred             ccCCCcceEEEEEeeccCCccccccChhhhhCceEEEECCCCccceee
Confidence            333444467899997 99  5678999999999999999999976555

>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family

Probab=92.76  E-value=0.12  Score=29.31  Aligned_cols=34  Identities=29%  Similarity=0.857  Sum_probs=24.8

Q ss_pred             eEEEeCC-CCCceeeehhhhhcCceEEEcCCCcc-eEE
Q 034819           19 AYTYPCP-CGDLFQITKDELRIGEEIARCPSCSL-YIT   54 (82)
Q Consensus        19 ~y~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL-~I~   54 (82)
                      .|.|.|+ ||..|++... +.+ ...+.|+.|.- .++
T Consensus         3 ~Yey~C~~Cg~~fe~~~~-~~~-~~~~~CP~Cg~~~~~   38 (52)
T TIGR02605         3 IYEYRCTACGHRFEVLQK-MSD-DPLATCPECGGEKLR   38 (52)
T ss_pred             CEEEEeCCCCCEeEEEEe-cCC-CCCCCCCCCCCCcee
Confidence            5899998 9999998743 222 35678999986 553

This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.

>PF14354 Lar_restr_allev: Restriction alleviation protein Lar

Probab=85.89  E-value=0.69  Score=26.82  Aligned_cols=30  Identities=27%  Similarity=0.736  Sum_probs=18.7

Q ss_pred             EeCC-CCCceeeehhhhhc--Cc-eEEEcCCCcc
Q 034819           22 YPCP-CGDLFQITKDELRI--GE-EIARCPSCSL   51 (82)
Q Consensus        22 y~CR-CGg~f~i~~~~Le~--g~-~iv~C~sCSL   51 (82)
                      +||| ||..-.........  +. ..|.|..|-.
T Consensus         4 kPCPFCG~~~~~~~~~~~~~~~~~~~V~C~~Cga   37 (61)
T PF14354_consen    4 KPCPFCGSADVLIRQDEGFDYGMYYYVECTDCGA   37 (61)
T ss_pred             cCCCCCCCcceEeecccCCCCCCEEEEEcCCCCC
Confidence            6899 98444433332221  21 7889999977

>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional

Probab=84.69  E-value=0.88  Score=25.42  Aligned_cols=29  Identities=31%  Similarity=0.748  Sum_probs=21.5

Q ss_pred             EEeCC-CCCceeeehhhhhcCceEEEcCCCcceEE
Q 034819           21 TYPCP-CGDLFQITKDELRIGEEIARCPSCSLYIT   54 (82)
Q Consensus        21 ~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I~   54 (82)
                      .|.|+ ||..|.+.+...     .+.|+.|.-.+-
T Consensus         3 ~y~C~~CG~~~~~~~~~~-----~~~Cp~CG~~~~   32 (46)
T PRK00398          3 EYKCARCGREVELDEYGT-----GVRCPYCGYRIL   32 (46)
T ss_pred             EEECCCCCCEEEECCCCC-----ceECCCCCCeEE
Confidence            58896 999998864432     579999986554

>PRK00464 nrdR transcriptional regulator NrdR; Validated

Probab=84.25  E-value=0.72  Score=32.56  Aligned_cols=32  Identities=28%  Similarity=0.599  Sum_probs=21.0

Q ss_pred             EeCC-CCCce--eeehhhhhcCceE---EEcCCCcceE
Q 034819           22 YPCP-CGDLF--QITKDELRIGEEI---ARCPSCSLYI   53 (82)
Q Consensus        22 y~CR-CGg~f--~i~~~~Le~g~~i---v~C~sCSL~I   53 (82)
                      +.|| ||+.+  .++...+.+|+.+   .+|+.|+-.-
T Consensus         1 m~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f   38 (154)
T PRK00464          1 MRCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRF   38 (154)
T ss_pred             CcCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcc
Confidence            3588 88544  5666666666433   6899888643

>smart00659 RPOLCX RNA polymerase subunit CX

Probab=82.77  E-value=2.8  Score=23.76  Aligned_cols=29  Identities=31%  Similarity=0.769  Sum_probs=22.3

