Psyllid ID: psy1181

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--
Protein Sequence
KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHcccEEEcccEEEEccccccccccEEEEEcccccEEEcccccccEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccEEEcccccccHHHHHHHHHccccEEccccEEEEccccccccccEEEEEccccccccccccccEEEccccccc
Coil and Loop (DISEMBL)
kfekddyrpvrfvdkekhvNTQFAIDLiaevppkpckervvwcdggsgptghpkvyinldkpgnhscgycglrffkedshhh
Flexible Loop (DISEMBL)
kfekddyrpvrfvdkekhvnTQFAidliaevppkpCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH
Low Complexity Region (SEG)
KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH
Disordered region (IsUnstruct)
*********VRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFF*******
Disordered Region (DISOPRED)
**E*DDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCG***********
Disordered Region (DISEMBL)
KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH
Disordered Region (DISPRO)
*FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKE*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH
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]
P52503	116	NADH dehydrogenase [ubiqu	yes	N/A	0.951	0.672	0.560	4e-20
Q4R5X8	124	NADH dehydrogenase [ubiqu	N/A	N/A	0.890	0.588	0.594	1e-19
Q0MQH5	124	NADH dehydrogenase [ubiqu	N/A	N/A	0.951	0.629	0.560	1e-19
Q0MQH7	124	NADH dehydrogenase [ubiqu	yes	N/A	0.951	0.629	0.560	2e-19
O75380	124	NADH dehydrogenase [ubiqu	yes	N/A	0.951	0.629	0.560	2e-19
P23934	124	NADH dehydrogenase [ubiqu	yes	N/A	0.951	0.629	0.555	5e-19
Q0MQH6	124	NADH dehydrogenase [ubiqu	N/A	N/A	0.890	0.588	0.581	7e-19
P52504	116	NADH dehydrogenase [ubiqu	no	N/A	0.902	0.637	0.558	9e-19
Q19724	140	Probable NADH dehydrogena	yes	N/A	0.926	0.542	0.545	6e-17
Q5AUI1	213	Lactobacillus shifted pro	yes	N/A	0.695	0.267	0.525	2e-10

>sp|P52503|NDUS6_MOUSE NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Mus musculus GN=Ndufs6 PE=1 SV=2

 Score = 96.7 bits (239), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 46/82 (56%), Positives = 57/82 (69%), Gaps = 4/82 (4%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           +++ DYR VRFVD++K VN  FAIDLIA+ P    + R++ CDGG G  GHPKVYINLDK
Sbjct: 38  YDEKDYRRVRFVDRQKEVNENFAIDLIAQQPVNEVEHRIIACDGGGGALGHPKVYINLDK 97

Query: 62  PG-NHSCGYCGLRFFKEDSHHH 82
                +CGYCGL+F     HHH
Sbjct: 98  ETKTGTCGYCGLQF---KQHHH 116

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.
Mus musculus (taxid: 10090)

>sp|Q4R5X8|NDUS6_MACFA NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Macaca fascicularis GN=NDUFS6 PE=2 SV=1

 Score = 95.1 bits (235), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 44/74 (59%), Positives = 53/74 (71%), Gaps = 1/74 (1%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR +RFVD++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct: 46  YDDKDYRRIRFVDRQKEVNENFAIDLIAEQPVSEVQTRVIACDGGGGALGHPKVYINLDK 105

Query: 62  PG-NHSCGYCGLRF 74
                +CGYCGL+F
Sbjct: 106 ETKTGTCGYCGLQF 119

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Macaca fascicularis (taxid: 9541)

>sp|Q0MQH5|NDUS6_PONPY NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Pongo pygmaeus GN=NDUFS6 PE=2 SV=1

 Score = 94.7 bits (234), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 46/82 (56%), Positives = 55/82 (67%), Gaps = 4/82 (4%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR +RFV ++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct: 46  YDDKDYRRIRFVGRQKEVNENFAIDLIAEQPVSEVETRVIACDGGGGALGHPKVYINLDK 105

Query: 62  PG-NHSCGYCGLRFFKEDSHHH 82
                +CGYCGL+F     HHH
Sbjct: 106 ETKTGTCGYCGLQF---RQHHH 124

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pongo pygmaeus (taxid: 9600)

>sp|Q0MQH7|NDUS6_PANTR NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Pan troglodytes GN=NDUFS6 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 46/82 (56%), Positives = 56/82 (68%), Gaps = 4/82 (4%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR +RFV ++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct: 46  YDDKDYRRIRFVGRQKEVNENFAIDLIAEQPVSEVETRVIACDGGGGALGHPKVYINLDK 105

Query: 62  PG-NHSCGYCGLRFFKEDSHHH 82
                +CGYCGL+F +   HHH
Sbjct: 106 ETKTGTCGYCGLQFRQ---HHH 124

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pan troglodytes (taxid: 9598)

>sp|O75380|NDUS6_HUMAN NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Homo sapiens GN=NDUFS6 PE=1 SV=1

 Score = 94.4 bits (233), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 46/82 (56%), Positives = 56/82 (68%), Gaps = 4/82 (4%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR +RFV ++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct: 46  YDDKDYRRIRFVGRQKEVNENFAIDLIAEQPVSEVETRVIACDGGGGALGHPKVYINLDK 105

Query: 62  PG-NHSCGYCGLRFFKEDSHHH 82
                +CGYCGL+F +   HHH
Sbjct: 106 ETKTGTCGYCGLQFRQ---HHH 124

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Homo sapiens (taxid: 9606)

>sp|P23934|NDUS6_BOVIN NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Bos taurus GN=NDUFS6 PE=1 SV=2

 Score = 92.8 bits (229), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 45/81 (55%), Positives = 55/81 (67%), Gaps = 3/81 (3%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR VRFV ++K VN  FAIDLIAE P      RV+ CDGG G  GHP+VYINLDK
Sbjct: 46  YDDGDYRKVRFVGRQKEVNENFAIDLIAEQPVSQVGSRVISCDGGGGALGHPRVYINLDK 105

Query: 62  PG-NHSCGYCGLRFFKEDSHH 81
                +CGYCGL+F ++  HH
Sbjct: 106 ETKTGTCGYCGLQFRQQ--HH 124

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Bos taurus (taxid: 9913)

>sp|Q0MQH6|NDUS6_GORGO NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Gorilla gorilla gorilla GN=NDUFS6 PE=2 SV=1

 Score = 92.4 bits (228), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 43/74 (58%), Positives = 52/74 (70%), Gaps = 1/74 (1%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           ++  DYR +RFV ++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct: 46  YDDKDYRRIRFVGRQKEVNENFAIDLIAEQPVSEVETRVIACDGGGGALGHPKVYINLDK 105

Query: 62  PG-NHSCGYCGLRF 74
                +CGYCGL+F
Sbjct: 106 ETKTGTCGYCGLQF 119

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Gorilla gorilla gorilla (taxid: 9595)

>sp|P52504|NDUS6_RAT NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Rattus norvegicus GN=Ndufs6 PE=3 SV=1

 Score = 92.0 bits (227), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 43/77 (55%), Positives = 52/77 (67%), Gaps = 3/77 (3%)

Query: 6   DYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPG-N 64
           DYR +RFVD++K VN  FAIDLIA+ P      R++ CDGG G  GHPKVYINLDK    
Sbjct: 42  DYRGIRFVDRQKEVNENFAIDLIAQQPVNEVDRRIIACDGGGGALGHPKVYINLDKETKT 101

Query: 65  HSCGYCGLRFFKEDSHH 81
            +C YCGL+F  +  HH
Sbjct: 102 GTCAYCGLQF--KQQHH 116

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Rattus norvegicus (taxid: 10116)

>sp|Q19724|NDUS6_CAEEL Probable NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial OS=Caenorhabditis elegans GN=nduf-6 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 42/77 (54%), Positives = 53/77 (68%), Gaps = 1/77 (1%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKE-RVVWCDGGSGPTGHPKVYINLD 60
           +++ DYR  RF   +K VN   A+ LI + PP+ C + RVV+CDGG    GHPKVYINLD
Sbjct: 49  WDQSDYRLQRFDISKKSVNPNVAMHLIDQRPPEDCGDKRVVFCDGGHPALGHPKVYINLD 108

Query: 61  KPGNHSCGYCGLRFFKE 77
           KPG H+CGYCG RF+  
Sbjct: 109 KPGVHACGYCGNRFYNS 125

Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Caenorhabditis elegans (taxid: 6239)

>sp|Q5AUI1|LBSA_EMENI Lactobacillus shifted protein OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=lbsA PE=1 SV=1

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 31/59 (52%), Positives = 40/59 (67%), Gaps = 2/59 (3%)

Query: 24  AIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH 82
           AI+LI + P +  K+++V CDGG GP GHP+++IN DKP    CGYCGL F  E  HH 
Sbjct: 119 AIELIHKQPVRWVKDKIVSCDGGGGPLGHPRIFINTDKPEIVPCGYCGLPFAHE--HHR 175

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

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
239788117	123	ACYPI000747 [Acyrthosiphon pisum]	0.975	0.650	0.775	3e-31
193688233	123	PREDICTED: probable NADH dehydrogenase [	0.975	0.650	0.775	3e-31
91083249	125	PREDICTED: similar to CG8680 CG8680-PA [	0.975	0.64	0.787	1e-30
194856543	126	GG24316 [Drosophila erecta] gi|190660640	0.987	0.642	0.716	4e-28
357612416	211	hypothetical protein KGM_08437 [Danaus p	0.975	0.379	0.712	7e-28
307187709	127	NADH dehydrogenase [ubiquinone] iron-sul	0.963	0.622	0.734	8e-28
195576690	126	GD22662 [Drosophila simulans] gi|1941902	0.987	0.642	0.703	9e-28
20129243	126	CG8680 [Drosophila melanogaster] gi|7296	0.987	0.642	0.703	1e-27
195342670	126	GM18034 [Drosophila sechellia] gi|194132	0.987	0.642	0.703	1e-27
332375564	123	unknown [Dendroctonus ponderosae]	0.987	0.658	0.719	1e-27

>gi|239788117|dbj|BAH70753.1| ACYPI000747 [Acyrthosiphon pisum]

 Score =  139 bits (349), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 62/80 (77%), Positives = 70/80 (87%)

Query: 1   KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLD 60
           K+EKDDYR  RF+DK+K VN  FAIDLI +VPPKPC ERVV+CDGG GP GHPKVYINLD
Sbjct: 44  KWEKDDYRLARFIDKKKEVNQSFAIDLIKQVPPKPCTERVVYCDGGGGPLGHPKVYINLD 103

Query: 61  KPGNHSCGYCGLRFFKEDSH 80
           KPGNH+CGYCGL+F K+DSH
Sbjct: 104 KPGNHACGYCGLQFVKKDSH 123

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193688233|ref|XP_001945136.1| PREDICTED: probable NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial-like isoform 1 [Acyrthosiphon pisum] gi|328700596|ref|XP_003241318.1| PREDICTED: probable NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial-like isoform 2 [Acyrthosiphon pisum]

 Score =  139 bits (349), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 62/80 (77%), Positives = 70/80 (87%)

Query: 1   KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLD 60
           K+EKDDYR  RF+DK+K VN  FAIDLI +VPPKPC ERVV+CDGG GP GHPKVYINLD
Sbjct: 44  KWEKDDYRLARFIDKKKEVNQSFAIDLIKQVPPKPCTERVVYCDGGGGPLGHPKVYINLD 103

Query: 61  KPGNHSCGYCGLRFFKEDSH 80
           KPGNH+CGYCGL+F K+DSH
Sbjct: 104 KPGNHACGYCGLQFVKKDSH 123

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

>gi|91083249|ref|XP_974018.1| PREDICTED: similar to CG8680 CG8680-PA [Tribolium castaneum] gi|270008233|gb|EFA04681.1| hypothetical protein TcasGA2_TC014412 [Tribolium castaneum]

 Score =  137 bits (344), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 63/80 (78%), Positives = 68/80 (85%)

Query: 1   KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLD 60
           K+E DDYR  RFV + KHVN  FAIDLIAEVPPK CKERVVWCDGG GPTGHPKVYINLD
Sbjct: 46  KWEPDDYRLSRFVGRPKHVNPNFAIDLIAEVPPKACKERVVWCDGGGGPTGHPKVYINLD 105

Query: 61  KPGNHSCGYCGLRFFKEDSH 80
           KPGNHSCGYCGLR++ +  H
Sbjct: 106 KPGNHSCGYCGLRYYLDHGH 125

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194856543|ref|XP_001968773.1| GG24316 [Drosophila erecta] gi|190660640|gb|EDV57832.1| GG24316 [Drosophila erecta]

 Score =  128 bits (322), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 58/81 (71%), Positives = 66/81 (81%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           F+KDDYR  RFV+ +++VN  + I LI EVPPK C ERVV+CDGG GP GHPKVYINLDK
Sbjct: 46  FDKDDYRNARFVNAKRYVNENWGIKLIEEVPPKECTERVVFCDGGDGPLGHPKVYINLDK 105

Query: 62  PGNHSCGYCGLRFFKEDSHHH 82
           PGNH CGYCGLRF K+D HHH
Sbjct: 106 PGNHICGYCGLRFVKKDDHHH 126

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357612416|gb|EHJ67985.1| hypothetical protein KGM_08437 [Danaus plexippus]

 Score =  127 bits (320), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 57/80 (71%), Positives = 64/80 (80%)

Query: 1   KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLD 60
           K+E DDYR  RF    K VN  +A++LIA+VPPK   ERVVWCDGGSGP GHP+VYINLD
Sbjct: 132 KWESDDYRLARFTLAPKQVNKNWAVNLIAQVPPKEVTERVVWCDGGSGPEGHPRVYINLD 191

Query: 61  KPGNHSCGYCGLRFFKEDSH 80
           KPGNHSCGYCGLRF K+D H
Sbjct: 192 KPGNHSCGYCGLRFVKKDHH 211

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307187709|gb|EFN72681.1| NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial [Camponotus floridanus]

