Citrus Sinensis ID: 037462

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-----
Protein Sequence
MCSNSTSKNSTESRDSAGQEIKATVEKESVKANKTAVVLEQKVEGGQDEHLRGEKHKAKENVGGEEDSENKNEELPKKKALNAITQKTTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPTENVEDEDAVAQE
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHcccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccEEEEccccccccHHHHHHHHHHcHHHHHHHHcccccccccccccccccccccccccccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccHHHHHHHHHHHHHHHHccHcHHccccccccccccEccccccccccccccccccccccEHHHHcccccHcHcccccccccccccccccHccccEEEEEEHEcccHHHHHHHHcHccHHHHHHHHHHcccccccccccccccccccccccccccHHccccc
Coil and Loop (DISEMBL)
mcsnstsknstesRDSAGQEIKATVEKESVKANKTAVVLEQkveggqdehlrgekhkakenvggeedsenkneelpkkKALNAITQkttngiptggtmrrklplrenFEFWCEVFQVGTQSAVVMEGhkrgkkhmarsngsrknneavplttrttivtpseptenvededavaqe
Flexible Loop (DISEMBL)
mcsnstsknstesrdsagQEIKAtvekesvkanktAVVLEqkveggqdehlrgekhkakenvggeedsenkneelpkkkalnaitqkttngiptggtmrRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKkhmarsngsrknneavplttrttivtpseptenvededavaqe
Low Complexity Region (SEG)
MCSNSTSKNSTESRDSAGQEIKATVEKESVKANKTAVVLEQKVEGGQDEHLRGEKHKAKENVGGEEDSENKNEELPKKKALNAITQKTTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPTENVEDEDAVAQE
Disordered region (IsUnstruct)
***************************************************************************************************RKLPLRENFEFWCEVFQVGTQSAVV***************************************************
Disordered Region (DISOPRED)
***********************************************************************************************************FEFWCEVFQVGTQSAVVMEG************************************************
Disordered Region (DISEMBL)
********************IKATVEKESVKANKTAVVLEQKVEGGQDEHLR**********************LPKKKALNAITQKTTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVM*******************NEAVPLTTRTTIVTPS***************
Disordered Region (DISPRO)
***************S*GQEIKATVEKESVKANKTAVVLE**************************************************************PLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNG***********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MCSNSTSKNSTESRDSAGQEIKATVEKESVKANKTAVVLEQKVEGGQDEHLRGEKHKAKENVGGEEDSENKNEELPKKKALNAITQKTTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPTENVEDEDAVAQE
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

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	175
224091795	291	predicted protein [Populus trichocarpa]	0.714	0.429	0.321	8e-10
255577041	423	hypothetical protein RCOM_0623850 [Ricin	0.188	0.078	0.545	7e-05
297825315	456	predicted protein [Arabidopsis lyrata su	0.445	0.171	0.326	0.0002
91806258	261	unknown [Arabidopsis thaliana]	0.337	0.226	0.389	0.0007

>gi|224091795|ref|XP_002309354.1| predicted protein [Populus trichocarpa] gi|222855330|gb|EEE92877.1| predicted protein [Populus trichocarpa]

 Score = 68.9 bits (167), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 46/143 (32%), Positives = 78/143 (54%), Gaps = 18/143 (12%)

Query: 6   TSKNSTESRDSAGQEIKATVEKESVKANKTAVVLEQKVEGGQDEHLRGEKHKAKENVGGE 65
           T+K +  +  +AG E++A +E ES++ NK+     +K+E  ++   RG ++  +      
Sbjct: 89  TTKTAKVTIPTAGLEMEAKIEDESLQLNKSDNFSNKKIENKEE---RGNRNDVQ------ 139

Query: 66  EDSENKNEELPKKKALNAITQKTTNGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVM 125
              E KN++L       A   +T    P       ++ +++ F+FWCE+ Q+G  S +VM
Sbjct: 140 --LEQKNQQLEDLNKSMAEAVQTKERTP-------EIKMKKKFKFWCEMCQIGAYSEMVM 190

Query: 126 EGHKRGKKHMARSNGSRKNNEAV 148
           E HK+GKKH+AR   S +N EAV
Sbjct: 191 EAHKKGKKHLARLQKSSQNGEAV 213

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577041|ref|XP_002529405.1| hypothetical protein RCOM_0623850 [Ricinus communis] gi|223531153|gb|EEF33001.1| hypothetical protein RCOM_0623850 [Ricinus communis]

 Score = 52.4 bits (124), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 18/33 (54%), Positives = 28/33 (84%)

Query: 104 LRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMA 136
           +++ F+FWCE+ ++G  SAVVME H++GKKH+A
Sbjct: 337 MKKKFKFWCEMCRIGAYSAVVMEAHEKGKKHLA 369

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297825315|ref|XP_002880540.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297326379|gb|EFH56799.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score = 51.2 bits (121), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 32/98 (32%), Positives = 48/98 (48%), Gaps = 20/98 (20%)

Query: 53  GEKHKAKENVGGEEDSENKNEELPKKKALNAITQKTTNGIPTGGTMRRKLP--------- 103
           GEK KA++   G       NE+L  K+  +  ++  T  + +G  +  KLP         
Sbjct: 231 GEKRKAEDTQTG------LNEDLQMKRQKSKESEAKTMSLESGEIVSSKLPCLGKLGCGK 284