Q ss_pred             EEeCC-CCCceeeehhhhhcCceEEEcCCCcceEEE
Q 034819           21 TYPCP-CGDLFQITKDELRIGEEIARCPSCSLYITV   55 (82)
Q Consensus        21 ~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~I~V   55 (82)
                      .|-|. ||..|.+.      ....+.|+.|.-.|-.
T Consensus         2 ~Y~C~~Cg~~~~~~------~~~~irC~~CG~rIly   31 (44)
T smart00659        2 IYICGECGRENEIK------SKDVVRCRECGYRILY   31 (44)
T ss_pred             EEECCCCCCEeecC------CCCceECCCCCceEEE
Confidence            58895 99998876      2356899999987653

present in RNA polymerase I, II and III

>PF12662 cEGF: Complement Clr-like EGF-like

Probab=81.58  E-value=0.48  Score=24.02  Aligned_cols=15  Identities=33%  Similarity=0.939  Sum_probs=12.7

Q ss_pred             EEeCCCCCceeeehh
Q 034819           21 TYPCPCGDLFQITKD   35 (82)
Q Consensus        21 ~y~CRCGg~f~i~~~   35 (82)
                      +|.|.|..+|.++.+
T Consensus         1 sy~C~C~~Gy~l~~d   15 (24)
T PF12662_consen    1 SYTCSCPPGYQLSPD   15 (24)
T ss_pred             CEEeeCCCCCcCCCC
Confidence            588999999998764

>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins

Probab=80.46  E-value=0.83  Score=32.78  Aligned_cols=33  Identities=27%  Similarity=0.473  Sum_probs=15.2

Q ss_pred             CceEEEeCC-CCCceeeehhhhhcCceEEEcCCCcce
Q 034819           17 LQAYTYPCP-CGDLFQITKDELRIGEEIARCPSCSLY   52 (82)
Q Consensus        17 ~~~y~y~CR-CGg~f~i~~~~Le~g~~iv~C~sCSL~   52 (82)
                      +..-..+|+ ||+.|+....++..   -+.|+-|++-
T Consensus       130 g~l~l~~C~~C~~~fv~~~~~~~~---~~~Cp~C~~p  163 (175)
T PF05280_consen  130 GMLQLAPCRRCGGHFVTHAHDPRH---SFVCPFCQPP  163 (175)
T ss_dssp             TSEEEEE-TTT--EEEEESS--SS-------TT----
T ss_pred             CCccccCCCCCCCCeECcCCCCCc---CcCCCCCCCc
Confidence            345677897 99999998776543   3689999863

FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	82
1yop_A	83	The Solution Structure Of Kti11p Length = 83		2e-16
1yws_A	82	Solution Structure Of Ybl071w-A From Saccharomyces		3e-16
2jr7_A	89	Solution Structure Of Human Desr1 Length = 89		5e-16
1wge_A	83	Solution Structure Of The Mouse Desr1 Length = 83		6e-16
2l6l_A	155	Solution Structure Of Human J-Protein Co-Chaperone,		6e-04

>pdb|1YOP|A Chain A, The Solution Structure Of Kti11p Length = 83

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 38/81 (46%), Positives = 55/81 (67%), Gaps = 2/81 (2%)
Query: 2  SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
          +YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED
Sbjct: 4  TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKED 63
Query: 62 FLDNKSKEKLEPSKQQPVAVA 82
            +   +  + P   +P+A A
Sbjct: 64 LAEYYEEAGIHPP--EPIAAA 82

>pdb|1YWS|A Chain A, Solution Structure Of Ybl071w-A From Saccharomyces Cerevisiae Length = 82

Iteration: 1
 Score = 80.1 bits (196), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/81 (46%), Positives = 55/81 (67%), Gaps = 2/81 (2%)
Query: 2  SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
          +YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED
Sbjct: 3  TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKED 62
Query: 62 FLDNKSKEKLEPSKQQPVAVA 82
            +   +  + P   +P+A A
Sbjct: 63 LAEYYEEAGIHPP--EPIAAA 81

>pdb|2JR7|A Chain A, Solution Structure Of Human Desr1 Length = 89

Iteration: 1
 Score = 79.3 bits (194), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 50/65 (76%)
Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 5  HDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64
Query: 63 LDNKS 67
          +  ++
Sbjct: 65 VSGET 69

>pdb|1WGE|A Chain A, Solution Structure Of The Mouse Desr1 Length = 83

Iteration: 1
 Score = 79.0 bits (193), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 34/61 (55%), Positives = 48/61 (78%)
Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 12 HDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQF 71
Query: 63 L 63
          +
Sbjct: 72 M 72

>pdb|2L6L|A Chain A, Solution Structure Of Human J-Protein Co-Chaperone, Dph4 Length = 155