 Score =  127 bits (319), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 58/79 (73%), Positives = 65/79 (82%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           FEKDDYR VRF+D+ K VN  + I+LI E+PP P KER+V CDGG GP GHPKVYINLDK
Sbjct: 49  FEKDDYRLVRFMDRPKEVNKNWGINLIDEIPPSPEKERIVACDGGGGPLGHPKVYINLDK 108

Query: 62  PGNHSCGYCGLRFFKEDSH 80
           PGNH CGYCGLRF+KED H
Sbjct: 109 PGNHICGYCGLRFYKEDHH 127

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

>gi|195576690|ref|XP_002078208.1| GD22662 [Drosophila simulans] gi|194190217|gb|EDX03793.1| GD22662 [Drosophila simulans]

 Score =  127 bits (319), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 57/81 (70%), Positives = 66/81 (81%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           F+K+DYR  RFV+ +++VN  + I LI EVPPK C ERVV+CDGG GP GHPKVYINLDK
Sbjct: 46  FDKEDYRNARFVNAKRYVNENWGIKLIEEVPPKECTERVVFCDGGDGPLGHPKVYINLDK 105

Query: 62  PGNHSCGYCGLRFFKEDSHHH 82
           PGNH CGYCGLRF K+D HHH
Sbjct: 106 PGNHICGYCGLRFVKKDDHHH 126

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|20129243|ref|NP_608909.1| CG8680 [Drosophila melanogaster] gi|7296948|gb|AAF52221.1| CG8680 [Drosophila melanogaster] gi|42415403|gb|AAS15671.1| LP20380p [Drosophila melanogaster] gi|220947668|gb|ACL86377.1| CG8680-PA [synthetic construct] gi|220956968|gb|ACL91027.1| CG8680-PA [synthetic construct]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/81 (70%), Positives = 66/81 (81%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           F+K+DYR  RFV+ +++VN  + I LI EVPPK C ERVV+CDGG GP GHPKVYINLDK
Sbjct: 46  FDKEDYRNARFVNAKRYVNENWGIKLIEEVPPKECTERVVFCDGGDGPLGHPKVYINLDK 105

Query: 62  PGNHSCGYCGLRFFKEDSHHH 82
           PGNH CGYCGLRF K+D HHH
Sbjct: 106 PGNHICGYCGLRFVKKDDHHH 126

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195342670|ref|XP_002037923.1| GM18034 [Drosophila sechellia] gi|194132773|gb|EDW54341.1| GM18034 [Drosophila sechellia]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/81 (70%), Positives = 66/81 (81%)

Query: 2   FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
           F+K+DYR  RFV+ +++VN  + I LI EVPPK C ERVV+CDGG GP GHPKVYINLDK
Sbjct: 46  FDKEDYRNARFVNAKRYVNENWGIKLIEEVPPKECTERVVFCDGGDGPLGHPKVYINLDK 105

Query: 62  PGNHSCGYCGLRFFKEDSHHH 82
           PGNH CGYCGLRF K+D HHH
Sbjct: 106 PGNHICGYCGLRFVKKDDHHH 126

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332375564|gb|AEE62923.1| unknown [Dendroctonus ponderosae]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/82 (71%), Positives = 67/82 (81%), Gaps = 1/82 (1%)

Query: 1   KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLD 60
           KF+  DYR  RFVD+ K+VN  F+I LI E PPK C +RVV+CDGGSGP GHP+VYINLD
Sbjct: 43  KFDPKDYRLARFVDRPKNVNPNFSIKLIEEAPPKSCNDRVVFCDGGSGPEGHPRVYINLD 102

Query: 61  KPGNHSCGYCGLRFFKEDSHHH 82
           KPGNHSCGYCGLRF+K D HHH
Sbjct: 103 KPGNHSCGYCGLRFYK-DGHHH 123

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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
FB|FBgn0031684	126	CG8680 [Drosophila melanogaste	0.987	0.642	0.703	1.1e-30
MGI|MGI:107932	116	Ndufs6 "NADH dehydrogenase (ub	0.951	0.672	0.573	4.9e-21
UNIPROTKB|E1BQN0	128	NDUFS6 "Uncharacterized protei	0.951	0.609	0.555	4.4e-20
UNIPROTKB|O75380	124	NDUFS6 "NADH dehydrogenase [ub	0.951	0.629	0.560	4.4e-20
UNIPROTKB|P23934	124	NDUFS6 "NADH dehydrogenase [ub	0.951	0.629	0.555	2.5e-19
UNIPROTKB|F1S031	123	NDUFS6 "Uncharacterized protei	0.951	0.634	0.555	3.1e-19
ZFIN|ZDB-GENE-040912-86	129	ndufs6 "NADH dehydrogenase (ub	0.963	0.612	0.536	4e-19
RGD|3156	116	Ndufs6 "NADH dehydrogenase (ub	0.902	0.637	0.558	5.1e-19
WB|WBGene00009051	140	nduf-6 [Caenorhabditis elegans	0.939	0.55	0.55	1.1e-18
UNIPROTKB|A8YXY4	152	NDUFS6 "NADH dehydrogenase [ub	0.707	0.381	0.586	6.2e-14

FB|FBgn0031684 CG8680 [Drosophila melanogaster (taxid:7227)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 57/81 (70%), Positives = 66/81 (81%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             F+K+DYR  RFV+ +++VN  + I LI EVPPK C ERVV+CDGG GP GHPKVYINLDK
Sbjct:    46 FDKEDYRNARFVNAKRYVNENWGIKLIEEVPPKECTERVVFCDGGDGPLGHPKVYINLDK 105

Query:    62 PGNHSCGYCGLRFFKEDSHHH 82
             PGNH CGYCGLRF K+D HHH
Sbjct:   106 PGNHICGYCGLRFVKKDDHHH 126

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

MGI|MGI:107932 Ndufs6 "NADH dehydrogenase (ubiquinone) Fe-S protein 6" [Mus musculus (taxid:10090)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 47/82 (57%), Positives = 59/82 (71%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             +++ DYR VRFVD++K VN  FAIDLIA+ P    + R++ CDGG G  GHPKVYINLDK
Sbjct:    38 YDEKDYRRVRFVDRQKEVNENFAIDLIAQQPVNEVEHRIIACDGGGGALGHPKVYINLDK 97

Query:    62 PGNH-SCGYCGLRFFKEDSHHH 82
                  +CGYCGL+F K+  HHH
Sbjct:    98 ETKTGTCGYCGLQF-KQ--HHH 116

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISO

GO:0006631 "fatty acid metabolic process" evidence=IMP

GO:0006810 "transport" evidence=IEA

GO:0006936 "muscle contraction" evidence=IMP

GO:0010259 "multicellular organismal aging" evidence=IMP

GO:0016020 "membrane" evidence=IEA

GO:0022900 "electron transport chain" evidence=IEA

GO:0022904 "respiratory electron transport chain" evidence=IMP

GO:0035264 "multicellular organism growth" evidence=IMP

GO:0061458 "reproductive system development" evidence=IMP

GO:0070469 "respiratory chain" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=IMP

GO:0072358 "cardiovascular system development" evidence=IMP

UNIPROTKB|E1BQN0 NDUFS6 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 45/81 (55%), Positives = 56/81 (69%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             +++ DYR VRFV ++K VN  FAIDLIAE P    + R++ CDGG G  GHPKVYINLDK
Sbjct:    50 YDEKDYRRVRFVGRQKEVNKNFAIDLIAEQPVSEVESRIISCDGGGGALGHPKVYINLDK 109

Query:    62 PGNH-SCGYCGLRFFKEDSHH 81
                  +CGYCGL+F  +  HH
Sbjct:   110 DTKTGTCGYCGLQF--KQKHH 128

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

UNIPROTKB|O75380 NDUFS6 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 238 (88.8 bits), Expect = 4.4e-20, P = 4.4e-20
 Identities = 46/82 (56%), Positives = 56/82 (68%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             ++  DYR +RFV ++K VN  FAIDLIAE P    + RV+ CDGG G  GHPKVYINLDK
Sbjct:    46 YDDKDYRRIRFVGRQKEVNENFAIDLIAEQPVSEVETRVIACDGGGGALGHPKVYINLDK 105

Query:    62 PGNH-SCGYCGLRFFKEDSHHH 82
                  +CGYCGL+F +   HHH
Sbjct:   106 ETKTGTCGYCGLQFRQ---HHH 124

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=NAS

GO:0009055 "electron carrier activity" evidence=NAS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=NAS

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA;NAS

GO:0005743 "mitochondrial inner membrane" evidence=TAS

GO:0022904 "respiratory electron transport chain" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

UNIPROTKB|P23934 NDUFS6 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 231 (86.4 bits), Expect = 2.5e-19, P = 2.5e-19
 Identities = 45/81 (55%), Positives = 55/81 (67%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             ++  DYR VRFV ++K VN  FAIDLIAE P      RV+ CDGG G  GHP+VYINLDK
Sbjct:    46 YDDGDYRKVRFVGRQKEVNENFAIDLIAEQPVSQVGSRVISCDGGGGALGHPRVYINLDK 105

Query:    62 PGNH-SCGYCGLRFFKEDSHH 81
                  +CGYCGL+F ++  HH
Sbjct:   106 ETKTGTCGYCGLQFRQQ--HH 124

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0070469 "respiratory chain" evidence=IEA

GO:0022900 "electron transport chain" evidence=IEA

UNIPROTKB|F1S031 NDUFS6 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 45/81 (55%), Positives = 53/81 (65%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             ++  DYR VRF D++K VN  FAIDLIAE P      RV+ CDGG G  GHP+VYINLDK
Sbjct:    45 YDDGDYRRVRFSDRQKEVNENFAIDLIAEQPVSEVGSRVISCDGGGGALGHPRVYINLDK 104

Query:    62 PGNH-SCGYCGLRFFKEDSHH 81
                  +CGYCGL+F     HH
Sbjct:   105 ETKTGTCGYCGLQF--RQPHH 123

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

ZFIN|ZDB-GENE-040912-86 ndufs6 "NADH dehydrogenase (ubiquinone) Fe-S protein 6" [Danio rerio (taxid:7955)]

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 44/82 (53%), Positives = 56/82 (68%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDK 61
             ++++D R  RFV + K VN  FAI+L+AE P    + RVV CDGG G  GHPKVYINLDK
Sbjct:    50 YDENDVRRARFVGRHKEVNENFAINLVAEEPVTHVESRVVSCDGGGGALGHPKVYINLDK 109

Query:    62 PGN-HSCGYCGLRFFKEDSHHH 82
                  +CGYCGL+F  + +HHH
Sbjct:   110 DTRVGTCGYCGLQF--KQTHHH 129

GO:0003674 "molecular_function" evidence=ND

RGD|3156 Ndufs6 "NADH dehydrogenase (ubiquinone) Fe-S protein 6" [Rattus norvegicus (taxid:10116)]

 Score = 228 (85.3 bits), Expect = 5.1e-19, P = 5.1e-19
 Identities = 43/77 (55%), Positives = 52/77 (67%)

Query:     6 DYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNH 65
             DYR +RFVD++K VN  FAIDLIA+ P      R++ CDGG G  GHPKVYINLDK    
Sbjct:    42 DYRGIRFVDRQKEVNENFAIDLIAQQPVNEVDRRIIACDGGGGALGHPKVYINLDKETKT 101

Query:    66 -SCGYCGLRFFKEDSHH 81
              +C YCGL+F  +  HH
Sbjct:   102 GTCAYCGLQF--KQQHH 116

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005739 "mitochondrion" evidence=ISO

GO:0005743 "mitochondrial inner membrane" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISO

GO:0006631 "fatty acid metabolic process" evidence=ISO

GO:0006936 "muscle contraction" evidence=ISO

GO:0008150 "biological_process" evidence=ND

GO:0010259 "multicellular organismal aging" evidence=ISO

GO:0022900 "electron transport chain" evidence=IEA

GO:0022904 "respiratory electron transport chain" evidence=ISO

GO:0035264 "multicellular organism growth" evidence=ISO

GO:0061458 "reproductive system development" evidence=ISO

GO:0070469 "respiratory chain" evidence=IEA

GO:0070584 "mitochondrion morphogenesis" evidence=ISO

GO:0072358 "cardiovascular system development" evidence=ISO

WB|WBGene00009051 nduf-6 [Caenorhabditis elegans (taxid:6239)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 44/80 (55%), Positives = 56/80 (70%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKE-RVVWCDGGSGPTGHPKVYINLD 60
             +++ DYR  RF   +K VN   A+ LI + PP+ C + RVV+CDGG    GHPKVYINLD
Sbjct:    49 WDQSDYRLQRFDISKKSVNPNVAMHLIDQRPPEDCGDKRVVFCDGGHPALGHPKVYINLD 108

Query:    61 KPGNHSCGYCGLRFFKEDSH 80
             KPG H+CGYCG RF+  +SH
Sbjct:   109 KPGVHACGYCGNRFY--NSH 126

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

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=IMP

GO:0042493 "response to drug" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|A8YXY4 NDUFS6 "NADH dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 34/58 (58%), Positives = 40/58 (68%)

Query:     2 FEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINL 59
             ++  DYR VRFV ++K VN  FAIDLIAE P      RV+ CDGG G  GHP+VYINL
Sbjct:    46 YDDGDYRKVRFVGRQKEVNENFAIDLIAEQPVSQVGSRVISCDGGGGALGHPRVYINL 103