Query: 104 -----LRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMA 136
                +R N++FWCE+ +VGT    VM  H+ GKKH A
Sbjct: 285 KVEIKVRSNYKFWCEICKVGTYCQTVMRDHELGKKHKA 322

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|91806258|gb|ABE65857.1| unknown [Arabidopsis thaliana]

 Score = 48.9 bits (115), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/59 (38%), Positives = 31/59 (52%)

Query: 104 LRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEP 162
           LR N +FWCE+ +VGT   +VM  H+ GKKH A      +  EA   +     VT  +P
Sbjct: 94  LRTNQKFWCEICKVGTYCQIVMRDHELGKKHKAAVTQQNETPEAASTSLSPASVTAPQP 152

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	175
TAIR|locus:2061486	455	AT2G24030 [Arabidopsis thalian	0.628	0.241	0.313	1e-10

TAIR|locus:2061486 AT2G24030 [Arabidopsis thaliana (taxid:3702)]

 Score = 138 (53.6 bits), Expect = 1.0e-10, Sum P(2) = 1.0e-10
 Identities = 37/118 (31%), Positives = 58/118 (49%)

Query:    53 GEKHKAKE-NVGGEEDSENKNEELPKK--KALNAITQKTTNG-IPTGGTM----RRKLPL 104
             GEK KA++   G  ED + K  +  +   KA++  T +  +  +P  G +    + +  L
Sbjct:   229 GEKRKAEDIQTGLNEDLQVKRPKAKESEAKAMSLETGEIVSSKVPCSGKLGSGKKAEGKL 288

Query:   105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEP 162
             R N +FWCE+ +VGT   +VM  H+ GKKH A      +  EA   +     VT  +P
Sbjct:   289 RTNQKFWCEICKVGTYCQIVMRDHELGKKHKAAVTQQNETPEAASTSLSPASVTAPQP 346

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	175
pfam12874	25	pfam12874, zf-met, Zinc-finger of C2H2 type	0.001

>gnl|CDD|205121 pfam12874, zf-met, Zinc-finger of C2H2 type

 Score = 34.4 bits (80), Expect = 0.001
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 110 FWCEVFQVGTQSAVVMEGHKRGKKH 134
           F+CE+  V   S   ++ H RGKKH
Sbjct: 1   FYCELCNVTFTSESQLKSHLRGKKH 25

This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding. Length = 25

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	175
smart00451	35	ZnF_U1 U1-like zinc finger. Family of C2H2-type zi	98.57
PF12874	25	zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG	98.4
PF12171	27	zf-C2H2_jaz: Zinc-finger double-stranded RNA-bindi	97.88
PF06220	38	zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc fi	97.85
KOG3408	129	consensus U1-like Zn-finger-containing protein, pr	95.83
KOG4727	193	consensus U1-like Zn-finger protein [General funct	95.32
KOG0150	336	consensus Spliceosomal protein FBP21 [RNA processi	94.97
COG5188	470	PRP9 Splicing factor 3a, subunit 3 [RNA processing	92.44
COG5112	126	UFD2 U1-like Zn-finger-containing protein [General	91.95
PLN02748	468	tRNA dimethylallyltransferase	91.19
KOG3454	165	consensus U1 snRNP-specific protein C [RNA process	90.17
KOG2785	390	consensus C2H2-type Zn-finger protein [General fun	89.24
KOG0717	508	consensus Molecular chaperone (DnaJ superfamily) [	86.91
KOG2893	341	consensus Zn finger protein [General function pred	86.74
PF07535	49	zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc	86.09
KOG3032	264	consensus Uncharacterized conserved protein [Funct	85.89
KOG0227	222	consensus Splicing factor 3a, subunit 2 [RNA proce	84.61
PF12756	100	zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB:	82.0
PF13894	24	zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP	80.67

>smart00451 ZnF_U1 U1-like zinc finger

Probab=98.57  E-value=4.4e-08  Score=57.98  Aligned_cols=34  Identities=26%  Similarity=0.496  Sum_probs=31.4

Q ss_pred             cceeecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGS  141 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKl  141 (175)
                      +.|||++|.+.+++...+.+|.+||+|.+++++.
T Consensus         2 ~~~~C~~C~~~~~~~~~~~~H~~gk~H~~~~~~~   35 (35)
T smart00451        2 GGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR   35 (35)
T ss_pred             cCeEccccCCccCCHHHHHHHHChHHHHHHHHcC
Confidence            4699999999999999999999999999999863

Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.

>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A

Probab=98.40  E-value=1.5e-07  Score=52.79  Aligned_cols=25  Identities=32%  Similarity=0.635  Sum_probs=24.5

Q ss_pred             eeecceecccChHHHHHHhhhchhH
Q 037462          110 FWCEVFQVGTQSAVVMEGHKRGKKH  134 (175)
Q Consensus       110 fWCEvCkIgc~Se~VMe~HKnGKKH  134 (175)
                      |||++|++.++++..|++|.+||+|
T Consensus         1 ~~C~~C~~~f~s~~~~~~H~~s~~H   25 (25)
T PF12874_consen    1 FYCDICNKSFSSENSLRQHLRSKKH   25 (25)
T ss_dssp             EEETTTTEEESSHHHHHHHHTTHHH
T ss_pred             CCCCCCCCCcCCHHHHHHHHCcCCC
Confidence            7999999999999999999999999