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 6   VEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIA--RCPSCSLYITVIY 57
           V +E+M WNE   ++   C CG  + ++KDE    EE++   C +CSL I +++
Sbjct: 97  VYLEEMSWNEGDHSFYLSCRCGGKYSVSKDE---AEEVSLISCDTCSLIIELLH 147
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	82
1yop_A	83	KTI11P; zinc finger, metal binding protein; NMR {S	1e-30
2jr7_A	89	DPH3 homolog; DESR1, CSL zinc finger, metal bindin	2e-30
1wge_A	83	Hypothetical protein 2610018L09RIK; diphthamide,CS	6e-29
2l6l_A	155	DNAJ homolog subfamily C member 24; DPH4, Zn-CSL,	1e-11

>1yop_A KTI11P; zinc finger, metal binding protein; NMR {Saccharomyces cerevisiae} SCOP: g.41.17.1 PDB: 1yws_A Length = 83

 Score =  102 bits (255), Expect = 1e-30
 Identities = 38/80 (47%), Positives = 54/80 (67%), Gaps = 2/80 (2%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED 
Sbjct: 5  YDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKEDL 64

Query: 63 LDNKSKEKLEPSKQQPVAVA 82
           +   +  + P   +P+A A
Sbjct: 65 AEYYEEAGIHPP--EPIAAA 82

>2jr7_A DPH3 homolog; DESR1, CSL zinc finger, metal binding protein; NMR {Homo sapiens} Length = 89

 Score =  101 bits (253), Expect = 2e-30
 Identities = 35/74 (47%), Positives = 53/74 (71%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 5  HDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query: 63 LDNKSKEKLEPSKQ 76
          +  ++      +K+
Sbjct: 65 VSGETVPAPSANKE 78

>1wge_A Hypothetical protein 2610018L09RIK; diphthamide,CSL zinc finger, ADP-ribosylating toxin, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.17.1 Length = 83

 Score = 97.6 bits (243), Expect = 6e-29
 Identities = 34/67 (50%), Positives = 50/67 (74%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 12 HDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQF 71

Query: 63 LDNKSKE 69
          +  ++  
Sbjct: 72 MCGETVS 78

>2l6l_A DNAJ homolog subfamily C member 24; DPH4, Zn-CSL, J-domain, chaperone; NMR {Homo sapiens} Length = 155

 Score = 55.6 bits (134), Expect = 1e-11
 Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%)

Query: 4   DDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
             V +E+M WNE   ++   C CG  + ++KDE      +  C +CSL I +++    
Sbjct: 95  AQVYLEEMSWNEGDHSFYLSCRCGGKYSVSKDEAE-EVSLISCDTCSLIIELLHYNHH 151

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	82
1yop_A	83	KTI11P; zinc finger, metal binding protein; NMR {S	99.97
2jr7_A	89	DPH3 homolog; DESR1, CSL zinc finger, metal bindin	99.95
1wge_A	83	Hypothetical protein 2610018L09RIK; diphthamide,CS	99.94
2l6l_A	155	DNAJ homolog subfamily C member 24; DPH4, Zn-CSL,	99.7
2e2z_A	100	TIM15; protein import, zinc finger, protein transp	95.27
1wee_A	72	PHD finger family protein; structural genomics, PH	87.35
4ayb_P	48	DNA-directed RNA polymerase; transferase, multi-su	80.91

>1yop_A KTI11P; zinc finger, metal binding protein; NMR {Saccharomyces cerevisiae} SCOP: g.41.17.1 PDB: 1yws_A

Probab=99.97  E-value=2.6e-32  Score=174.91  Aligned_cols=80  Identities=45%  Similarity=0.893  Sum_probs=74.1

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccccccccCCCCCCCceee
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSKEKLEPSKQQPVAV   81 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~~~~~~~~~~~~~~~~~   81 (82)
                      +|++|+|+||+|+++++.|+|+|||||.|.|++++|++|+.+++|+||||||||+|+.+++++.....+.++++|++|+|
T Consensus         4 ~~dev~leDm~~de~~~~y~ypCrCGd~F~it~edL~~ge~iv~C~sCSL~I~V~~~~~d~~~~~~~~~~~~~~~~~~~~   83 (83)
T 1yop_A            4 TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKEDLAEYYEEAGIHPPEPIAAAA   83 (83)
T ss_dssp             CSBCCBGGGSEEETTTTEEEEEETTTEEEEEEHHHHHTTCCEEECSSSCCEEECBCCSSHHHHHHHHSCCCCSSCCCCCC
T ss_pred             eeeEEEHHHcEEcCCCCEEEEeCCCCCeEEECHHHHhCCCEEEECCCCccEEEEEEccccccccccccccCccccccccC
Confidence            58999999999999999999999999999999999999999999999999999999999998877777777778777765