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

---

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)
Q5AUI1	LBSA_EMENI	No assigned EC number	0.5254	0.6951	0.2676	yes	N/A
Q19724	NDUS6_CAEEL	No assigned EC number	0.5454	0.9268	0.5428	yes	N/A
Q0MQH7	NDUS6_PANTR	No assigned EC number	0.5609	0.9512	0.6290	yes	N/A
O75380	NDUS6_HUMAN	No assigned EC number	0.5609	0.9512	0.6290	yes	N/A
P23934	NDUS6_BOVIN	No assigned EC number	0.5555	0.9512	0.6290	yes	N/A
P52503	NDUS6_MOUSE	No assigned EC number	0.5609	0.9512	0.6724	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	82
pfam10276	40	pfam10276, zf-CHCC, Zinc-finger domain	4e-13
COG4391	62	COG4391, COG4391, Uncharacterized protein conserve	3e-05

>gnl|CDD|204429 pfam10276, zf-CHCC, Zinc-finger domain

 Score = 57.3 bits (139), Expect = 4e-13
 Identities = 26/38 (68%), Positives = 27/38 (71%), Gaps = 1/38 (2%)

Query: 38 ERVVWCDGGSGPTGHPKVYINLDK-PGNHSCGYCGLRF 74
           R V CDGG GP GHP+VYINLD  PG   C YCGLRF
Sbjct: 2  GRRVSCDGGGGPLGHPRVYINLDDEPGPVECPYCGLRF 39

This is a short zinc-finger domain conserved from fungi to humans. It is Cx8Hx14Cx2C. Length = 40

>gnl|CDD|226826 COG4391, COG4391, Uncharacterized protein conserved in bacteria [Function unknown]

 Score = 37.5 bits (87), Expect = 3e-05
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 43 CDGGSGPTGHPKVYINLDKPGNHSCGYCGLRF 74
          C G   P  HP+V++++   G   C YC  R+
Sbjct: 27 CPGPEPPNDHPRVFLDMGDEGEVVCPYCSTRY 58

Length = 62

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	82
KOG3456|consensus	120		100.0
PF10276	40	zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Z	99.82
COG4391	62	Uncharacterized protein conserved in bacteria [Fun	99.71
PLN02294	174	cytochrome c oxidase subunit Vb	98.89
PF01215	136	COX5B: Cytochrome c oxidase subunit Vb This family	98.62
cd00924	97	Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb.	98.5
PTZ00043	268	cytochrome c oxidase subunit; Provisional	98.44
KOG3352|consensus	153		98.33
PF09538	108	FYDLN_acid: Protein of unknown function (FYDLN_aci	96.24
TIGR02300	129	FYDLN_acid conserved hypothetical protein TIGR0230	93.54
PRK00398	46	rpoP DNA-directed RNA polymerase subunit P; Provis	93.53
PF13465	26	zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A	90.01
PF00096	23	zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR0070	89.4
COG4530	129	Uncharacterized protein conserved in bacteria [Fun	88.58
PF13913	25	zf-C2HC_2: zinc-finger of a C2HC-type	88.2
smart00659	44	RPOLCX RNA polymerase subunit CX. present in RNA p	86.43
PF13894	24	zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP	85.54
PF13878	41	zf-C2H2_3: zinc-finger of acetyl-transferase ESCO	85.35
PF08792	33	A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: I	85.03
COG1996	49	RPC10 DNA-directed RNA polymerase, subunit RPC10 (	83.83
TIGR02098	38	MJ0042_CXXC MJ0042 family finger-like domain. This	83.35
PF14255	52	Cys_rich_CPXG: Cysteine-rich CPXCG	81.55
PF03604	32	DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa	80.71

>KOG3456|consensus

Probab=100.00  E-value=2e-39  Score=220.79  Aligned_cols=78  Identities=58%  Similarity=1.044  Sum_probs=75.8

Q ss_pred             CCCcccCCcCcccccccccChhHHHhhhhcCCCeeecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecC
Q psy1181           1 KFEKDDYRPVRFVDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus         1 ~~~~~~~~~~rf~~~~~~~n~~~a~~li~e~P~i~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~   78 (82)
                      +||++|||++||++.+|.+|++|||+||+|+||+++++|+|.||||++|||||+||||||+++++.|+|||++|++++
T Consensus        41 ~~D~~Dyr~~rf~~~kk~vn~n~~m~LI~e~Pp~e~d~RVV~CdGg~~aLGHPkvyInLDk~~~~~CgYCGlrf~~dH  118 (120)
T KOG3456|consen   41 VTDQSDYRGNRFVKWKKDVNENSAMELISEVPPIEVDGRVVACDGGTPALGHPKVYINLDKPGPHICGYCGLRFVQDH  118 (120)
T ss_pred             ccchHHHhHHHHHhhhhhcCccchhhhhhcCChhhccceEEEecCCCCCCCCCeEEEEcCCCCCcccccchhhhhhhh
Confidence            599999999999999999999999999999999999999999999999999999999999999999999999999843

>PF10276 zf-CHCC: Zinc-finger domain; InterPro: IPR019401 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=99.82  E-value=8e-21  Score=109.01  Aligned_cols=39  Identities=54%  Similarity=1.147  Sum_probs=34.8

Q ss_pred             cCceEeeCCCCCCCCCCeEEEEcCCC-CeeecCCCCceee
Q psy1181          37 KERVVWCDGGSGPTGHPKVYINLDKP-GNHSCGYCGLRFF   75 (82)
Q Consensus        37 ~~r~v~C~Gg~~~lgHP~Vyi~L~~~-~~~~CpYCG~~y~   75 (82)
                      ++++|+|||+++++|||+|||+|+++ +.+.|||||++|+
T Consensus         1 ~~~~v~CdG~~~~lgHPrVyl~l~~~~~~~~CpYCg~~yv   40 (40)
T PF10276_consen    1 DGRRVSCDGGGGALGHPRVYLNLDDEPGPVVCPYCGTRYV   40 (40)
T ss_dssp             -SSEEEEEESSTTSCCCCEEEE-TTTTCEEEETTTTEEEE
T ss_pred             CCcEEEeCCCCCCCCCCeEEEecCCCCCeEECCCCCCEEC
Confidence            47899999999999999999999996 7799999999996

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 short conserved zinc-finger domain. It contains the sequence motif Cx8Hx14Cx2C. ; PDB: 2JVM_A 2JRR_A 2JZ8_A.

>COG4391 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=99.71  E-value=1.3e-17  Score=103.53  Aligned_cols=46  Identities=24%  Similarity=0.637  Sum_probs=42.9

Q ss_pred             CCeeecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeec
Q psy1181          32 PPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        32 P~i~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~   77 (82)
                      -.|.+.+..++|+|.+++.+||||||+|.+++++.|||||++|++.
T Consensus        16 ~~I~~~~~~l~C~g~~~p~~HPrV~L~mg~~gev~CPYC~t~y~l~   61 (62)
T COG4391          16 ETIEIGDLPLMCPGPEPPNDHPRVFLDMGDEGEVVCPYCSTRYRLN   61 (62)
T ss_pred             eEEEeCCeeEEcCCCCCCCCCCEEEEEcCCCCcEecCccccEEEec
Confidence            3478899999999999999999999999999999999999999986

>PLN02294 cytochrome c oxidase subunit Vb

Probab=98.89  E-value=2.8e-09  Score=77.39  Aligned_cols=51  Identities=31%  Similarity=0.500  Sum_probs=44.8

Q ss_pred             hhhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeec
Q psy1181          27 LIAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        27 li~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~   77 (82)
                      -+.+-|++   ..+.|+|+|.|+.+...|-.+|++|.+..+.+||.||..|+++
T Consensus       101 GTke~P~lVpS~~d~RiVGCtg~~~eDsh~v~Wf~L~kGkp~RCpeCG~~fkL~  154 (174)
T PLN02294        101 GTKEAPAVVKSYYDKRIVGCPGGEGEDEHDVVWFWLEKGKSFECPVCTQYFELE  154 (174)
T ss_pred             CCccCCcEeccCCCceEEeeCCCCCCCCceeEEEEecCCCceeCCCCCCEEEEE
Confidence            45666665   3479999999987888999999999999999999999999998

>PF01215 COX5B: Cytochrome c oxidase subunit Vb This family consists of chains F and S ; InterPro: IPR002124 Cytochrome c oxidase (1

Probab=98.62  E-value=3.6e-08  Score=69.11  Aligned_cols=52  Identities=27%  Similarity=0.344  Sum_probs=40.6

Q ss_pred             hhhhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecC
Q psy1181          26 DLIAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        26 ~li~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~   78 (82)
                      .-+.+-|++   ..+.|+|+|.|.. ...|..+|++|.+..+.+||.||..|+++.
T Consensus        72 ~GT~e~P~lVpS~~~~RiVGC~g~~-~~sH~v~W~~l~~g~~~RCpeCG~~fkL~~  126 (136)
T PF01215_consen   72 FGTKEDPILVPSYFDERIVGCTGEP-DDSHDVIWFWLHKGKPQRCPECGQVFKLKY  126 (136)
T ss_dssp             --SSSS-CEEEESSSCEEEEESSST-T-SSS-EEEEEETTSEEEETTTEEEEEEEE
T ss_pred             CCCccCCeEccCCCCceEEeeccCC-CCcceeEEEEEeCCCccCCCCCCeEEEEEE
Confidence            346677775   3379999999875 568999999999999999999999999976

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits, which is known as Vb in mammals, V in Dictyostelium discoideum (Slime mold) and IV in yeast, binds a zinc atom. The sequence of subunit Vb is well conserved and includes three conserved cysteines that coordinate the zinc ion [, ]. Two of these cysteines are clustered in the C-terminal section of the subunit.; GO: 0004129 cytochrome-c oxidase activity, 0005740 mitochondrial envelope; PDB: 2EIL_S 2ZXW_S 3ASN_S 1OCO_S 3AG4_S 3ABK_S 1OCZ_S 1OCC_F 3ASO_S 3ABL_S ....

>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb

Probab=98.50  E-value=1.6e-07  Score=62.43  Aligned_cols=50  Identities=26%  Similarity=0.399  Sum_probs=41.5

Q ss_pred             hhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCC
Q psy1181          28 IAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        28 i~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~   79 (82)
                      +.+-|++   ..+.|+|+|.|..+  .|-.+|++|.+..+.+|+.||..|+++..
T Consensus        42 T~e~P~lVpS~~~~RiVGC~g~~~--~h~v~W~~l~~g~~~rC~eCG~~fkL~~v   94 (97)
T cd00924          42 TKEDPNLVPSAFDKRIVGCICEPD--SHDVIWMWLEKGKPKRCPECGHVFKLVDV   94 (97)
T ss_pred             CccCCeEecCCCCCeEEeeeCCCC--CceEEEEEEeCCCceeCCCCCcEEEEEEC
Confidence            4455554   23799999998754  99999999999999999999999999753

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.

>PTZ00043 cytochrome c oxidase subunit; Provisional

Probab=98.44  E-value=2.4e-07  Score=70.54  Aligned_cols=52  Identities=29%  Similarity=0.406  Sum_probs=43.8

Q ss_pred             hhhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecC
Q psy1181          27 LIAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        27 li~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~   78 (82)
                      -+.|-|++   ..+.|+|+|.|+.+...|-.+|+.+.+....+|+.||..|++..
T Consensus       141 GTkEdPiLVpSy~deRyVGCTGg~~EDeH~VvWFwLrEGkpqRCpECGqVFKLVr  195 (268)
T PTZ00043        141 GTIENPVLVPSVGTERVVGCTGGTGEHEHVPLWFRCREGFLYRCGECDQIFMLVR  195 (268)
T ss_pred             CCccCCeEeccCCCceEEeccCCCccCCceeEEEEecCCCCccCCCCCcEEEEEE
Confidence            34556664   23699999999887889999999999999999999999999854

>KOG3352|consensus

Probab=98.33  E-value=5.3e-07  Score=64.47  Aligned_cols=51  Identities=27%  Similarity=0.407  Sum_probs=42.9

Q ss_pred             hhhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCC
Q psy1181          27 LIAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        27 li~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~   79 (82)
                      -+.+.|.+   ..+-|+|+|  +.+...|+.+|+.|.|.+..+||.||.-|+++..
T Consensus        95 GTkedP~lV~S~~d~RiVGC--~c~eD~~~V~Wmwl~Kge~~rc~eCG~~fkL~~v  148 (153)
T KOG3352|consen   95 GTKEDPNLVPSYYDKRIVGC--GCEEDSHAVVWMWLEKGETQRCPECGHYFKLVPV  148 (153)
T ss_pred             CcccCCccccccCCceEEee--cccCCCcceEEEEEEcCCcccCCcccceEEeeec
Confidence            35566765   347999999  5568899999999999999999999999999864

>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues

Probab=96.24  E-value=0.0017  Score=43.77  Aligned_cols=21  Identities=33%  Similarity=0.686  Sum_probs=19.0

Q ss_pred             EEEcCCCCeeecCCCCceeeec
Q psy1181          56 YINLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        56 yi~L~~~~~~~CpYCG~~y~~~   77 (82)
                      |+.|++ .+++|||||+.|...
T Consensus        19 FYDLnk-~PivCP~CG~~~~~~   39 (108)
T PF09538_consen   19 FYDLNK-DPIVCPKCGTEFPPE   39 (108)
T ss_pred             hccCCC-CCccCCCCCCccCcc
Confidence            999998 789999999999776

The function of members of this family is unknown.

>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300

Probab=93.54  E-value=0.031  Score=39.19  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=18.4

Q ss_pred             EEEcCCCCeeecCCCCceeeec
Q psy1181          56 YINLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        56 yi~L~~~~~~~CpYCG~~y~~~   77 (82)
                      |.+|++ .++.|||||..|...
T Consensus        19 FYDLnk-~p~vcP~cg~~~~~~   39 (129)
T TIGR02300        19 FYDLNR-RPAVSPYTGEQFPPE   39 (129)
T ss_pred             ccccCC-CCccCCCcCCccCcc
Confidence            899987 699999999998654

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.