>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length

Probab=97.88  E-value=6.6e-06  Score=47.65  Aligned_cols=27  Identities=26%  Similarity=0.491  Sum_probs=25.3

Q ss_pred             ceeecceecccChHHHHHHhhhchhHH
Q 037462          109 EFWCEVFQVGTQSAVVMEGHKRGKKHM  135 (175)
Q Consensus       109 KfWCEvCkIgc~Se~VMe~HKnGKKHk  135 (175)
                      .|.|++|...+.++..|+.|.+||+|+
T Consensus         1 q~~C~~C~k~f~~~~~~~~H~~sk~Hk   27 (27)
T PF12171_consen    1 QFYCDACDKYFSSENQLKQHMKSKKHK   27 (27)
T ss_dssp             -CBBTTTTBBBSSHHHHHCCTTSHHHH
T ss_pred             CCCcccCCCCcCCHHHHHHHHccCCCC
Confidence            489999999999999999999999996

The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.

>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.85  E-value=9.3e-06  Score=51.97  Aligned_cols=33  Identities=21%  Similarity=0.390  Sum_probs=21.4

Q ss_pred             cceeecceeccc--ChHHHHHHhhhchhHHHhhhh
Q 037462          108 FEFWCEVFQVGT--QSAVVMEGHKRGKKHMARSNG  140 (175)
Q Consensus       108 ~KfWCEvCkIgc--~Se~VMe~HKnGKKHkanLqK  140 (175)
                      ++|||+.|++.-  ++..+=..|..|.+|+.|+++
T Consensus         2 ~ryyCdyC~~~~~~d~~~~Rk~H~~G~kH~~nv~~   36 (38)
T PF06220_consen    2 PRYYCDYCKKYLTHDSPSIRKQHERGWKHKENVKR   36 (38)
T ss_dssp             -S-B-TTT--B-S--SHHHHHHHT--THHHHHHHH
T ss_pred             cCeecccccceecCCChHHHHHhhccHHHHHHHHH
Confidence            479999999988  677888999999999999875

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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.

>KOG3408 consensus U1-like Zn-finger-containing protein, probabl erole in RNA processing/splicing [RNA processing and modification]

Probab=95.83  E-value=0.009  Score=48.13  Aligned_cols=37  Identities=22%  Similarity=0.206  Sum_probs=34.5

Q ss_pred             cceeecceecccChHHHHHHhhhchhHHHhhhhcccC
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKN  144 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~  144 (175)
                      .-|.|-.|.-.+.+..+|.-|..+|.|+++|+.|.+-
T Consensus        56 GqfyCi~CaRyFi~~~~l~~H~ktK~HKrRvK~l~~~   92 (129)
T KOG3408|consen   56 GQFYCIECARYFIDAKALKTHFKTKVHKRRVKELREV   92 (129)
T ss_pred             ceeehhhhhhhhcchHHHHHHHhccHHHHHHHhcccC
Confidence            4699999999999999999999999999999999853

>KOG4727 consensus U1-like Zn-finger protein [General function prediction only]

Probab=95.32  E-value=0.013  Score=49.76  Aligned_cols=40  Identities=23%  Similarity=0.383  Sum_probs=34.9

Q ss_pred             cccccCcceeecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462          102 LPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGS  141 (175)
Q Consensus       102 ~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKl  141 (175)
                      +|.-+.+-|.|.||.--.-+.+-+.+|.|||+|-.||.-+
T Consensus        68 tp~sq~~GyyCdVCdcvvKDSinflDHiNgKkHqrnlgms  107 (193)
T KOG4727|consen   68 TPRSQKGGYYCDVCDCVVKDSINFLDHINGKKHQRNLGMS  107 (193)
T ss_pred             CcccccCceeeeecceeehhhHHHHHHhccHHHHHHHhhh
Confidence            3556778999999999888999999999999999998644

>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]

Probab=94.97  E-value=0.011  Score=53.50  Aligned_cols=36  Identities=17%  Similarity=0.358  Sum_probs=30.1

Q ss_pred             ccCcceeecceeccc-ChHHHHHHhhhchhHHHhhhh
Q 037462          105 RENFEFWCEVFQVGT-QSAVVMEGHKRGKKHMARSNG  140 (175)
Q Consensus       105 KKk~KfWCEvCkIgc-~Se~VMe~HKnGKKHkanLqK  140 (175)
                      +..++.||++|+|-. +....-+.|..||+|+.+|.+
T Consensus         6 kS~~kkfCdyCKiWi~dN~~Sv~~He~GkrHke~V~K   42 (336)
T KOG0150|consen    6 KSQPKKFCDYCKIWIKDNPASVRFHERGKRHKENVAK   42 (336)
T ss_pred             hhccchhhhhhhhhhcCChHHHHhHhhhhHHHHHHHH
Confidence            456788999999853 567778999999999999865

>COG5188 PRP9 Splicing factor 3a, subunit 3 [RNA processing and modification]

Probab=92.44  E-value=0.066  Score=50.05  Aligned_cols=49  Identities=22%  Similarity=0.331  Sum_probs=40.0