>2jr7_A DPH3 homolog; DESR1, CSL zinc finger, metal binding protein; NMR {Homo sapiens}

Probab=99.95  E-value=2.5e-28  Score=158.26  Aligned_cols=66  Identities=52%  Similarity=1.077  Sum_probs=62.4

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccccc
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKS   67 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~~~   67 (82)
                      +|++|+|+||+|+++++.|+|+|||||.|.|++++|++|+.+++|+||||||||+|+.+++.++..
T Consensus         4 vydeV~LeDm~~de~~~~y~ypCrCGd~F~IteedLe~ge~iv~C~sCSL~IkV~y~~~~~~~~~~   69 (89)
T 2jr7_A            4 FHDEVEIEDFQYDEDSETYFYPCPCGDNFSITKEDLENGEDVATCPSCSLIIKVIYDKDQFVSGET   69 (89)
T ss_dssp             CSCEEETTTSEEETTTTEEEEECTTSSEEEEEHHHHHHTCCEEECTTTCCEEEEECCHHHHCCSSC
T ss_pred             ceeEEEHHHcEEcCCCCEEEEcCCCCCEEEECHHHHhCCCEEEECCCCccEEEEEEcccccccccc
Confidence            699999999999999999999999999999999999999999999999999999999999876543

>1wge_A Hypothetical protein 2610018L09RIK; diphthamide,CSL zinc finger, ADP-ribosylating toxin, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.17.1

Probab=99.94  E-value=5.9e-28  Score=154.68  Aligned_cols=66  Identities=52%  Similarity=1.061  Sum_probs=62.2

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccccc
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKS   67 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~~~   67 (82)
                      +|++|+|+||+|+++++.|+|+|||||.|.|++++|++|+.+++|++|||||||+|+.+++.+...
T Consensus        11 ~~dev~LeDm~~de~~~~y~y~CrCGd~F~it~edL~~ge~iv~C~sCSL~I~V~~~~~~~~~~~~   76 (83)
T 1wge_A           11 FHDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQFMCGET   76 (83)
T ss_dssp             CSCEEEGGGSCCBTTTTEEEECCSSSSCEEEEHHHHHTTCCEEECTTTCCEEEEECCHHHHHTTTC
T ss_pred             eeEEEEHHHceEccCCCEEEEeCCCCCEEEECHHHHhCCCEEEECCCCceEEEEEeccccccccce
Confidence            689999999999999999999999999999999999999999999999999999999999876543

>2l6l_A DNAJ homolog subfamily C member 24; DPH4, Zn-CSL, J-domain, chaperone; NMR {Homo sapiens}

Probab=99.70  E-value=1.8e-17  Score=112.73  Aligned_cols=56  Identities=30%  Similarity=0.652  Sum_probs=52.1

Q ss_pred             cceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeec
Q 034819            3 YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNI   59 (82)
Q Consensus         3 ~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~   59 (82)
                      ..++.+++|+|+++...|+++|||||.|.|++++|++| .+++|++|||||+|.|..
T Consensus        94 ~~~~~~~~m~~~e~~~~f~~~CrCG~~f~i~~~~l~~~-~~v~C~sCSl~~~v~~~~  149 (155)
T 2l6l_A           94 DAQVYLEEMSWNEGDHSFYLSCRCGGKYSVSKDEAEEV-SLISCDTCSLIIELLHYN  149 (155)
T ss_dssp             SEEEETTTSEEETTTTEEEEECSSSCEEEEETTHHHHC-CEEECSSSSCEEEEECCC
T ss_pred             cceeeHHHhccccCCcEEEEcCCCCCeEEecHHHhCCC-CEEECCCCceEEEEEEcc
Confidence            45788999999999999999999999999999999987 899999999999999864

>2e2z_A TIM15; protein import, zinc finger, protein transport, chaperone regulator; NMR {Saccharomyces cerevisiae}

Probab=95.27  E-value=0.018  Score=37.60  Aligned_cols=39  Identities=18%  Similarity=0.559  Sum_probs=33.7