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

Probab=93.53  E-value=0.083  Score=29.88  Aligned_cols=17  Identities=29%  Similarity=0.804  Sum_probs=13.8

Q ss_pred             CeeecCCCCceeeecCC
Q psy1181          63 GNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~~~   79 (82)
                      +...|||||..+..++.
T Consensus        20 ~~~~Cp~CG~~~~~~~~   36 (46)
T PRK00398         20 TGVRCPYCGYRILFKER   36 (46)
T ss_pred             CceECCCCCCeEEEccC
Confidence            37899999999887653

>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A

Probab=90.01  E-value=0.19  Score=25.41  Aligned_cols=14  Identities=36%  Similarity=0.788  Sum_probs=11.9

Q ss_pred             CCeeecCCCCceee
Q psy1181          62 PGNHSCGYCGLRFF   75 (82)
Q Consensus        62 ~~~~~CpYCG~~y~   75 (82)
                      +.+..|++|+..|.
T Consensus        12 ~k~~~C~~C~k~F~   25 (26)
T PF13465_consen   12 EKPYKCPYCGKSFS   25 (26)
T ss_dssp             SSSEEESSSSEEES
T ss_pred             CCCCCCCCCcCeeC
Confidence            45689999999996

...

>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=89.40  E-value=0.15  Score=24.35  Aligned_cols=12  Identities=33%  Similarity=0.850  Sum_probs=10.4

Q ss_pred             ecCCCCceeeec
Q psy1181          66 SCGYCGLRFFKE   77 (82)
Q Consensus        66 ~CpYCG~~y~~~   77 (82)
                      .|++||+.|...
T Consensus         2 ~C~~C~~~f~~~   13 (23)
T PF00096_consen    2 KCPICGKSFSSK   13 (23)
T ss_dssp             EETTTTEEESSH
T ss_pred             CCCCCCCccCCH
Confidence            699999999764

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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....

>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.58  E-value=0.17  Score=35.26  Aligned_cols=21  Identities=14%  Similarity=0.381  Sum_probs=17.2

Q ss_pred             EEEEcCCCCeeecCCCCceeee
Q psy1181          55 VYINLDKPGNHSCGYCGLRFFK   76 (82)
Q Consensus        55 Vyi~L~~~~~~~CpYCG~~y~~   76 (82)
                      -|.+|+. .++.|||||..|.+
T Consensus        18 KFYDLNr-dPiVsPytG~s~P~   38 (129)
T COG4530          18 KFYDLNR-DPIVSPYTGKSYPR   38 (129)
T ss_pred             hhhccCC-CccccCcccccchH
Confidence            4788875 48999999999965

>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type

Probab=88.20  E-value=0.23  Score=25.23  Aligned_cols=13  Identities=31%  Similarity=0.825  Sum_probs=10.8

Q ss_pred             eecCCCCceeeec
Q psy1181          65 HSCGYCGLRFFKE   77 (82)
Q Consensus        65 ~~CpYCG~~y~~~   77 (82)
                      ..||+||+.|..+
T Consensus         3 ~~C~~CgR~F~~~   15 (25)
T PF13913_consen    3 VPCPICGRKFNPD   15 (25)
T ss_pred             CcCCCCCCEECHH
Confidence            5799999999654

>smart00659 RPOLCX RNA polymerase subunit CX

Probab=86.43  E-value=0.75  Score=26.37  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=15.3

Q ss_pred             EEcCCCCeeecCCCCceeeec
Q psy1181          57 INLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        57 i~L~~~~~~~CpYCG~~y~~~   77 (82)
                      ++++..+.+.||+||-+-..+
T Consensus        12 ~~~~~~~~irC~~CG~rIlyK   32 (44)
T smart00659       12 NEIKSKDVVRCRECGYRILYK   32 (44)
T ss_pred             eecCCCCceECCCCCceEEEE
Confidence            345566789999999876544

present in RNA polymerase I, II and III

>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A

Probab=85.54  E-value=0.38  Score=22.25  Aligned_cols=13  Identities=31%  Similarity=0.789  Sum_probs=8.7

Q ss_pred             ecCCCCceeeecC
Q psy1181          66 SCGYCGLRFFKED   78 (82)
Q Consensus        66 ~CpYCG~~y~~~~   78 (82)
                      .|++||..|....
T Consensus         2 ~C~~C~~~~~~~~   14 (24)
T PF13894_consen    2 QCPICGKSFRSKS   14 (24)
T ss_dssp             E-SSTS-EESSHH
T ss_pred             CCcCCCCcCCcHH
Confidence            6999999997643

...

>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO

Probab=85.35  E-value=0.74  Score=25.86  Aligned_cols=23  Identities=22%  Similarity=0.651  Sum_probs=17.8

Q ss_pred             EEEcCCC--CeeecCCCCceeeecC
Q psy1181          56 YINLDKP--GNHSCGYCGLRFFKED   78 (82)
Q Consensus        56 yi~L~~~--~~~~CpYCG~~y~~~~   78 (82)
                      .|+++..  +..+|+-||..|....
T Consensus         3 ~Ld~gq~~~~~~~C~~CgM~Y~~~~   27 (41)
T PF13878_consen    3 ILDLGQKSFGATTCPTCGMLYSPGS   27 (41)
T ss_pred             EEeCCCCccCCcCCCCCCCEECCCC
Confidence            5777765  4789999999997643

>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors []

Probab=85.03  E-value=1.3  Score=24.02  Aligned_cols=23  Identities=22%  Similarity=0.478  Sum_probs=18.9

Q ss_pred             CCCeEEEEcCCCCeeecCCCCceee
Q psy1181          51 GHPKVYINLDKPGNHSCGYCGLRFF   75 (82)
Q Consensus        51 gHP~Vyi~L~~~~~~~CpYCG~~y~   75 (82)
                      +|+.|+..  +.+.-.|+-||..|.
T Consensus        10 ~~~~i~~~--~~~~~~C~~Cg~~~~   32 (33)
T PF08792_consen   10 GGNGIVNK--EDDYEVCIFCGSSFP   32 (33)
T ss_pred             CCCeEEEe--cCCeEEcccCCcEee
Confidence            78888873  567899999999986

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

Probab=83.83  E-value=1  Score=26.83  Aligned_cols=18  Identities=28%  Similarity=0.776  Sum_probs=13.7

Q ss_pred             CCCeeecCCCCceeeecC
Q psy1181          61 KPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        61 ~~~~~~CpYCG~~y~~~~   78 (82)
                      ....++|||||-+-..+.
T Consensus        21 ~~~~irCp~Cg~rIl~K~   38 (49)
T COG1996          21 ETRGIRCPYCGSRILVKE   38 (49)
T ss_pred             ccCceeCCCCCcEEEEec
Confidence            456789999998866554

>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain

Probab=83.35  E-value=1.2  Score=23.86  Aligned_cols=13  Identities=38%  Similarity=1.129  Sum_probs=11.0

Q ss_pred             CeeecCCCCceee
Q psy1181          63 GNHSCGYCGLRFF   75 (82)
Q Consensus        63 ~~~~CpYCG~~y~   75 (82)
                      ..+.||.||..|.
T Consensus        24 ~~v~C~~C~~~~~   36 (38)
T TIGR02098        24 GKVRCGKCGHVWY   36 (38)
T ss_pred             CEEECCCCCCEEE
Confidence            4689999999885

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.

>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG

Probab=81.55  E-value=0.78  Score=27.37  Aligned_cols=12  Identities=33%  Similarity=0.697  Sum_probs=9.4

Q ss_pred             eecCCCCceeee
Q psy1181          65 HSCGYCGLRFFK   76 (82)
Q Consensus        65 ~~CpYCG~~y~~   76 (82)
                      ..|||||..+..
T Consensus         1 i~CPyCge~~~~   12 (52)
T PF14255_consen    1 IQCPYCGEPIEI   12 (52)
T ss_pred             CCCCCCCCeeEE
Confidence            369999988754

>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Probab=80.71  E-value=1.1  Score=24.35  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=13.2

Q ss_pred             cCCCCeeecCCCCceeeec
Q psy1181          59 LDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        59 L~~~~~~~CpYCG~~y~~~   77 (82)
                      |.....+.|++||-+-..+
T Consensus        12 ~~~~~~irC~~CG~RIlyK   30 (32)
T PF03604_consen   12 LKPGDPIRCPECGHRILYK   30 (32)
T ss_dssp             BSTSSTSSBSSSS-SEEBE
T ss_pred             cCCCCcEECCcCCCeEEEe
Confidence            5556778999999875543

Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	82
2jvm_A	80	Solution Nmr Structure Of Rhodobacter Sphaeroides P		7e-04

>pdb|2JVM|A Chain A, Solution Nmr Structure Of Rhodobacter Sphaeroides Protein Rhos4_26430. Northeast Structural Genomics Consortium Target Rhr95 Length = 80

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 41 VWCDGGSGPTGHPKVYINL-DKPGNHSCGYCGLRFFKED 78
          V CDGG G  GHP+V++++  + G   CGYC  R+  E 
Sbjct: 29 VACDGGEGALGHPRVWLSIPHETGFVECGYCDRRYIHES 67

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	82
2jvm_A	80	Uncharacterized protein; alpha+beta, structural ge	1e-20
2jrr_A	67	Uncharacterized protein; solution structure, SIR90	2e-12
2jz8_A	87	Uncharacterized protein BH09830; zinc binding, str	2e-07

>2jvm_A Uncharacterized protein; alpha+beta, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Rhodobacter sphaeroides 2} Length = 80

 Score = 76.6 bits (188), Expect = 1e-20
 Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 7/77 (9%)

Query: 13 VDKEKHVNTQFAIDLIAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNH-SCGYCG 71
          + ++     + A   I            V CDGG G  GHP+V++++        CGYC 
Sbjct: 1  MRRQPKTRQESARMSIEAPETVVVSTWKVACDGGEGALGHPRVWLSIPHETGFVECGYCD 60

Query: 72 LRFFKEDS------HHH 82
           R+  E        HHH
Sbjct: 61 RRYIHESFAAAKLEHHH 77

>2jrr_A Uncharacterized protein; solution structure, SIR90, structural genomics, PSI-2, protein structure initiative; NMR {Silicibacter pomeroyi} Length = 67

 Score = 55.4 bits (133), Expect = 2e-12
 Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 7/52 (13%)

Query: 38 ERVVWCDGGSGPTGHPKVYINLDKP-GNHSCGYCGLRFFKEDS------HHH 82
          +  V CDGG G  GHP+V++ + +  G   C YC  ++  + S      HHH
Sbjct: 13 KSRVACDGGEGALGHPRVWLQIPEDTGWVECPYCDCKYVLKGSKADALEHHH 64

>2jz8_A Uncharacterized protein BH09830; zinc binding, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Bartonella henselae str} Length = 87

 Score = 43.5 bits (102), Expect = 2e-07
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 39 RVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHHH 82
          +   C G + P  HP ++I++       C YC   +  + S  +
Sbjct: 23 KEFMCVGATQPFDHPHIFIDMGSTDEKICPYCSTLYRYDPSLSY 66

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	82
2jvm_A	80	Uncharacterized protein; alpha+beta, structural ge	99.89
2jrr_A	67	Uncharacterized protein; solution structure, SIR90	99.88
2jz8_A	87	Uncharacterized protein BH09830; zinc binding, str	99.88
2odx_A	80	Cytochrome C oxidase polypeptide IV; all beta-prot	98.86
1v54_F	98	VI, cytochrome C oxidase polypeptide VB; oxidoredu	98.56
2y69_F	129	Cytochrome C oxidase subunit 5B; electron transpor	98.44
2kvh_A	27	Zinc finger and BTB domain-containing protein 32;	89.06
2els_A	36	Zinc finger protein 406; ZFAT zinc finger 1, struc	87.87
2m0f_A	29	Zinc finger and BTB domain-containing protein 17;	87.35
2lvu_A	26	Zinc finger and BTB domain-containing protein 17;	87.09
1rik_A	29	E6APC1 peptide; E6-binding domain, zinc finger, hu	86.99
2kvg_A	27	Zinc finger and BTB domain-containing protein 32;	86.92
2elp_A	37	Zinc finger protein 406; ZFAT zinc finger 1, struc	86.8
2m0d_A	30	Zinc finger and BTB domain-containing protein 17;	86.68
2kvf_A	28	Zinc finger and BTB domain-containing protein 32;	86.66
1srk_A	35	Zinc finger protein ZFPM1; classical zinc finger,	86.44
2elm_A	37	Zinc finger protein 406; ZFAT zinc finger 1, struc	86.44
1fv5_A	36	First zinc finger of U-shaped; CCHC, protein inter	86.33
2elt_A	36	Zinc finger protein 406; ZFAT zinc finger 1, struc	86.29
2elx_A	35	Zinc finger protein 406; ZFAT zinc finger 1, struc	86.24
2lvr_A	30	Zinc finger and BTB domain-containing protein 17;	85.94
2m0e_A	29	Zinc finger and BTB domain-containing protein 17;	84.9
2elq_A	36	Zinc finger protein 406; ZFAT zinc finger 1, struc	84.87
1p7a_A	37	BF3, BKLF, kruppel-like factor 3; classical zinc f	84.69
1klr_A	30	Zinc finger Y-chromosomal protein; transcription;	83.86
2elv_A	36	Zinc finger protein 406; ZFAT zinc finger 1, struc	83.77
2lvt_A	29	Zinc finger and BTB domain-containing protein 17;	84.2
2elo_A	37	Zinc finger protein 406; ZFAT zinc finger 1, struc	83.45
1gh9_A	71	8.3 kDa protein (gene MTH1184); beta+alpha complex	83.05
1znf_A	27	31ST zinc finger from XFIN; zinc finger DNA bindin	82.99
2yu5_A	44	Zinc finger protein 473; ZF-C2H2 domain, structura	82.43
1vd4_A	62	Transcription initiation factor IIE, alpha subunit	82.21
2ept_A	41	Zinc finger protein 32; C2H2, zinc finger domain,	81.94
2en2_A	42	B-cell lymphoma 6 protein; ZF-C2H2, structural gen	81.84
1ard_A	29	Yeast transcription factor ADR1; transcription reg	81.75
1pft_A	50	TFIIB, PFTFIIBN; N-terminal domain, transcription	81.74
2eox_A	44	Zinc finger protein 473; ZF-C2H2, structural genom	81.69
1njq_A	39	Superman protein; zinc-finger, peptide-zinc comple	81.65
2el5_A	42	Zinc finger protein 268; alternative splicing, DNA	81.51
2emi_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	81.46
2en3_A	46	ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, s	81.33
2epc_A	42	Zinc finger protein 32; zinc finger domain, C2H2,	81.31
2epv_A	44	Zinc finger protein 268; C2H2, zinc finger domain,	81.29
2yrj_A	46	Zinc finger protein 473; C2H2-type zinc finger, st	81.15
2eoy_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	81.1
1paa_A	30	Yeast transcription factor ADR1; transcription reg	80.87
2eoz_A	46	Zinc finger protein 473; ZF-C2H2, structural genom	80.79
2epw_A	46	Zinc finger protein 268; C2H2, zinc finger domain,	80.5
2elr_A	36	Zinc finger protein 406; ZFAT zinc finger 1, struc	80.5
2eow_A	46	Zinc finger protein 347; ZF-C2H2, structural genom	80.46
2emj_A	46	Zinc finger protein 28 homolog; ZF-C2H2, structura	80.4
2ytp_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	80.35
2eof_A	44	Zinc finger protein 268; ZF-C2H2, structural genom	80.35
2yts_A	46	Zinc finger protein 484; ZF-C2H2, structural genom	80.18
3h0g_L	63	DNA-directed RNA polymerases I, II, and III subuni	80.02