Q ss_pred             CCccCCCccccccccccCcceeecceecccChHHHHHHhhhchhHHHhhhhccc
Q 037462           90 NGIPTGGTMRRKLPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRK  143 (175)
Q Consensus        90 ~G~p~g~~~~rK~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe  143 (175)
                      .|.|-+.+++.-++     +|.|++|.--.-...|++.|..||.|.++.++.+.
T Consensus       224 ~~~~~~~~g~~~~~-----~~YC~~C~r~f~~~~VFe~Hl~gK~H~k~~~~~~~  272 (470)
T COG5188         224 FGKKNGMEGAEWFP-----KVYCVKCGREFSRSKVFEYHLEGKRHCKEGQGKEE  272 (470)
T ss_pred             CCcccccchhhhcc-----ceeeHhhhhHhhhhHHHHHHHhhhhhhhhhhhhhH
Confidence            34455555544444     89999999998888999999999999999998887

>COG5112 UFD2 U1-like Zn-finger-containing protein [General function prediction only]

Probab=91.95  E-value=0.058  Score=43.29  Aligned_cols=39  Identities=21%  Similarity=0.207  Sum_probs=35.4

Q ss_pred             cceeecceecccChHHHHHHhhhchhHHHhhhhcccCCC
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNE  146 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e  146 (175)
                      .-|+|--|--...++.+|.-|+.||=|+++++.+.+-+-
T Consensus        54 GqhYCieCaryf~t~~aL~~HkkgkvHkRR~KelRevpy   92 (126)
T COG5112          54 GQHYCIECARYFITEKALMEHKKGKVHKRRAKELREVPY   92 (126)
T ss_pred             ceeeeehhHHHHHHHHHHHHHhccchhHHHHHHHhcCcc
Confidence            468999999999999999999999999999999987544

>PLN02748 tRNA dimethylallyltransferase

Probab=91.19  E-value=0.13  Score=47.61  Aligned_cols=37  Identities=24%  Similarity=0.320  Sum_probs=32.4

Q ss_pred             Ccceeecceec-ccChHHHHHHhhhchhHHHhhhhccc
Q 037462          107 NFEFWCEVFQV-GTQSAVVMEGHKRGKKHMARSNGSRK  143 (175)
Q Consensus       107 k~KfWCEvCkI-gc~Se~VMe~HKnGKKHkanLqKlqe  143 (175)
                      ...|-||+|.. -...+.--++|.+|++|++++++...
T Consensus       416 ~~~~~Ce~C~~~~~~G~~eW~~Hlksr~Hk~~~~~~~k  453 (468)
T PLN02748        416 WTQYVCEACGNKVLRGAHEWEQHKQGRGHRKRVQRLKQ  453 (468)
T ss_pred             cccccccCCCCcccCCHHHHHHHhcchHHHHHHhHHHh
Confidence            34678999998 78899999999999999999997754

>KOG3454 consensus U1 snRNP-specific protein C [RNA processing and modification]

Probab=90.17  E-value=0.16  Score=42.29  Aligned_cols=32  Identities=22%  Similarity=0.412  Sum_probs=27.6

Q ss_pred             cceeecceec--ccChHHHHHHhhhchhHHHhhh
Q 037462          108 FEFWCEVFQV--GTQSAVVMEGHKRGKKHMARSN  139 (175)
Q Consensus       108 ~KfWCEvCkI--gc~Se~VMe~HKnGKKHkanLq  139 (175)
                      .+|.|+.|..  --+|..|=..|-.|+||+.|++
T Consensus         2 pRYyCDYCdt~LthDslsvRK~H~~GrkH~~nvk   35 (165)
T KOG3454|consen    2 PRYYCDYCDTYLTHDSLSVRKTHCGGRKHKDNVK   35 (165)
T ss_pred             CcchhhhhhhhhhcccHHHHHhhhhhHHHHHHHH
Confidence            4689999984  4579999999999999999874

>KOG2785 consensus C2H2-type Zn-finger protein [General function prediction only]

Probab=89.24  E-value=0.22  Score=46.03  Aligned_cols=59  Identities=15%  Similarity=0.195  Sum_probs=48.0

Q ss_pred             ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCCCCCCccceeeeCCCCCC
Q 037462          105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPT  163 (175)
Q Consensus       105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e~vpts~staivT~pep~  163 (175)
                      ...+-+.|++|+-+..|+..+++|-+-|+|..++.+.+.+.++-....++.+.+.|++.
T Consensus        64 ~~~~~~~c~~c~k~~~s~~a~~~hl~Sk~h~~~~~~~~r~~e~d~a~~~q~~~~~p~~l  122 (390)
T KOG2785|consen   64 EAESVVYCEACNKSFASPKAHENHLKSKKHVENLSNHQRSEEGDSAKISQLPSRRPSNL  122 (390)
T ss_pred             hcccceehHHhhccccChhhHHHHHHHhhcchhhhhhhccccccchhhhhccccCcccc
Confidence            44567899999999999999999999999999999988777766666666665554433

>KOG0717 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=86.91  E-value=0.33  Score=46.22  Aligned_cols=42  Identities=24%  Similarity=0.338  Sum_probs=36.3

Q ss_pred             ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcccCCC
Q 037462          105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNE  146 (175)
Q Consensus       105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e  146 (175)
                      ..+....|-+|.-.+-|+-.|..|.|-|||+.+|.+|.+-.+
T Consensus       288 ~~ge~lyC~vCnKsFKseKq~kNHEnSKKHkenv~eLrqemE  329 (508)
T KOG0717|consen  288 NEGEVLYCVVCNKSFKSEKQLKNHENSKKHKENVAELRQEME  329 (508)
T ss_pred             hcCCceEEeeccccccchHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            344448999999999999999999999999999999876544