Q ss_pred             CceEEEeCC-CC--CceeeehhhhhcCceEEEcCCCcceEEE
Q 034819           17 LQAYTYPCP-CG--DLFQITKDELRIGEEIARCPSCSLYITV   55 (82)
Q Consensus        17 ~~~y~y~CR-CG--g~f~i~~~~Le~g~~iv~C~sCSL~I~V   55 (82)
                      .....|.|. |+  ....|++...+.|.++++|++|.-+=.|
T Consensus         9 ~~~l~FTC~~C~tRs~k~iSk~aY~~GvViv~C~gC~n~HlI   50 (100)
T 2e2z_A            9 KMMIAFTCKKCNTRSSHTMSKQAYEKGTVLISCPHCKVRHLI   50 (100)
T ss_dssp             EEEEEEEETTTTEEEEEEEEHHHHHTSEEEEECTTTCCEEES
T ss_pred             cEEEEEEccCCCCcchhhcCHHHhhCCEEEEEcCCCccceEe
Confidence            356789995 99  5899999999999999999999987555

>1wee_A PHD finger family protein; structural genomics, PHD domain, riken structural genomics/proteomics initiative, RSGI, DNA binding protein; NMR {Arabidopsis thaliana} SCOP: g.50.1.2

Probab=87.35  E-value=0.51  Score=27.72  Aligned_cols=34  Identities=21%  Similarity=0.594  Sum_probs=24.5

Q ss_pred             cCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEE
Q 034819           15 EELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITV   55 (82)
Q Consensus        15 e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V   55 (82)
                      .++......|.||..+       ..|...++|+.|.-|.+.
T Consensus        10 ~~~~~~~~~C~C~~~~-------~~g~~mI~Cd~C~~W~H~   43 (72)
T 1wee_A           10 RGVDNWKVDCKCGTKD-------DDGERMLACDGCGVWHHT   43 (72)
T ss_dssp             CSSCSSEECCTTCCCS-------CCSSCEEECSSSCEEEET
T ss_pred             CCCCCcceEeeCCCcc-------CCCCcEEECCCCCCccCC
Confidence            3334566789999753       235678999999988775

>4ayb_P DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2pmz_P 2wb1_P 2y0s_P 3hkz_P 2waq_P 4b1o_P 4b1p_X

Probab=80.91  E-value=0.24  Score=28.37  Aligned_cols=31  Identities=32%  Similarity=0.715  Sum_probs=19.8

Q ss_pred             EEeC-CCCCceeeehhhhhcCceEEEcCCCcceEE
Q 034819           21 TYPC-PCGDLFQITKDELRIGEEIARCPSCSLYIT   54 (82)
Q Consensus        21 ~y~C-RCGg~f~i~~~~Le~g~~iv~C~sCSL~I~   54 (82)
                      .|.| |||..|.-+  +|+- -.-+.|+-|-..|-
T Consensus         3 iY~C~rCg~~fs~~--el~~-lP~IrCpyCGyrii   34 (48)
T 4ayb_P            3 VYRCGKCWKTFTDE--QLKV-LPGVRCPYCGYKII   34 (48)
T ss_dssp             --CCCCTTTTCCCC--CSCC-CSSSCCTTTCCSCE
T ss_pred             EEEeeccCCCccHH--HHhh-CCCcccCccCcEEE
Confidence            5789 899988744  4432 23478999987653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	82
d1ywsa1	82	g.41.17.1 (A:1-82) Diphthamide biosynthesis protei	1e-29
d1wgea1	70	g.41.17.1 (A:8-77) DelGEF-interacting protein 1, D	3e-28

>d1ywsa1 g.41.17.1 (A:1-82) Diphthamide biosynthesis protein 3, DPH3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 82

class: Small proteins
fold: Rubredoxin-like
superfamily: CSL zinc finger
family: CSL zinc finger
domain: Diphthamide biosynthesis protein 3, DPH3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 98.3 bits (245), Expect = 1e-29
 Identities = 38/81 (46%), Positives = 55/81 (67%), Gaps = 2/81 (2%)

Query: 2  SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIED 61
          +YD++EIEDM +  E Q +TYPCPCGD FQI  D++  GE++A CPSCSL I V+++ ED
Sbjct: 3  TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKED 62