>2jvm_A Uncharacterized protein; alpha+beta, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Rhodobacter sphaeroides 2}

Probab=99.89  E-value=2.1e-24  Score=138.66  Aligned_cols=51  Identities=37%  Similarity=0.830  Sum_probs=45.6

Q ss_pred             hcCC-CeeecCceEeeCCCCCCCCCCeEEEEc-CCCCeeecCCCCceeeecCC
Q psy1181          29 AEVP-PKPCKERVVWCDGGSGPTGHPKVYINL-DKPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        29 ~e~P-~i~v~~r~v~C~Gg~~~lgHP~Vyi~L-~~~~~~~CpYCG~~y~~~~~   79 (82)
                      .++| +|+|++++|+|||++++||||+|||+| ++++++.|||||++|+++++
T Consensus        16 ~~apevI~V~~~~V~CdGg~g~LGHPrVyL~ld~~~g~~~CpYCg~~f~l~~~   68 (80)
T 2jvm_A           16 IEAPETVVVSTWKVACDGGEGALGHPRVWLSIPHETGFVECGYCDRRYIHESF   68 (80)
T ss_dssp             CSCCSEEEESCSEEEECCCSTTCCCCCEEEECCTTTCEEECSSSSCEEEEHHH
T ss_pred             cCCCCeEEECCcEEEcCCCCCCCCCCEEEEEccCCCCeEECCCCCCEEEecCC
Confidence            3455 589999999999999999999999999 57899999999999999863

>2jrr_A Uncharacterized protein; solution structure, SIR90, structural genomics, PSI-2, protein structure initiative; NMR {Silicibacter pomeroyi}

Probab=99.88  E-value=1.9e-23  Score=130.34  Aligned_cols=50  Identities=34%  Similarity=0.793  Sum_probs=45.1

Q ss_pred             cCCC-eeecCceEeeCCCCCCCCCCeEEEEcC-CCCeeecCCCCceeeecCC
Q psy1181          30 EVPP-KPCKERVVWCDGGSGPTGHPKVYINLD-KPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        30 e~P~-i~v~~r~v~C~Gg~~~lgHP~Vyi~L~-~~~~~~CpYCG~~y~~~~~   79 (82)
                      ++|. |+|++++|+|+|++++||||+|||+|+ +++++.|||||++|+++++
T Consensus         4 ~ape~i~v~~r~v~CdGg~g~lgHPrVyl~ld~~~g~~~CpYCg~~f~l~~~   55 (67)
T 2jrr_A            4 QAPETKIVDKSRVACDGGEGALGHPRVWLQIPEDTGWVECPYCDCKYVLKGS   55 (67)
T ss_dssp             CCCEEEEESSSEEEEEESSTTSEEEEEEEECCTTTSEEEETTTTEEEEETTS
T ss_pred             CCCceEEECCCEEEeCCCCCCCCCCEEEEEccCCCCeEECCCCCCEEEECCC
Confidence            4454 799999999999999999999999994 6799999999999999974

>2jz8_A Uncharacterized protein BH09830; zinc binding, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Bartonella henselae str}

Probab=99.88  E-value=4.2e-23  Score=134.35  Aligned_cols=53  Identities=19%  Similarity=0.407  Sum_probs=50.0

Q ss_pred             hhcCCCeeecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCCC
Q psy1181          28 IAEVPPKPCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSH   80 (82)
Q Consensus        28 i~e~P~i~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~~   80 (82)
                      .+++|+|+|+.+.|+|+|++++||||||||+|++++++.|||||++|++++..
T Consensus        12 ~~~~~~IeV~~~~v~CdG~~~plgHPrVyL~i~~~g~~~CpYCg~~y~~~~~~   64 (87)
T 2jz8_A           12 DLGYKIIEIGVKEFMCVGATQPFDHPHIFIDMGSTDEKICPYCSTLYRYDPSL   64 (87)
T ss_dssp             SSCCSEEECSCSEEECCCSSCSSSSSSCEEECTTCCEECCTTTCCEEECCTTS
T ss_pred             CCCCCeEEEcCcEEEcCCCCCCCCCCEEEEEcCCCCeEECCCCCCEeEcCCCC
Confidence            35899999999999999999999999999999999999999999999999864

>2odx_A Cytochrome C oxidase polypeptide IV; all beta-protein, metallo-protein, oxidoreductase; NMR {Saccharomyces cerevisiae}

Probab=98.86  E-value=3.9e-09  Score=67.13  Aligned_cols=52  Identities=17%  Similarity=0.195  Sum_probs=42.5

Q ss_pred             hhhhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecC
Q psy1181          26 DLIAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        26 ~li~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~   78 (82)
                      .-+.+-|++   ..+.|+|+|.|. ++..|-.+|++|.+..+.+|+.||..|+++.
T Consensus        16 ~GT~e~P~lVpS~~~~RiVGC~g~-p~d~h~v~W~~l~~g~~~RC~eCG~~fkL~~   70 (80)
T 2odx_A           16 KGTMKDPIIIESYDDYRYVGCTGS-PAGSHTIMWLKPTVNEVARCWECGSVYKLNP   70 (80)
T ss_dssp             ---CCSCSEECCSSSSCCEEESSS-TTCCSCCEEECCCTTCEEECSSSCCEEEECC
T ss_pred             CCCccCCeEecCCCCCeEEeeeCC-CCCcceEEEEEecCCCCeECCCCCeEEEEEE
Confidence            446677775   337999999987 5779999999999998899999999999875

>1v54_F VI, cytochrome C oxidase polypeptide VB; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: g.41.5.3 PDB: 1oco_F* 1occ_F* 1ocz_F* 1ocr_F* 1v55_F* 2dyr_F* 2dys_F* 2eij_F* 2eik_F* 2eil_F* 2eim_F* 2ein_F* 2occ_F* 2ybb_Q* 2zxw_F* 3abk_F* 3abl_F* 3abm_F* 3ag1_F* 3ag2_F* ...

Probab=98.56  E-value=5.2e-08  Score=63.95  Aligned_cols=50  Identities=20%  Similarity=0.309  Sum_probs=41.6

Q ss_pred             hhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCC
Q psy1181          28 IAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        28 i~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~   79 (82)
                      +.+-|++   ..+.|+|+|.|.  +..|..+|++|.+..+.+||.||..|++..+
T Consensus        42 Tke~P~lVpS~~~~RiVGC~~~--~D~h~v~W~~l~~g~~~RC~eCG~~fkL~~~   94 (98)
T 1v54_F           42 TKEDPNLVPSITNKRIVGCICE--EDNSTVIWFWLHKGEAQRCPSCGTHYKLVPH   94 (98)
T ss_dssp             CSSSCEEEECSSSEEEEEECCS--TTCSCCEEEEEESSSCEECTTTCCEEEEECC
T ss_pred             cccCCeEeecCCCCeEEeecCC--CCCceeEEEEEeCCCceECCCCCeEEEEeee
Confidence            4555554   226899999974  7899999999999889999999999999865

>2y69_F Cytochrome C oxidase subunit 5B; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=98.44  E-value=1.2e-07  Score=65.07  Aligned_cols=50  Identities=20%  Similarity=0.309  Sum_probs=41.7

Q ss_pred             hhcCCCe---eecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCC
Q psy1181          28 IAEVPPK---PCKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        28 i~e~P~i---~v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~   79 (82)
                      +.+-|++   ..+.|+|+|.|.  +..|..+|++|.+..+.+||.||..|+++.+
T Consensus        73 TkedP~lVpS~~d~RiVGC~~~--~Dsh~v~Wf~L~kg~p~RCpeCG~~fkL~~~  125 (129)
T 2y69_F           73 TKEDPNLVPSITNKRIVGCICE--EDNSTVIWFWLHKGEAQRCPSCGTHYKLVPH  125 (129)
T ss_dssp             CSSSCEEEEESSSEEEEEECCS--TTCSCCEEEEEESSSCEECTTTCCEEEEEEC
T ss_pred             cccCCeEeecCCCCeEEeecCC--CCCceeEEEEEeCCCceeCCCCCeEEEEeee
Confidence            4555554   226999999974  7899999999999989999999999999865

>2kvh_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=89.06  E-value=0.17  Score=22.62  Aligned_cols=16  Identities=25%  Similarity=0.337  Sum_probs=12.5

Q ss_pred             CeeecCCCCceeeecC
Q psy1181          63 GNHSCGYCGLRFFKED   78 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~~   78 (82)
                      .+..|+.||..|....
T Consensus         2 k~~~C~~C~k~f~~~~   17 (27)
T 2kvh_A            2 KPFSCSLCPQRSRDFS   17 (27)
T ss_dssp             CCEECSSSSCEESSHH
T ss_pred             cCccCCCcChhhCCHH
Confidence            3568999999997643

>2els_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=87.87  E-value=0.22  Score=23.75  Aligned_cols=16  Identities=25%  Similarity=0.497  Sum_probs=12.9

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||+.|...
T Consensus         7 ~k~~~C~~C~k~f~~~   22 (36)
T 2els_A            7 GKIFTCEYCNKVFKFK   22 (36)
T ss_dssp             CCCEECTTTCCEESSH
T ss_pred             CCCEECCCCCceeCCH
Confidence            3567999999999754

>2m0f_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}

Probab=87.35  E-value=0.26  Score=21.82  Aligned_cols=14  Identities=29%  Similarity=0.660  Sum_probs=11.4

Q ss_pred             eeecCCCCceeeec
Q psy1181          64 NHSCGYCGLRFFKE   77 (82)
Q Consensus        64 ~~~CpYCG~~y~~~   77 (82)
                      +..|+.||..|...
T Consensus         2 ~~~C~~C~k~f~~~   15 (29)
T 2m0f_A            2 PLKCRECGKQFTTS   15 (29)
T ss_dssp             CEECTTTSCEESCH
T ss_pred             CccCCCCCCccCCh
Confidence            46899999999754

>2lvu_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc finger, transcription; NMR {Homo sapiens}

Probab=87.09  E-value=0.12  Score=23.03  Aligned_cols=16  Identities=31%  Similarity=0.729  Sum_probs=12.6

Q ss_pred             eeecCCCCceeeecCC
Q psy1181          64 NHSCGYCGLRFFKEDS   79 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~~   79 (82)
                      +..|+.||..|.....
T Consensus         2 p~~C~~C~k~f~~~~~   17 (26)
T 2lvu_A            2 PYVCERCGKRFVQSSQ   17 (26)
Confidence            3579999999987653

>1rik_A E6APC1 peptide; E6-binding domain, zinc finger, human papillomavirus, HPV E6 protein, de novo protein; NMR {Synthetic} SCOP: k.12.1.1 PDB: 1sp1_A 1va3_A

Probab=86.99  E-value=0.32  Score=21.70  Aligned_cols=15  Identities=33%  Similarity=0.837  Sum_probs=12.0

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|+.||..|....
T Consensus         2 ~~~C~~C~k~f~~~~   16 (29)
T 1rik_A            2 KFACPECPKRFMRSD   16 (29)
T ss_dssp             CEECSSSSCEESCSH
T ss_pred             CccCCCCCchhCCHH
Confidence            458999999997653

>2kvg_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=86.92  E-value=0.21  Score=22.59  Aligned_cols=15  Identities=13%  Similarity=0.164  Sum_probs=12.1

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|+.||..|....
T Consensus         3 ~~~C~~C~k~f~~~~   17 (27)
T 2kvg_A            3 PYRCPLCRAGCPSLA   17 (27)
T ss_dssp             TEEETTTTEEESCHH
T ss_pred             CcCCCCCCcccCCHH
Confidence            468999999997643

>2elp_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=86.80  E-value=0.38  Score=23.02  Aligned_cols=16  Identities=31%  Similarity=0.793  Sum_probs=13.2

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||..|...
T Consensus         7 ~k~~~C~~C~k~f~~~   22 (37)
T 2elp_A            7 GRAMKCPYCDFYFMKN   22 (37)
T ss_dssp             CCCEECSSSSCEECSS
T ss_pred             CCCeECCCCChhhccC
Confidence            3467999999999875

>2m0d_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}

Probab=86.68  E-value=0.33  Score=21.57  Aligned_cols=15  Identities=33%  Similarity=0.784  Sum_probs=12.0