>KOG2893 consensus Zn finger protein [General function prediction only]

Probab=86.74  E-value=0.36  Score=43.60  Aligned_cols=30  Identities=13%  Similarity=0.269  Sum_probs=26.4

Q ss_pred             cccCcceeecceecccChHHHHHHhhhchh
Q 037462          104 LRENFEFWCEVFQVGTQSAVVMEGHKRGKK  133 (175)
Q Consensus       104 ~KKk~KfWCEvCkIgc~Se~VMe~HKnGKK  133 (175)
                      +||..|-||-.|+-.++++-+|-+|..-|-
T Consensus         5 kkk~~kpwcwycnrefddekiliqhqkakh   34 (341)
T KOG2893|consen    5 KKKVDKPWCWYCNREFDDEKILIQHQKAKH   34 (341)
T ss_pred             ccccCCceeeecccccchhhhhhhhhhhcc
Confidence            356668899999999999999999998874

>PF07535 zf-DBF: DBF zinc finger; InterPro: IPR006572 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=86.09  E-value=0.54  Score=31.98  Aligned_cols=29  Identities=24%  Similarity=0.334  Sum_probs=24.2

Q ss_pred             CcceeecceecccChHHHHHHhhhchhHHHhh
Q 037462          107 NFEFWCEVFQVGTQSAVVMEGHKRGKKHMARS  138 (175)
Q Consensus       107 k~KfWCEvCkIgc~Se~VMe~HKnGKKHkanL  138 (175)
                      +..-+||.|++...+   |..|-.+.+|.+-.
T Consensus         3 ~k~GYCE~C~~ky~~---l~~Hi~s~~Hr~FA   31 (49)
T PF07535_consen    3 KKPGYCENCRVKYDD---LEEHIQSEKHRKFA   31 (49)
T ss_pred             CCCccCccccchhhh---HHHHhCCHHHHHHH
Confidence            445689999999875   88999999998754

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. In eukaryotes, initiation of DNA replication requires the assembly of pre-replication complexes (pre-RCs) on chromatin during the G1 phase. In the S phase, pre-RCs are activated by two protein kinases, Cdk2 and Cdc7, which results in the loading of replication factors and the unwinding of replication origins by the MCM helicase complex []. Cdc7 is a serine/threonine kinase that is conserved from yeast to human. It is regulated by its association with a regulatory subunit, the Dbf4 protein. This complex is often referred to as DDK (Dbf4-dependent kinase) []. DBF4 contains an N-terminal BRCT domain and a C-terminal conserved region that could potentially coordinate one zinc atom, the DBF4-type zinc finger. This entry represents the zinc finger, which is important for the interaction with Cdc7 [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding

>KOG3032 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.89  E-value=1  Score=39.98  Aligned_cols=37  Identities=22%  Similarity=0.313  Sum_probs=31.8

Q ss_pred             ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462          105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR  142 (175)
Q Consensus       105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq  142 (175)
                      ..+.-.-|-||+|--- +-+-.-|.|||+|.-++..|-
T Consensus        31 n~sgql~C~vCn~piK-p~lW~vHvnsKkHre~id~lK   67 (264)
T KOG3032|consen   31 NESGQLVCRVCNVPIK-PSLWDVHVNSKKHREAIDSLK   67 (264)
T ss_pred             CCCCCeeEEEecCccc-HHHHHHHhccHHHHHHHHHHH
Confidence            3455567999999988 999999999999999988776

>KOG0227 consensus Splicing factor 3a, subunit 2 [RNA processing and modification]

Probab=84.61  E-value=0.53  Score=40.90  Aligned_cols=41  Identities=15%  Similarity=0.136  Sum_probs=35.1

Q ss_pred             cccccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462          102 LPLRENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR  142 (175)
Q Consensus       102 ~~~KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq  142 (175)
                      |++---.+|-|.+|.---+++-....|..||||..||-+-.
T Consensus        46 ~mkNh~G~yeCkLClT~H~ne~Syl~HtqGKKHq~Nlarra   86 (222)
T KOG0227|consen   46 FMKNHLGKYECKLCLTLHNNEGSYLAHTQGKKHQTNLARRA   86 (222)
T ss_pred             hhhccCcceeehhhhhhhcchhhhhhhhccchhhHHHHHHH
Confidence            44455678999999999999999999999999999987643

>PF12756 zf-C2H2_2: C2H2 type zinc-finger (2 copies); PDB: 2DMI_A

Probab=82.00  E-value=0.6  Score=31.22  Aligned_cols=32  Identities=25%  Similarity=0.405  Sum_probs=26.5

Q ss_pred             ceeecceecccChHHHHHHhhhchhHHHhhhh
Q 037462          109 EFWCEVFQVGTQSAVVMEGHKRGKKHMARSNG  140 (175)
Q Consensus       109 KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqK  140 (175)
                      .|-|.+|.....|...|..|.+.+.|+.....
T Consensus        50 ~~~C~~C~~~f~s~~~l~~Hm~~~~H~~~~~~   81 (100)
T PF12756_consen   50 SFRCPYCNKTFRSREALQEHMRSKHHKKRNSE   81 (100)
T ss_dssp             SEEBSSSS-EESSHHHHHHHHHHTTTTC-S--
T ss_pred             CCCCCccCCCCcCHHHHHHHHcCccCCCcccc
Confidence            68999999999999999999999999987553