Query: 62 FLDNKSKEKLEPSKQQPVAVA 82
            +   +  + P   +P+A A
Sbjct: 63 LAEYYEEAGIHPP--EPIAAA 81

>d1wgea1 g.41.17.1 (A:8-77) DelGEF-interacting protein 1, DelGIP1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 70

class: Small proteins
fold: Rubredoxin-like
superfamily: CSL zinc finger
family: CSL zinc finger
domain: DelGEF-interacting protein 1, DelGIP1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 94.4 bits (235), Expect = 3e-28
 Identities = 34/62 (54%), Positives = 48/62 (77%)

Query: 3  YDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDF 62
          +D+VEIED +++E+ + Y YPCPCGD F ITK++L  GE++A CPSCSL I VIY+ + F
Sbjct: 5  HDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQF 64

Query: 63 LD 64
          + 
Sbjct: 65 MC 66

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	82
d1ywsa1	82	Diphthamide biosynthesis protein 3, DPH3 {Baker's	100.0
d1wgea1	70	DelGEF-interacting protein 1, DelGIP1 {Mouse (Mus	99.96

>d1ywsa1 g.41.17.1 (A:1-82) Diphthamide biosynthesis protein 3, DPH3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: Rubredoxin-like
superfamily: CSL zinc finger
family: CSL zinc finger
domain: Diphthamide biosynthesis protein 3, DPH3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.5e-34  Score=181.06  Aligned_cols=80  Identities=45%  Similarity=0.893  Sum_probs=74.8

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeeccccccccccccCCCCCCCceee
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNKSKEKLEPSKQQPVAV   81 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~~~~~~~~~~~~~~~~~   81 (82)
                      +||+|+|+||+|+++++.|+|||||||.|.|++++|++|+.+++|+||||||||+|+.+++++..+.++.+++.|+.+||
T Consensus         3 ~ydev~LeDm~~ded~~~~~ypCrCGd~F~it~~dLe~ge~v~~C~sCSL~IrVif~~ed~~~~~~~~~~~~~~~va~~~   82 (82)
T d1ywsa1           3 TYDEIEIEDMTFEPENQMFTYPCPCGDRFQIYLDDMFEGEKVAVCPSCSLMIDVVFDKEDLAEYYEEAGIHPPEPIAAAA   82 (82)
T ss_dssp             CCCEEETTTSEEETTTTEEEECCSSSSCEEEEHHHHHTTCCEEEETTTTEEEEEECCHHHHHHHHHHHTCCCCCCCSCCC
T ss_pred             cccEEEecceEEeCCCCEEEeccccCCeEEEcHHHHhCCCeEEeCCCCceEEEEEechhHhhhhhhhhcCCCCcceeeeC
Confidence            79999999999999999999999999999999999999999999999999999999999999999999998777655543

>d1wgea1 g.41.17.1 (A:8-77) DelGEF-interacting protein 1, DelGIP1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: Rubredoxin-like
superfamily: CSL zinc finger
family: CSL zinc finger
domain: DelGEF-interacting protein 1, DelGIP1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=1.8e-30  Score=160.65  Aligned_cols=65  Identities=52%  Similarity=1.070  Sum_probs=62.0

Q ss_pred             ccceeecCCceeccCCceEEEeCCCCCceeeehhhhhcCceEEEcCCCcceEEEEeecccccccc
Q 034819            2 SYDDVEIEDMEWNEELQAYTYPCPCGDLFQITKDELRIGEEIARCPSCSLYITVIYNIEDFLDNK   66 (82)
Q Consensus         2 ~~d~v~LdDm~~~e~~~~y~y~CRCGg~f~i~~~~Le~g~~iv~C~sCSL~I~V~~~~~~~~e~~   66 (82)
                      +||+|+|+||+|+++++.|+|||||||+|.|++++|++|+.+++|+||||||||+|+.+++.++.
T Consensus         4 ~~dev~leD~~~dee~~~~~ypCpCGd~F~it~~dLe~ge~V~~C~sCSL~ikVif~~e~~~~~~   68 (70)
T d1wgea1           4 FHDEVEIEDFQYDEDSETYFYPCPCGDNFAITKEDLENGEDVATCPSCSLIIKVIYDKDQFMCGE   68 (70)
T ss_dssp             CSCEEEGGGSCCBTTTTEEEECCSSSSCEEEEHHHHHTTCCEEECTTTCCEEEEECCHHHHHTTT
T ss_pred             eEEEEEeeeeeEeCCCCEEEeCCCCCCeEEECHHHHhCCCeEEeCCCCceEEEEEEChHHhhccc
Confidence            69999999999999999999999999999999999999999999999999999999998887653