Q ss_pred             CeeecCCCCceeeec
Q psy1181          63 GNHSCGYCGLRFFKE   77 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~   77 (82)
                      .+..|++||..|...
T Consensus         2 k~~~C~~C~~~f~~~   16 (30)
T 2m0d_A            2 KPYQCDYCGRSFSDP   16 (30)
T ss_dssp             CCEECTTTCCEESCH
T ss_pred             cCccCCCCCcccCCH
Confidence            356899999999754

>2kvf_A Zinc finger and BTB domain-containing protein 32; protein/DNA, metal-binding, transcription; NMR {Mus musculus}

Probab=86.66  E-value=0.28  Score=21.87  Aligned_cols=15  Identities=40%  Similarity=0.762  Sum_probs=12.1

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|+.||..|....
T Consensus         3 ~~~C~~C~k~f~~~~   17 (28)
T 2kvf_A            3 PYSCSVCGKRFSLKH   17 (28)
T ss_dssp             SEECSSSCCEESCHH
T ss_pred             CccCCCCCcccCCHH
Confidence            468999999997643

>1srk_A Zinc finger protein ZFPM1; classical zinc finger, transcription; NMR {Mus musculus} SCOP: g.37.1.1

Probab=86.44  E-value=0.31  Score=22.98  Aligned_cols=17  Identities=18%  Similarity=0.323  Sum_probs=13.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||..|....
T Consensus         5 ~k~~~C~~C~k~f~~~~   21 (35)
T 1srk_A            5 KRPFVCRICLSAFTTKA   21 (35)
T ss_dssp             CSCEECSSSCCEESSHH
T ss_pred             CcCeeCCCCCcccCCHH
Confidence            34679999999997643

>2elm_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=86.44  E-value=0.42  Score=23.19  Aligned_cols=17  Identities=12%  Similarity=0.231  Sum_probs=13.7

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|+.||+.|..+.
T Consensus         7 ~k~~~C~~C~k~f~~~~   23 (37)
T 2elm_A            7 GHLYYCSQCHYSSITKN   23 (37)
T ss_dssp             SCEEECSSSSCEEECHH
T ss_pred             CcCeECCCCCcccCCHH
Confidence            35689999999998653

>1fv5_A First zinc finger of U-shaped; CCHC, protein interaction, transcription; NMR {Drosophila melanogaster} SCOP: g.37.1.2 PDB: 1y0j_B 2l6z_B

Probab=86.33  E-value=0.22  Score=26.00  Aligned_cols=20  Identities=35%  Similarity=0.645  Sum_probs=15.7

Q ss_pred             cCCCCeeecCCCCceeeecC
Q psy1181          59 LDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        59 L~~~~~~~CpYCG~~y~~~~   78 (82)
                      |..+.+..|+.||+.|..+.
T Consensus         3 ~~gekp~~C~~CgK~F~~~s   22 (36)
T 1fv5_A            3 LLKPARFMCLPCGIAFSSPS   22 (36)
T ss_dssp             SSSCCCCEETTTTEECSCHH
T ss_pred             CCCccCeECCCCCCccCCHh
Confidence            34567889999999998754

>2elt_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=86.29  E-value=0.35  Score=22.86  Aligned_cols=16  Identities=13%  Similarity=0.164  Sum_probs=13.0

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||..|...
T Consensus         7 ~k~~~C~~C~k~f~~~   22 (36)
T 2elt_A            7 GKPYKCPQCSYASAIK   22 (36)
T ss_dssp             CCSEECSSSSCEESSH
T ss_pred             CCCCCCCCCCcccCCH
Confidence            3568999999999764

>2elx_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=86.24  E-value=0.32  Score=22.78  Aligned_cols=17  Identities=18%  Similarity=0.419  Sum_probs=13.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||..|....
T Consensus         5 ~k~~~C~~C~k~f~~~~   21 (35)
T 2elx_A            5 SSGYVCALCLKKFVSSI   21 (35)
T ss_dssp             CCSEECSSSCCEESSHH
T ss_pred             CCCeECCCCcchhCCHH
Confidence            34679999999997643

>2lvr_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc finger, classical zinc finger, transcription; NMR {Homo sapiens}

Probab=85.94  E-value=0.15  Score=22.96  Aligned_cols=16  Identities=19%  Similarity=0.343  Sum_probs=12.7

Q ss_pred             eeecCCCCceeeecCC
Q psy1181          64 NHSCGYCGLRFFKEDS   79 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~~   79 (82)
                      +..|++||..|.....
T Consensus         3 ~~~C~~C~k~f~~~~~   18 (30)
T 2lvr_A            3 PYVCIHCQRQFADPGA   18 (30)
Confidence            4689999999987553

>2m0e_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc fingers, transcription; NMR {Homo sapiens}

Probab=84.90  E-value=0.27  Score=21.69  Aligned_cols=15  Identities=27%  Similarity=0.678  Sum_probs=11.7

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|+.||..|....
T Consensus         2 ~~~C~~C~~~f~~~~   16 (29)
T 2m0e_A            2 EHKCPHCDKKFNQVG   16 (29)
T ss_dssp             CCCCSSCCCCCCTTT
T ss_pred             CCcCCCCCcccCCHH
Confidence            357999999997654

>2elq_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=84.87  E-value=0.42  Score=22.72  Aligned_cols=17  Identities=12%  Similarity=0.292  Sum_probs=13.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||..|....
T Consensus         7 ~k~~~C~~C~k~f~~~~   23 (36)
T 2elq_A            7 GKPFKCSLCEYATRSKS   23 (36)
T ss_dssp             CCSEECSSSSCEESCHH
T ss_pred             CCCccCCCCCchhCCHH
Confidence            34679999999997643

>1p7a_A BF3, BKLF, kruppel-like factor 3; classical zinc finger, transcription factor, DNA binding protein; NMR {Mus musculus} SCOP: g.37.1.1 PDB: 1u85_A 1u86_A

Probab=84.69  E-value=0.25  Score=23.61  Aligned_cols=16  Identities=19%  Similarity=0.395  Sum_probs=12.8

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      +.+..|++||+.|...
T Consensus         9 ~k~~~C~~C~k~f~~~   24 (37)
T 1p7a_A            9 IKPFQCPDCDRSFSRS   24 (37)
T ss_dssp             SSSBCCTTTCCCBSSH
T ss_pred             CCCccCCCCCcccCcH
Confidence            3467899999999764

>1klr_A Zinc finger Y-chromosomal protein; transcription; NMR {Synthetic} SCOP: g.37.1.1 PDB: 5znf_A 1kls_A 1xrz_A* 7znf_A

Probab=83.86  E-value=0.32  Score=21.59  Aligned_cols=14  Identities=29%  Similarity=0.709  Sum_probs=11.3

Q ss_pred             eecCCCCceeeecC
Q psy1181          65 HSCGYCGLRFFKED   78 (82)
Q Consensus        65 ~~CpYCG~~y~~~~   78 (82)
                      ..|++||..|....
T Consensus         3 ~~C~~C~k~f~~~~   16 (30)
T 1klr_A            3 YQCQYCEFRSADSS   16 (30)
T ss_dssp             CCCSSSSCCCSCSH
T ss_pred             ccCCCCCCccCCHH
Confidence            57999999997643

>2elv_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.77  E-value=0.5  Score=22.41  Aligned_cols=17  Identities=24%  Similarity=0.276  Sum_probs=13.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||..|....
T Consensus         7 ~k~~~C~~C~k~f~~~~   23 (36)
T 2elv_A            7 GLLYDCHICERKFKNEL   23 (36)
T ss_dssp             CCCEECSSSCCEESSHH
T ss_pred             CCCeECCCCCCccCCHH
Confidence            34678999999997643

>2lvt_A Zinc finger and BTB domain-containing protein 17; C2H2 zinc finger, transcription; NMR {Homo sapiens}

Probab=84.20  E-value=0.21  Score=22.49  Aligned_cols=16  Identities=31%  Similarity=0.634  Sum_probs=12.5

Q ss_pred             eeecCCCCceeeecCC
Q psy1181          64 NHSCGYCGLRFFKEDS   79 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~~   79 (82)
                      +..|++||..|.....
T Consensus         2 ~~~C~~C~k~f~~~~~   17 (29)
T 2lvt_A            2 PCQCVMCGKAFTQASS   17 (29)
Confidence            3579999999987653

>2elo_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=83.45  E-value=0.33  Score=23.17  Aligned_cols=17  Identities=24%  Similarity=0.458  Sum_probs=13.2

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus         7 ~k~~~C~~C~k~f~~~~   23 (37)
T 2elo_A            7 GRSYSCPVCEKSFSEDR   23 (37)
T ss_dssp             CCCCEETTTTEECSSHH
T ss_pred             CCCcCCCCCCCccCCHH
Confidence            34678999999997643

>1gh9_A 8.3 kDa protein (gene MTH1184); beta+alpha complex structure, structural genomics, PSI, protein structure initiative; NMR {Methanothermobacterthermautotrophicus} SCOP: g.41.6.1

Probab=83.05  E-value=1.8  Score=26.33  Aligned_cols=31  Identities=23%  Similarity=0.508  Sum_probs=21.1

Q ss_pred             eEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecC
Q psy1181          40 VVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        40 ~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~   78 (82)
                      +|.|+ = +.+     |+-=+......|| ||.++..+.
T Consensus         4 vv~C~-C-~~~-----~~~~~~~kT~~C~-CG~~~~~~k   34 (71)
T 1gh9_A            4 IFRCD-C-GRA-----LYSREGAKTRKCV-CGRTVNVKD   34 (71)
T ss_dssp             EEEET-T-SCC-----EEEETTCSEEEET-TTEEEECCS
T ss_pred             EEECC-C-CCE-----EEEcCCCcEEECC-CCCeeeece
Confidence            68887 3 333     4443445789999 999987654

>1znf_A 31ST zinc finger from XFIN; zinc finger DNA binding domain; NMR {Xenopus laevis} SCOP: g.37.1.1

Probab=82.99  E-value=0.3  Score=21.50  Aligned_cols=13  Identities=31%  Similarity=0.866  Sum_probs=10.7

Q ss_pred             eecCCCCceeeec
Q psy1181          65 HSCGYCGLRFFKE   77 (82)
Q Consensus        65 ~~CpYCG~~y~~~   77 (82)
                      ..|++||+.|...
T Consensus         2 ~~C~~C~k~f~~~   14 (27)
T 1znf_A            2 YKCGLCERSFVEK   14 (27)
T ss_dssp             CBCSSSCCBCSSH
T ss_pred             ccCCCCCCcCCCH
Confidence            4699999999764

>2yu5_A Zinc finger protein 473; ZF-C2H2 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=82.43  E-value=0.69  Score=22.97  Aligned_cols=17  Identities=18%  Similarity=0.493  Sum_probs=13.7

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (44)
T 2yu5_A           10 ENPFKCSKCDRVFTQRN   26 (44)
T ss_dssp             CCSEECSSSSCEESSSH
T ss_pred             CCCeECCCCCchhCCHH
Confidence            35689999999998653

>1vd4_A Transcription initiation factor IIE, alpha subunit; zinc finger; NMR {Homo sapiens} SCOP: g.41.3.1

Probab=82.21  E-value=0.86  Score=24.93  Aligned_cols=18  Identities=22%  Similarity=0.678  Sum_probs=14.7

Q ss_pred             CCeeecCCCCceeeecCC
Q psy1181          62 PGNHSCGYCGLRFFKEDS   79 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~~   79 (82)
                      +.+..|++||..|.....
T Consensus        37 ~k~~~C~~C~k~f~~~~~   54 (62)
T 1vd4_A           37 TGTFRCTFCHTEVEEDES   54 (62)
T ss_dssp             TTEEBCSSSCCBCEECTT
T ss_pred             CCCEECCCCCCccccCcc
Confidence            467899999999987764

>2ept_A Zinc finger protein 32; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.94  E-value=0.64  Score=22.75  Aligned_cols=17  Identities=24%  Similarity=0.487  Sum_probs=13.4

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus         8 ~k~~~C~~C~k~f~~~~   24 (41)
T 2ept_A            8 QRVYECQECGKSFRQKG   24 (41)
T ss_dssp             CCCEECSSSCCEESSHH
T ss_pred             CCCeECCCCCCCcCCHH
Confidence            35679999999997643

>2en2_A B-cell lymphoma 6 protein; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.84  E-value=0.55  Score=23.05  Aligned_cols=17  Identities=29%  Similarity=0.632  Sum_probs=13.4

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus         9 ~k~~~C~~C~k~f~~~~   25 (42)
T 2en2_A            9 EKPYKCETCGARFVQVA   25 (42)
T ss_dssp             SCSEECTTTCCEESSHH
T ss_pred             CCCEeCCCcChhhCCHH
Confidence            35689999999997643

>1ard_A Yeast transcription factor ADR1; transcription regulation; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1 PDB: 1arf_A 1are_A

Probab=81.75  E-value=0.35  Score=21.44  Aligned_cols=14  Identities=21%  Similarity=0.622  Sum_probs=11.2

Q ss_pred             eeecCCCCceeeec
Q psy1181          64 NHSCGYCGLRFFKE   77 (82)
Q Consensus        64 ~~~CpYCG~~y~~~   77 (82)
                      +..|+.||..|...
T Consensus         2 ~~~C~~C~~~f~~~   15 (29)
T 1ard_A            2 SFVCEVCTRAFARQ   15 (29)
T ss_dssp             CCBCTTTCCBCSSH
T ss_pred             CeECCCCCcccCCH
Confidence            35799999999764

>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1

Probab=81.74  E-value=1.2  Score=24.41  Aligned_cols=34  Identities=18%  Similarity=0.388  Sum_probs=21.5