>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=80.67  E-value=1.1  Score=23.32  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=17.0

Q ss_pred             eeecceecccChHHHHHHhhh
Q 037462          110 FWCEVFQVGTQSAVVMEGHKR  130 (175)
Q Consensus       110 fWCEvCkIgc~Se~VMe~HKn  130 (175)
                      |-|++|.....+...|+.|..
T Consensus         1 ~~C~~C~~~~~~~~~l~~H~~   21 (24)
T PF13894_consen    1 FQCPICGKSFRSKSELRQHMR   21 (24)
T ss_dssp             EE-SSTS-EESSHHHHHHHHH
T ss_pred             CCCcCCCCcCCcHHHHHHHHH
Confidence            569999999999999999964

...

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	175
1zu1_A	127	DSRBP-ZFA, RNA binding protein ZFA; zinc finger pr	98.83
1zu1_A	127	DSRBP-ZFA, RNA binding protein ZFA; zinc finger pr	97.73
3cw1_L	77	U1 small nuclear ribonucleoprotein C; PRE-mRNA spl	97.58
1zr9_A	124	Zinc finger protein 593; DNA binding, structural g	97.37
4dgw_A	402	PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A	94.09
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	91.17
2jvx_A	28	NF-kappa-B essential modulator; CCHC classical zin	89.07
1fu9_A	36	U-shaped transcriptional cofactor; zinc-finger, be	83.38
3mjh_B	34	Early endosome antigen 1; protein-zinc finger comp	81.35

>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein, helix-loop-helix, helix-turn-helix; NMR {Xenopus laevis} SCOP: g.37.1.4 g.37.1.4

Probab=98.83  E-value=1e-09  Score=81.31  Aligned_cols=38  Identities=29%  Similarity=0.323  Sum_probs=34.9

Q ss_pred             ccCcceeecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462          105 RENFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR  142 (175)
Q Consensus       105 KKk~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq  142 (175)
                      .....|||++|++.++|+.+|.+|.+||+|+++|++++
T Consensus        89 ~~~~~~~C~~C~~~f~s~~~~~~H~~gk~H~~~~~~~~  126 (127)
T 1zu1_A           89 GEDRSKCCPVCNMTFSSPVVAESHYIGKTHIKNLRLRE  126 (127)
T ss_dssp             CCCTTTEETTTTEECSSHHHHHHHHTSHHHHHHHHHHH
T ss_pred             CCCCCeEcCCCCCEeCCHHHHHHHHCCHHHHHHHHHhc
Confidence            44668999999999999999999999999999999875

>1zu1_A DSRBP-ZFA, RNA binding protein ZFA; zinc finger protein, helix-loop-helix, helix-turn-helix; NMR {Xenopus laevis} SCOP: g.37.1.4 g.37.1.4

Probab=97.73  E-value=2e-05  Score=58.28  Aligned_cols=35  Identities=17%  Similarity=0.160  Sum_probs=31.7

Q ss_pred             ceeecceecccChHHHHHHhhhchhHHHhhhhccc
Q 037462          109 EFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRK  143 (175)
Q Consensus       109 KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe  143 (175)
                      .+.|.+|+|.++|+..|..|-+||+|.++|.....
T Consensus        32 ~~~C~~C~v~~~S~s~~~~H~~gkkH~~~v~~~~~   66 (127)
T 1zu1_A           32 DTQCKVCSAVLISESQKLAHYQSRKHANKVRRYMA   66 (127)
T ss_dssp             SSEETTTTEECCSHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             CCcCcCCCCEeCCHHHHHHHHCcHHHHHHHHHHhc
Confidence            37899999999999999999999999999886653

>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, finger, RNA recognition motif, 5' splice site; 5.49A {Homo sapiens} PDB: 1uw2_A 2vrd_A

Probab=97.58  E-value=2.7e-05  Score=56.10  Aligned_cols=33  Identities=24%  Similarity=0.414  Sum_probs=29.5

Q ss_pred             cceeecceeccc--ChHHHHHHhhhchhHHHhhhh
Q 037462          108 FEFWCEVFQVGT--QSAVVMEGHKRGKKHMARSNG  140 (175)
Q Consensus       108 ~KfWCEvCkIgc--~Se~VMe~HKnGKKHkanLqK  140 (175)
                      ++|||+.|.+.-  +|..+-.+|.+|+||+.|++.
T Consensus         2 PkYyCdYCd~~lt~Ds~s~Rk~H~~G~kH~~nv~~   36 (77)
T 3cw1_L            2 PKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKD   36 (77)
T ss_pred             CCcccccCCceecCCCHHHHHHHHccHHHHHHHHH
Confidence            589999999986  779999999999999988764

>1zr9_A Zinc finger protein 593; DNA binding, structural genomics, PSI, protein structure initiative, center for eukaryotic structural genomics, CESG; NMR {Homo sapiens} SCOP: g.37.1.4

Probab=97.37  E-value=0.00013  Score=55.82  Aligned_cols=61  Identities=13%  Similarity=0.052  Sum_probs=43.6