Q ss_pred             ceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeec
Q psy1181          39 RVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKE   77 (82)
Q Consensus        39 r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~   77 (82)
                      ..+.|+.-++   -+.+|-.  ..+...|++||+.|...
T Consensus         4 ~~~~CP~C~~---~~l~~d~--~~gelvC~~CG~v~~e~   37 (50)
T 1pft_A            4 KQKVCPACES---AELIYDP--ERGEIVCAKCGYVIEEN   37 (50)
T ss_dssp             SCCSCTTTSC---CCEEEET--TTTEEEESSSCCBCCCC
T ss_pred             ccEeCcCCCC---cceEEcC--CCCeEECcccCCccccc
Confidence            3456765432   1445522  35889999999998643

>2eox_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.69  E-value=0.66  Score=23.05  Aligned_cols=17  Identities=24%  Similarity=0.467  Sum_probs=13.7

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus        10 ~~~~~C~~C~k~F~~~~   26 (44)
T 2eox_A           10 SKSYNCNECGKAFTRIF   26 (44)
T ss_dssp             CCCEEETTTTEEESSSH
T ss_pred             CCCeECcccCcccCCHH
Confidence            35689999999998754

>1njq_A Superman protein; zinc-finger, peptide-zinc complex, beta-BETA-ALFA motif, metal binding protein; NMR {Synthetic} SCOP: g.37.1.3 PDB: 2l1o_A

Probab=81.65  E-value=0.57  Score=22.78  Aligned_cols=17  Identities=24%  Similarity=0.729  Sum_probs=13.2

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||..|....
T Consensus         4 ~k~~~C~~C~k~f~~~~   20 (39)
T 1njq_A            4 PRSYTCSFCKREFRSAQ   20 (39)
T ss_dssp             SSSEECTTTCCEESSHH
T ss_pred             CCceECCCCCcccCCHH
Confidence            34679999999997643

>2el5_A Zinc finger protein 268; alternative splicing, DNA-binding, metal-binding, nuclear protein, repeat, transcription, transcription regulation; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2eol_A 2emv_A 2eqw_A 2en0_A 2epy_A

Probab=81.51  E-value=0.62  Score=22.84  Aligned_cols=17  Identities=29%  Similarity=0.669  Sum_probs=13.4

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus         8 ~k~~~C~~C~k~f~~~~   24 (42)
T 2el5_A            8 ENPYECSECGKAFNRKD   24 (42)
T ss_dssp             CCSEECSSSCCEESSHH
T ss_pred             CCCccCCCcChhhCCHH
Confidence            35679999999997653

>2emi_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.46  E-value=0.65  Score=23.31  Aligned_cols=16  Identities=25%  Similarity=0.688  Sum_probs=13.0

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||+.|...
T Consensus        10 ~~~~~C~~C~k~F~~~   25 (46)
T 2emi_A           10 ERHYECSECGKAFIQK   25 (46)
T ss_dssp             CCCEECSSSCCEESSH
T ss_pred             CCCCCCCCCCcccCCH
Confidence            3568999999999764

>2en3_A ZFP-95, zinc finger protein 95 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.33  E-value=0.79  Score=22.98  Aligned_cols=17  Identities=24%  Similarity=0.475  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~F~~~~   26 (46)
T 2en3_A           10 EKPFQCKECGMNFSWSC   26 (46)
T ss_dssp             CCSEECSSSCCEESSSH
T ss_pred             CCCeeCcccChhhCCHH
Confidence            35689999999997653

>2epc_A Zinc finger protein 32; zinc finger domain, C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2yta_A

Probab=81.31  E-value=0.72  Score=22.52  Aligned_cols=16  Identities=31%  Similarity=0.669  Sum_probs=13.0

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      +.+..|++||+.|...
T Consensus         9 ~~~~~C~~C~k~f~~~   24 (42)
T 2epc_A            9 ETPYLCGQCGKSFTQR   24 (42)
T ss_dssp             SCCEECSSSCCEESSH
T ss_pred             CCCeECCCCCcccCCH
Confidence            3568999999999764

>2epv_A Zinc finger protein 268; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.29  E-value=0.66  Score=23.23  Aligned_cols=16  Identities=25%  Similarity=0.538  Sum_probs=13.1

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||+.|...
T Consensus        10 ~k~~~C~~C~k~F~~~   25 (44)
T 2epv_A           10 EKPYECNECGKAFIWK   25 (44)
T ss_dssp             CCSEECSSSCCEESSH
T ss_pred             CcCeECCCCCcccCch
Confidence            3568999999999764

>2yrj_A Zinc finger protein 473; C2H2-type zinc finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=81.15  E-value=0.7  Score=23.10  Aligned_cols=16  Identities=31%  Similarity=0.694  Sum_probs=13.1

Q ss_pred             CCeeecCCCCceeeec
Q psy1181          62 PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~   77 (82)
                      ..+..|++||+.|...
T Consensus        10 ~~~~~C~~C~k~f~~~   25 (46)
T 2yrj_A           10 EKPYRCGECGKAFAQK   25 (46)
T ss_dssp             CCCEECSSSCCEESSH
T ss_pred             CCCeECCCCCCccCCH
Confidence            3568999999999764

>2eoy_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=81.10  E-value=0.82  Score=22.98  Aligned_cols=17  Identities=18%  Similarity=0.333  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|+.||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (46)
T 2eoy_A           10 EKCFKCNKCEKTFSCSK   26 (46)
T ss_dssp             SCCEECSSSCCEESSSH
T ss_pred             CCCEECcCCCCcCCCHH
Confidence            35689999999997653

>1paa_A Yeast transcription factor ADR1; transcription regulation; NMR {Saccharomyces cerevisiae} SCOP: g.37.1.1

Probab=80.87  E-value=0.47  Score=21.26  Aligned_cols=15  Identities=33%  Similarity=0.853  Sum_probs=11.6

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|+.||..|....
T Consensus         2 ~~~C~~C~k~f~~~~   16 (30)
T 1paa_A            2 AYACGLCNRAFTRRD   16 (30)
T ss_dssp             CSBCTTTCCBCSSSH
T ss_pred             CcCCcccCcccCChH
Confidence            357999999997643

>2eoz_A Zinc finger protein 473; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.79  E-value=0.56  Score=23.64  Aligned_cols=17  Identities=29%  Similarity=0.561  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (46)
T 2eoz_A           10 EKPYSCNVCGKAFVLSA   26 (46)
T ss_dssp             CCSEEETTTTEEESSHH
T ss_pred             CCCeECcccChhhCCHH
Confidence            35689999999997653

>2epw_A Zinc finger protein 268; C2H2, zinc finger domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.50  E-value=0.88  Score=22.71  Aligned_cols=17  Identities=24%  Similarity=0.468  Sum_probs=13.6

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~F~~~~   26 (46)
T 2epw_A           10 EKPCKCTECGKAFCWKS   26 (46)
T ss_dssp             CCSEECSSSCCEESSSH
T ss_pred             CCCeeCCCCCCccCCHH
Confidence            35689999999998654

>2elr_A Zinc finger protein 406; ZFAT zinc finger 1, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=80.50  E-value=0.5  Score=22.27  Aligned_cols=15  Identities=33%  Similarity=0.853  Sum_probs=12.4

Q ss_pred             CeeecCCCCceeeec
Q psy1181          63 GNHSCGYCGLRFFKE   77 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~   77 (82)
                      .+..|+.||+.|...
T Consensus         8 ~~~~C~~C~k~f~~~   22 (36)
T 2elr_A            8 KTHLCDMCGKKFKSK   22 (36)
T ss_dssp             SSCBCTTTCCBCSSH
T ss_pred             CCeecCcCCCCcCch
Confidence            457899999999764

>2eow_A Zinc finger protein 347; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.46  E-value=0.74  Score=23.01  Aligned_cols=17  Identities=24%  Similarity=0.477  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (46)
T 2eow_A           10 EKPYKCNECGKAFRARS   26 (46)
T ss_dssp             CCCEECTTSCCEESSHH
T ss_pred             CCCeeccccCChhcCHH
Confidence            45689999999997643

>2emj_A Zinc finger protein 28 homolog; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1 PDB: 2eoi_A

Probab=80.40  E-value=0.74  Score=23.16  Aligned_cols=17  Identities=24%  Similarity=0.501  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~F~~~~   26 (46)
T 2emj_A           10 EKPFECAECGKSFSISS   26 (46)
T ss_dssp             CCSEECSSSSCEESSHH
T ss_pred             CCCEECCCCCcccCCHH
Confidence            35689999999997643

>2ytp_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.35  E-value=0.77  Score=23.09  Aligned_cols=17  Identities=24%  Similarity=0.616  Sum_probs=13.4

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~F~~~~   26 (46)
T 2ytp_A           10 ERHYECSECGKAFARKS   26 (46)
T ss_dssp             CCCEECSSSCCEESSHH
T ss_pred             CCCeECCcCCcccCCHH
Confidence            35689999999997643

>2eof_A Zinc finger protein 268; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.35  E-value=0.72  Score=22.74  Aligned_cols=17  Identities=18%  Similarity=0.358  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (44)
T 2eof_A           10 EKPYECNECQKAFNTKS   26 (44)
T ss_dssp             CCSEECTTTCCEESCHH
T ss_pred             CCCeECCCCCcccCCHh
Confidence            35689999999997653

>2yts_A Zinc finger protein 484; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: k.12.1.1

Probab=80.18  E-value=0.79  Score=22.88  Aligned_cols=17  Identities=24%  Similarity=0.583  Sum_probs=13.5

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      ..+..|++||+.|....
T Consensus        10 ~k~~~C~~C~k~f~~~~   26 (46)
T 2yts_A           10 EKPYICNECGKSFIQKS   26 (46)
T ss_dssp             CCSEECSSSCCEESSHH
T ss_pred             CcCEECCCCChhhCChH
Confidence            35689999999997643

>3h0g_L DNA-directed RNA polymerases I, II, and III subunit rpabc4; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}

Probab=80.02  E-value=0.5  Score=28.41  Aligned_cols=20  Identities=20%  Similarity=0.398  Sum_probs=14.6

Q ss_pred             cCCCCeeecCCCCceeeecC
Q psy1181          59 LDKPGNHSCGYCGLRFFKED   78 (82)
Q Consensus        59 L~~~~~~~CpYCG~~y~~~~   78 (82)
                      |+....++|||||-+..++.
T Consensus        33 l~~~~~iRC~~CG~RILyK~   52 (63)
T 3h0g_L           33 IQAKEVIRCRECGHRVMYKM   52 (63)
T ss_dssp             CCSSSCCCCSSSCCCCCBCC
T ss_pred             cCCCCceECCCCCcEEEEEe
Confidence            44456799999998876553

---

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	Length	Definition	Probability
Query	82
d1v54f_	98	Cytochrome c oxidase Subunit F {Cow (Bos taurus) [	98.77
d1wjpa2	26	Zinc finger protein 295, ZNF295 {Human (Homo sapie	96.05
d2ct1a2	36	Transcriptional repressor CTCF {Human (Homo sapien	91.54
d1a1ia2	28	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	90.1
d2epqa1	32	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	89.31
d1x6ea1	33	Zinc finger protein 24 {Human (Homo sapiens) [TaxI	89.17
d2adra1	29	ADR1 {Synthetic, based on Saccharomyces cerevisiae	89.04
d1srka_	35	Zinc finger protein ZFPM1 (FOG-1) {Mouse (Mus musc	88.96
d1x6ha2	36	Transcriptional repressor CTCF {Human (Homo sapien	85.8
d2cota2	38	Zinc finger and SCAN domain-containing protein 16,	85.48
d1x6ea2	26	Zinc finger protein 24 {Human (Homo sapiens) [TaxI	85.2
d1sp1a_	29	Transcription factor sp1 {Human (Homo sapiens) [Ta	85.2
d1vq0a2	57	HSP33, C-terminal domain {Thermotoga maritima [Tax	83.39
d1xjha_	62	HSP33, C-terminal domain {Escherichia coli [TaxId:	82.83
d1ncsa_	47	SWI5 zinc-finger domains {Baker's yeast (Saccharom	82.12
d1vzya2	57	HSP33, C-terminal domain {Bacillus subtilis [TaxId	81.48
d1p7aa_	37	Kruppel-like factor 3, Bklf {Mouse (Mus musculus)	81.32
d1a1ia3	28	ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}	80.78
d2epsa1	39	PATZ1 {Human (Homo sapiens) [TaxId: 9606]}	80.72
d1pg5b2	56	Aspartate carbamoyltransferase, Regulatory-chain,	80.72

>d1v54f_ g.41.5.3 (F:) Cytochrome c oxidase Subunit F {Cow (Bos taurus) [TaxId: 9913]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Cytochrome c oxidase Subunit F
domain: Cytochrome c oxidase Subunit F
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.77  E-value=2.5e-09  Score=68.84  Aligned_cols=52  Identities=19%  Similarity=0.298  Sum_probs=43.0

Q ss_pred             hhcCCCee---ecCceEeeCCCCCCCCCCeEEEEcCCCCeeecCCCCceeeecCCCC
Q psy1181          28 IAEVPPKP---CKERVVWCDGGSGPTGHPKVYINLDKPGNHSCGYCGLRFFKEDSHH   81 (82)
Q Consensus        28 i~e~P~i~---v~~r~v~C~Gg~~~lgHP~Vyi~L~~~~~~~CpYCG~~y~~~~~~~   81 (82)
                      +.+-|.+.   .+.|+|.|.+  ++.+|..+|+.|.+..+.+|+.||..|+|..++|
T Consensus        42 Tke~P~lVpS~~~~RiVGC~~--~~D~h~v~W~~l~~g~p~RC~eCG~~fkL~~~~~   96 (98)
T d1v54f_          42 TKEDPNLVPSITNKRIVGCIC--EEDNSTVIWFWLHKGEAQRCPSCGTHYKLVPHQL   96 (98)
T ss_dssp             CSSSCEEEECSSSEEEEEECC--STTCSCCEEEEEESSSCEECTTTCCEEEEECCCS
T ss_pred             CCcCCcEecCCCCceEEeecC--CCCCceeEEEEEeCCCCcccCCCCcEEEEeeccC
Confidence            44555542   3699999997  5789999999999999999999999999997643