Q ss_pred             ceeecceecccChHHHHHHhhhchhHHHhhhhcccCCCCCCCccceeeeCCCCCCCCCcch
Q 037462          109 EFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNNEAVPLTTRTTIVTPSEPTENVEDE  169 (175)
Q Consensus       109 KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~e~vpts~staivT~pep~~~~~~~  169 (175)
                      .|.|..|...+.+...|..|.++|+|+++++++...+.+.--+-..+-.+.+-|.-.++.+
T Consensus        50 pfyC~~C~K~F~~~~~L~~H~rsK~HKrrvk~l~~~p~Tq~eAe~aag~g~~~~~~~~~~~  110 (124)
T 1zr9_A           50 LHRCLACARYFIDSTNLKTHFRSKDHKKRLKQLSVEPYSQEEAERAAGMGSYVPPRRLAVP  110 (124)
T ss_dssp             CSEETTTTEECSSHHHHHHHTTCHHHHHHHHHHTSCSSCTTTSSCSCCCCCCC--------
T ss_pred             ceEcccCcchhCCHHHHHHHHhhhhhhHHHHHhccCCCcHHHHHHhccCCCCCCCcccccc
Confidence            5899999999999999999999999999999998776655555555555544444444433

>4dgw_A PRE-mRNA-splicing factor PRP9; zinc finger; 3.11A {Saccharomyces cerevisiae}

Probab=94.09  E-value=0.021  Score=50.65  Aligned_cols=35  Identities=20%  Similarity=0.278  Sum_probs=31.6

Q ss_pred             CcceeecceecccChHHHHHHhhhchhHHHhhhhc
Q 037462          107 NFEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGS  141 (175)
Q Consensus       107 k~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKl  141 (175)
                      ...+||+.|.--.-++.|...|.+||||+++..+.
T Consensus       290 ~~~l~C~~c~K~Fs~~~v~~~hL~GKkh~K~~~~~  324 (402)
T 4dgw_A          290 AKGIYCPFCSRWFKTSSVFESHLVGKIHKKNESKR  324 (402)
T ss_dssp             TTEECBTTTTBCBSSHHHHHTTSSSHHHHHHHHHS
T ss_pred             CcCeeehhhhhhhccccccHHHhcccccchhHHHH
Confidence            45789999999999999999999999999987664

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=91.17  E-value=0.09  Score=46.41  Aligned_cols=35  Identities=11%  Similarity=0.153  Sum_probs=30.4

Q ss_pred             cceeecceec------ccChHHHHHHhhhchhHHHhhhhcc
Q 037462          108 FEFWCEVFQV------GTQSAVVMEGHKRGKKHMARSNGSR  142 (175)
Q Consensus       108 ~KfWCEvCkI------gc~Se~VMe~HKnGKKHkanLqKlq  142 (175)
                      ..|-||+|..      -...+.--++|.+|++|++++++..
T Consensus       359 ~~~~Ce~C~~~~~~~~~~~ge~~W~~H~ksr~Hk~~~~~~~  399 (409)
T 3eph_A          359 THYTCNVCRNADGKNVVAIGEKYWKIHLGSRRHKSNLKRNT  399 (409)
T ss_dssp             CEEEEEEEECTTSCEEEEESHHHHHHHHTSHHHHHHHHHHH
T ss_pred             cceeCCCCCCCCCCcceEEcHHHHHHHhhhhHHHHHHHHHH
Confidence            4578999998      5778899999999999999998754

>2jvx_A NF-kappa-B essential modulator; CCHC classical zinc finger, NEMO zinc finger, beta-BETA- alpha fold, coiled coil, cytoplasm, disease mutation; NMR {Synthetic} PDB: 2jvy_A

Probab=89.07  E-value=0.17  Score=30.39  Aligned_cols=22  Identities=18%  Similarity=0.253  Sum_probs=20.5

Q ss_pred             cceeecceecccChHHHHHHhh
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHK  129 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HK  129 (175)
                      .+|-|.+|+.+..+...|.+|.
T Consensus         2 ~k~~CpvCk~q~Pd~kt~~~H~   23 (28)
T 2jvx_A            2 SDFCCPKCQYQAPDMDTLQIHV   23 (28)
T ss_dssp             CCEECTTSSCEESSHHHHHHHH
T ss_pred             CcccCccccccCcChHHHHHHH
Confidence            5789999999999999999995

>1fu9_A U-shaped transcriptional cofactor; zinc-finger, beta-hairpin + alpha-helix; NMR {Drosophila melanogaster} SCOP: g.37.1.2 PDB: 1jn7_A

Probab=83.38  E-value=0.44  Score=30.38  Aligned_cols=23  Identities=13%  Similarity=0.322  Sum_probs=20.7

Q ss_pred             cceeecceecccChHHHHHHhhh
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHKR  130 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HKn  130 (175)
                      ..+-|+.|.|..++...++.||.
T Consensus         7 ~~~~C~~C~IsF~~l~ty~aHKk   29 (36)
T 1fu9_A            7 MKKYCSTCDISFNYVKTYLAHKQ   29 (36)
T ss_dssp             CCSEETTTTEECSSHHHHHHHHH
T ss_pred             CcCeeccccceehhhHHHhhhhe
Confidence            46789999999999999999974