>d1wjpa2 g.37.1.1 (A:43-66) Zinc finger protein 295, ZNF295 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 295, ZNF295
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.05  E-value=0.00074  Score=33.40  Aligned_cols=13  Identities=54%  Similarity=1.283  Sum_probs=10.5

Q ss_pred             eecCCCCceeeec
Q psy1181          65 HSCGYCGLRFFKE   77 (82)
Q Consensus        65 ~~CpYCG~~y~~~   77 (82)
                      +.||||+++|..-
T Consensus         1 avcpycslrf~sp   13 (26)
T d1wjpa2           1 AVCPYCSLRFFSP   13 (26)
T ss_dssp             BCCTTTCCCBSSH
T ss_pred             CCCCcceeeeCCH
Confidence            3699999999653

>d2ct1a2 g.37.1.1 (A:8-43) Transcriptional repressor CTCF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcriptional repressor CTCF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.54  E-value=0.026  Score=28.98  Aligned_cols=17  Identities=24%  Similarity=0.442  Sum_probs=14.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|++||+.|..++
T Consensus         6 ekP~~C~~C~k~F~~~~   22 (36)
T d2ct1a2           6 EKPYECYICHARFTQSG   22 (36)
T ss_dssp             CCSEECTTTCCEESCHH
T ss_pred             CCCEeCCCCcccccchH
Confidence            46789999999998764

>d1a1ia2 g.37.1.1 (A:132-159) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.10  E-value=0.03  Score=27.56  Aligned_cols=16  Identities=25%  Similarity=0.538  Sum_probs=13.4

Q ss_pred             CeeecCCCCceeeecC
Q psy1181          63 GNHSCGYCGLRFFKED   78 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~~   78 (82)
                      .+-.|++||+.|..+.
T Consensus         2 KPy~C~~C~k~F~~~~   17 (28)
T d1a1ia2           2 KPFQCRICMRNFSRSD   17 (28)
T ss_dssp             CCEECTTTCCEESCHH
T ss_pred             cCccCCCCcCEecccc
Confidence            4678999999998764

>d2epqa1 g.37.1.1 (A:380-411) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.31  E-value=0.032  Score=28.45  Aligned_cols=16  Identities=50%  Similarity=0.955  Sum_probs=13.5

Q ss_pred             CeeecCCCCceeeecC
Q psy1181          63 GNHSCGYCGLRFFKED   78 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~~   78 (82)
                      .+-.||.|+++|+.++
T Consensus         2 kp~~cpic~qrfkrkd   17 (32)
T d2epqa1           2 KPYSCPVCGLRFKRKD   17 (32)
T ss_dssp             CSSEETTTTEECSCHH
T ss_pred             CCcccchHHHHhhccc
Confidence            4568999999999875

>d1x6ea1 g.37.1.1 (A:8-40) Zinc finger protein 24 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 24
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.17  E-value=0.077  Score=26.80  Aligned_cols=17  Identities=24%  Similarity=0.475  Sum_probs=14.3

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|++||+.|....
T Consensus         5 ekpy~C~~Cgk~F~~~~   21 (33)
T d1x6ea1           5 EKPYGCVECGKAFSRSS   21 (33)
T ss_dssp             CCCEECSSSCCEESSHH
T ss_pred             CCCeeCCCCCCEeCchH
Confidence            46789999999998754

>d2adra1 g.37.1.1 (A:102-130) ADR1 {Synthetic, based on Saccharomyces cerevisiae sequence}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ADR1
species: Synthetic, based on Saccharomyces cerevisiae sequence

Probab=89.04  E-value=0.025  Score=27.88  Aligned_cols=15  Identities=20%  Similarity=0.640  Sum_probs=12.4

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +..|++||+.|....
T Consensus         2 p~~C~~C~k~F~~~~   16 (29)
T d2adra1           2 SFVCEVCTRAFARQE   16 (29)
T ss_dssp             CBCCTTTCCCBSCHH
T ss_pred             cCCCCCCCCCCCCch
Confidence            467999999998764

>d1srka_ g.37.1.1 (A:) Zinc finger protein ZFPM1 (FOG-1) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein ZFPM1 (FOG-1)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.96  E-value=0.079  Score=27.08  Aligned_cols=17  Identities=18%  Similarity=0.323  Sum_probs=14.2

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|++||+.|..+.
T Consensus         5 ekPy~C~~C~k~F~~~~   21 (35)
T d1srka_           5 KRPFVCRICLSAFTTKA   21 (35)
T ss_dssp             CSCEECSSSCCEESSHH
T ss_pred             CccccCCCCCCcccChH
Confidence            45789999999998754

>d1x6ha2 g.37.1.1 (A:8-43) Transcriptional repressor CTCF {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcriptional repressor CTCF
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.80  E-value=0.16  Score=25.66  Aligned_cols=17  Identities=18%  Similarity=0.448  Sum_probs=14.2

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|.+||+.|..+.
T Consensus         6 ekPy~C~~C~k~F~~~~   22 (36)
T d1x6ha2           6 EKPYACSHCDKTFRQKQ   22 (36)
T ss_dssp             CCCEECSSSSCEESSHH
T ss_pred             CCCEECCCCCCCcCCHh
Confidence            46789999999998764

>d2cota2 g.37.1.1 (A:7-44) Zinc finger and SCAN domain-containing protein 16, ZSCAN16 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger and SCAN domain-containing protein 16, ZSCAN16
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.48  E-value=0.11  Score=26.50  Aligned_cols=17  Identities=24%  Similarity=0.520  Sum_probs=13.8

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|++||+.|....
T Consensus        10 ekpy~C~~CgK~F~~~s   26 (38)
T d2cota2          10 RRRYKCDECGKSFSHSS   26 (38)
T ss_dssp             SCSSBCSSSCCBCSCHH
T ss_pred             CCCEecCCCCceeeCHH
Confidence            45789999999998653

>d1x6ea2 g.37.1.1 (A:41-66) Zinc finger protein 24 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Zinc finger protein 24
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.20  E-value=0.16  Score=24.59  Aligned_cols=15  Identities=27%  Similarity=0.532  Sum_probs=12.2

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +-.|..||+.|....
T Consensus         2 Py~C~eCgK~F~~~s   16 (26)
T d1x6ea2           2 PYKCLECGKAFSQNS   16 (26)
T ss_dssp             CEECSSSCCEESSHH
T ss_pred             CccCCCCcCeeccCc
Confidence            568999999997653

>d1sp1a_ g.37.1.1 (A:) Transcription factor sp1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Transcription factor sp1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.20  E-value=0.11  Score=25.51  Aligned_cols=15  Identities=33%  Similarity=0.837  Sum_probs=12.4

Q ss_pred             eeecCCCCceeeecC
Q psy1181          64 NHSCGYCGLRFFKED   78 (82)
Q Consensus        64 ~~~CpYCG~~y~~~~   78 (82)
                      +-.|++||+.|.+..
T Consensus         2 py~C~~C~k~F~~~s   16 (29)
T d1sp1a_           2 KFACPECPKRFMRSD   16 (29)
T ss_dssp             CSCCTTTTCCCSCSH
T ss_pred             CEECCcCCCeecchH
Confidence            357999999998765

>d1vq0a2 g.81.1.1 (A:231-287) HSP33, C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Small proteins
fold: HSP33 redox switch-like
superfamily: HSP33 redox switch-like
family: HSP33 redox switch-like
domain: HSP33, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=83.39  E-value=0.29  Score=26.93  Aligned_cols=14  Identities=21%  Similarity=0.710  Sum_probs=12.4

Q ss_pred             eeecCCCCceeeec
Q psy1181          64 NHSCGYCGLRFFKE   77 (82)
Q Consensus        64 ~~~CpYCG~~y~~~   77 (82)
                      .++|.|||+.|...
T Consensus        30 ev~C~FC~~~Y~f~   43 (57)
T d1vq0a2          30 EVVCKWCNTRYVFS   43 (57)
T ss_dssp             EEECTTTCCEEEEC
T ss_pred             EEEeECCCCEEEEC
Confidence            58999999999875

>d1xjha_ g.81.1.1 (A:) HSP33, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Small proteins
fold: HSP33 redox switch-like
superfamily: HSP33 redox switch-like
family: HSP33 redox switch-like
domain: HSP33, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.83  E-value=0.28  Score=27.25  Aligned_cols=14  Identities=29%  Similarity=0.963  Sum_probs=12.2

Q ss_pred             eeecCCCCceeeec
Q psy1181          64 NHSCGYCGLRFFKE   77 (82)
Q Consensus        64 ~~~CpYCG~~y~~~   77 (82)
                      .+.|.|||+.|...
T Consensus        37 ev~C~fC~~~Y~f~   50 (62)
T d1xjha_          37 DMHCDYCGNHYLFN   50 (62)
T ss_dssp             EEECTTTCCEEEEE
T ss_pred             EEEeeCCCCEEEEC
Confidence            57999999999875

>d1ncsa_ g.37.1.1 (A:) SWI5 zinc-finger domains {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: SWI5 zinc-finger domains
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.12  E-value=0.4  Score=25.53  Aligned_cols=20  Identities=15%  Similarity=0.341  Sum_probs=16.3

Q ss_pred             CCCCeeecCC--CCceeeecCC
Q psy1181          60 DKPGNHSCGY--CGLRFFKEDS   79 (82)
Q Consensus        60 ~~~~~~~CpY--CG~~y~~~~~   79 (82)
                      ..+.+..|+|  ||+.|....+
T Consensus        14 ~gekpy~C~~~~C~k~F~~~~~   35 (47)
T d1ncsa_          14 MPDKTFECLFPGCTKTFKRRYN   35 (47)
T ss_dssp             ETTTEEECCCTTCCCEECSSSS
T ss_pred             cCCCCeECCcCCCCccccCchH
Confidence            3567899999  9999987764

>d1vzya2 g.81.1.1 (A:234-290) HSP33, C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Small proteins
fold: HSP33 redox switch-like
superfamily: HSP33 redox switch-like
family: HSP33 redox switch-like
domain: HSP33, C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=81.48  E-value=0.34  Score=26.50  Aligned_cols=14  Identities=14%  Similarity=0.710  Sum_probs=12.1

Q ss_pred             eeecCCCCceeeec
Q psy1181          64 NHSCGYCGLRFFKE   77 (82)
Q Consensus        64 ~~~CpYCG~~y~~~   77 (82)
                      .++|.|||+.|...
T Consensus        32 ev~C~fC~~~Y~f~   45 (57)
T d1vzya2          32 EAVCHFCNEKYLFT   45 (57)
T ss_dssp             EEECTTTCCEEEEE
T ss_pred             EEEeeCCCCEEEEC
Confidence            47999999999865

>d1p7aa_ g.37.1.1 (A:) Kruppel-like factor 3, Bklf {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: Kruppel-like factor 3, Bklf
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.32  E-value=0.19  Score=25.48  Aligned_cols=17  Identities=24%  Similarity=0.464  Sum_probs=14.1

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|+.||..|..+.
T Consensus         9 eKPy~C~~C~k~F~~~~   25 (37)
T d1p7aa_           9 IKPFQCPDCDRSFSRSD   25 (37)
T ss_dssp             SSSBCCTTTCCCBSSHH
T ss_pred             ccCeEeCCCCCEecCHH
Confidence            45789999999998764

>d1a1ia3 g.37.1.1 (A:160-187) ZIF268 {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: ZIF268
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.78  E-value=0.23  Score=24.54  Aligned_cols=16  Identities=31%  Similarity=0.850  Sum_probs=13.3

Q ss_pred             CeeecCCCCceeeecC
Q psy1181          63 GNHSCGYCGLRFFKED   78 (82)
Q Consensus        63 ~~~~CpYCG~~y~~~~   78 (82)
                      .+-.|..||++|...+
T Consensus         2 kPf~C~~CgrkFArsd   17 (28)
T d1a1ia3           2 KPFACDICGRKFARSD   17 (28)
T ss_dssp             CCEECTTTCCEESSHH
T ss_pred             CCcccchhhhhhhcch
Confidence            4678999999998754

>d2epsa1 g.37.1.1 (A:408-446) PATZ1 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: Classic zinc finger, C2H2
domain: PATZ1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.72  E-value=0.3  Score=25.25  Aligned_cols=17  Identities=29%  Similarity=0.532  Sum_probs=13.8

Q ss_pred             CCeeecCCCCceeeecC
Q psy1181          62 PGNHSCGYCGLRFFKED   78 (82)
Q Consensus        62 ~~~~~CpYCG~~y~~~~   78 (82)
                      +.+-.|.+||+.|....
T Consensus         3 ~Kpy~C~~Cgk~F~~~~   19 (39)
T d2epsa1           3 GKPYICQSCGKGFSRPD   19 (39)
T ss_dssp             SCCEECSSSCCEESSHH
T ss_pred             CCCccCCCCCCCcCChH
Confidence            35789999999998654

>d1pg5b2 g.41.7.1 (B:105-160) Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
family: Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
domain: Aspartate carbamoyltransferase, Regulatory-chain, C-terminal domain
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=80.72  E-value=0.51  Score=26.23  Aligned_cols=22  Identities=23%  Similarity=0.535  Sum_probs=15.8

Q ss_pred             EEEcCC-CCeeecCCCCceeeec
Q psy1181          56 YINLDK-PGNHSCGYCGLRFFKE   77 (82)
Q Consensus        56 yi~L~~-~~~~~CpYCG~~y~~~   77 (82)
                      |.-+++ +...+|-|||+.+..+
T Consensus        26 F~v~~~~~~~lrC~YCe~~~~~~   48 (56)
T d1pg5b2          26 FKTLTEKPLKMRCEYCETIIDEN   48 (56)
T ss_dssp             EEEEETTTTEEEETTTCCEEEHH
T ss_pred             EEEEeCCCCEEEeeCCCCEecHH
Confidence            433554 4678999999998754