>3mjh_B Early endosome antigen 1; protein-zinc finger complex, beta BETA alpha fold, beta HAIR RAB5A GTPase, EEA1, protein transport; HET: GTP; 2.03A {Homo sapiens}

Probab=81.35  E-value=0.57  Score=29.04  Aligned_cols=25  Identities=24%  Similarity=0.177  Sum_probs=21.5

Q ss_pred             ceeecceecccChHHHHHHhhhchhH
Q 037462          109 EFWCEVFQVGTQSAVVMEGHKRGKKH  134 (175)
Q Consensus       109 KfWCEvCkIgc~Se~VMe~HKnGKKH  134 (175)
                      -|-|++|..++.+...|..|- .++|
T Consensus         5 GFiCP~C~~~l~s~~~L~~Hy-e~~H   29 (34)
T 3mjh_B            5 GFICPQCMKSLGSADELFKHY-EAVH   29 (34)
T ss_dssp             EEECTTTCCEESSHHHHHHHH-HHHT
T ss_pred             ccCCcHHHHHcCCHHHHHHHH-Hhcc
Confidence            499999999999999999996 3444

---

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	175
d1zr9a1	67	Zinc finger protein 593, ZNF593 {Human (Homo sapie	97.65
d1zu1a2	55	dsRNA-binding protein ZFa (ZNF346, JAZ) {African c	97.37
d2vrda1	61	Spliceosomal protein U1C {Human (Homo sapiens) [Ta	96.76

>d1zr9a1 g.37.1.4 (A:28-94) Zinc finger protein 593, ZNF593 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: HkH motif-containing C2H2 finger
domain: Zinc finger protein 593, ZNF593
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.65  E-value=1.5e-05  Score=54.35  Aligned_cols=38  Identities=16%  Similarity=0.041  Sum_probs=35.0

Q ss_pred             cceeecceecccChHHHHHHhhhchhHHHhhhhcccCC
Q 037462          108 FEFWCEVFQVGTQSAVVMEGHKRGKKHMARSNGSRKNN  145 (175)
Q Consensus       108 ~KfWCEvCkIgc~Se~VMe~HKnGKKHkanLqKlqe~~  145 (175)
                      .-|.|..|.-.+.|+.+|..|.++|+|+++|++|+..+
T Consensus        14 gqfYCv~C~K~F~se~~l~~H~ksKkHKrrvk~L~~~p   51 (67)
T d1zr9a1          14 GLHRCLACARYFIDSTNLKTHFRSKDHKKRLKQLSVEP   51 (67)
T ss_dssp             GCSEETTTTEECSSHHHHHHHTTCHHHHHHHHHHTSCS
T ss_pred             CEEecccccCccCCHHHHHHHHcccHHHHHHHHhccCc
Confidence            45899999999999999999999999999999997653

>d1zu1a2 g.37.1.4 (A:74-128) dsRNA-binding protein ZFa (ZNF346, JAZ) {African clawed frog (Xenopus laevis) [TaxId: 8355]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: HkH motif-containing C2H2 finger
domain: dsRNA-binding protein ZFa (ZNF346, JAZ)
species: African clawed frog (Xenopus laevis) [TaxId: 8355]

Probab=97.37  E-value=3.5e-05  Score=51.56  Aligned_cols=32  Identities=31%  Similarity=0.399  Sum_probs=30.0

Q ss_pred             eecceecccChHHHHHHhhhchhHHHhhhhcc
Q 037462          111 WCEVFQVGTQSAVVMEGHKRGKKHMARSNGSR  142 (175)
Q Consensus       111 WCEvCkIgc~Se~VMe~HKnGKKHkanLqKlq  142 (175)
                      .|.+|++.++|..+-.+|-.||+|.++|+..+
T Consensus        23 ~C~lCn~~Fns~~~AqsHY~GK~H~K~lk~~~   54 (55)
T d1zu1a2          23 CCPVCNMTFSSPVVAESHYIGKTHIKNLRLRE   54 (55)
T ss_dssp             EETTTTEECSSHHHHHHHHTSHHHHHHHHHHH
T ss_pred             hhhhhhcccCCHHHHHHHhhhhHHHHHHHHhc
Confidence            69999999999999999999999999998654

>d2vrda1 g.37.1.4 (A:1-61) Spliceosomal protein U1C {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: HkH motif-containing C2H2 finger
domain: Spliceosomal protein U1C
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.76  E-value=0.00029  Score=47.25  Aligned_cols=33  Identities=24%  Similarity=0.414  Sum_probs=29.3

Q ss_pred             cceeecceeccc--ChHHHHHHhhhchhHHHhhhh
Q 037462          108 FEFWCEVFQVGT--QSAVVMEGHKRGKKHMARSNG  140 (175)
Q Consensus       108 ~KfWCEvCkIgc--~Se~VMe~HKnGKKHkanLqK  140 (175)
                      ++|+|+.|.+.-  +|..|=..|-+|+||+.|...
T Consensus         2 pryyCdYC~~~lt~ds~s~RK~H~~G~kH~~n~~~   36 (61)
T d2vrda1           2 PKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKD   36 (61)
T ss_dssp             CSCEETTTTEECSCCSHHHHHHHTCCTHHHHHHHH
T ss_pred             CchhhhhhcchhccCChhHHHHHhccHHHHHHHHH
Confidence            579999999987  678888999999999999864