Citrus Sinensis ID: 033229

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120----
Protein Sequence
MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Secondary Structure (PSIPRED)
cHHHHHHHHHcccccccccccHHHHccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHcccccccccccccccccccccccccccHcHHHHHHHHcccccccccccEEEEcccccccccccEcccccccccccccccccEEccHHHHHHHccccccHHHHHHHHccccEEEc
Coil and Loop (DISEMBL)
MEAEVIEAElvlptymsfkriqmyekypkgqsrgrhWKHLKQILQaenyqnyppdepnyvniesppsmhpckricditgfeapyydprtnlryANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Flexible Loop (DISEMBL)
meaevieaelvlptymsfkrIQMYEKypkgqsrgrHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Low Complexity Region (SEG)
MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Disordered region (IsUnstruct)
*****IEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQN*****************HPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVV**
Disordered Region (DISOPRED)
*******************************************LQ********PDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVL*
Disordered Region (DISEMBL)
MEAEVIEAELVLPTYMSFKRIQMYEKY*********WKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Disordered Region (DISPRO)
*****IE*ELVLPTYMSFKRIQMYEKYP***SRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK
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	124	2.2.26 [Sep-21-2011]
Q8BHA0	191	INO80 complex subunit C O	yes	no	0.733	0.476	0.439	1e-17
Q5BJY3	191	INO80 complex subunit C O	yes	no	0.733	0.476	0.417	4e-17
Q6PI98	192	INO80 complex subunit C O	yes	no	0.733	0.473	0.417	6e-17
Q9UTE8	117	Chromatin-remodeling comp	yes	no	0.774	0.820	0.443	9e-16
P32617	166	Chromatin-remodeling comp	yes	no	0.540	0.403	0.441	5e-10

>sp|Q8BHA0|IN80C_MOUSE INO80 complex subunit C OS=Mus musculus GN=Ino80c PE=2 SV=1

 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/91 (43%), Positives = 59/91 (64%)

Query: 33  RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
           + R WK+LKQIL AE    +  ++PNY +I++PPS  P K+  DI+G  A Y DP++ LR
Sbjct: 100 KNRTWKNLKQILAAERALPWQLNDPNYFSIDAPPSFKPAKKYSDISGLLANYTDPQSKLR 159

Query: 93  YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
           ++  E F  +R LP++ V  YLALR A  ++
Sbjct: 160 FSTVEEFSYIRRLPSDVVTGYLALRKATSIV 190

Proposed core component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.
Mus musculus (taxid: 10090)

>sp|Q5BJY3|IN80C_RAT INO80 complex subunit C OS=Rattus norvegicus GN=Ino80c PE=2 SV=1

 Score = 86.3 bits (212), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 38/91 (41%), Positives = 58/91 (63%)

Query: 33  RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
           + R WK+LKQIL AE    +  ++PNY +I++PPS  P K+  D++G  A Y DP++ LR
Sbjct: 100 KNRTWKNLKQILAAERALPWQLNDPNYFSIDAPPSFKPAKKYSDVSGLLANYTDPQSKLR 159

Query: 93  YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
           ++  E F  +R LP++ V  YL LR A  ++
Sbjct: 160 FSTVEEFSYIRRLPSDVVTGYLTLRKATSIV 190

Proposed core component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Rattus norvegicus (taxid: 10116)

>sp|Q6PI98|IN80C_HUMAN INO80 complex subunit C OS=Homo sapiens GN=INO80C PE=1 SV=1

 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 38/91 (41%), Positives = 59/91 (64%)

Query: 33  RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
           + R WK+LKQIL +E    +  ++PNY +I++PPS  P K+  D++G  A Y DP++ LR
Sbjct: 101 KNRTWKNLKQILASERALPWQLNDPNYFSIDAPPSFKPAKKYSDVSGLLANYTDPQSKLR 160

Query: 93  YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
           ++  E F  +R LP++ V  YLALR A  ++
Sbjct: 161 FSTIEEFSYIRRLPSDVVTGYLALRKATSIV 191

Proposed core component of the chromatin remodeling INO80 complex which is involved in transcriptional regulation, DNA replication and probably DNA repair.

Homo sapiens (taxid: 9606)

>sp|Q9UTE8|IES6_SCHPO Chromatin-remodeling complex subunit ies6 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ies6 PE=3 SV=1

 Score = 82.0 bits (201), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 43/97 (44%), Positives = 65/97 (67%), Gaps = 1/97 (1%)

Query: 28  PKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDP 87
           P  +++ R  ++L+QI+Q +  QN P  + +Y +IE+PPS+ P  + CD+TG  A Y DP
Sbjct: 22  PNYKAQPRRNRNLRQIIQNDPVQNEP-SKFSYSSIEAPPSVLPQPKYCDVTGLLAIYTDP 80

Query: 88  RTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK 124
           +T LRY N E++ L+R LP+   Q YL LR++ VVLK
Sbjct: 81  KTRLRYHNKEIYGLIRELPSGADQEYLKLRSSDVVLK 117

Probably involved in transcription regulation via its interaction with the INO80 complex, a chromatin remodeling complex. Also involved in the regulation of telomere length.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P32617|IES6_YEAST Chromatin-remodeling complex subunit IES6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=IES6 PE=1 SV=1

 Score = 62.8 bits (151), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 30/68 (44%), Positives = 43/68 (63%), Gaps = 1/68 (1%)

Query: 58  NYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKL-VRSLPNEYVQRYLAL 116
            Y ++E+PPS+ P K+ CD+TG +  Y  P  N+RY NAE+++L V+ +     Q YL L
Sbjct: 99  TYFSVEAPPSIRPAKKYCDVTGLKGFYKSPTNNIRYHNAEIYQLIVKPMAPGVDQEYLKL 158

Query: 117 RNAAVVLK 124
           R A  VLK
Sbjct: 159 RGANFVLK 166

Probably involved in transcription regulation via its interaction with the INO80 complex, a chromatin remodeling complex. Also involved in the regulation of telomere length.

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

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	124
356541300	178	PREDICTED: INO80 complex subunit C-like	1.0	0.696	0.903	6e-64
255560493	124	conserved hypothetical protein [Ricinus	1.0	1.0	0.927	2e-63
388516341	129	unknown [Medicago truncatula]	1.0	0.961	0.879	6e-62
357462405	124	INO80 complex subunit C [Medicago trunca	1.0	1.0	0.879	9e-62
388504756	124	unknown [Lotus japonicus]	1.0	1.0	0.870	1e-61
449470210	124	PREDICTED: INO80 complex subunit C-like	1.0	1.0	0.879	5e-61
225428092	124	PREDICTED: INO80 complex subunit C [Viti	1.0	1.0	0.846	5e-58
224139270	123	predicted protein [Populus trichocarpa]	0.991	1.0	0.879	2e-56
357462407	102	INO80 complex subunit C [Medicago trunca	0.822	1.0	0.892	2e-50
30691990	124	INO80 complex subunit C [Arabidopsis tha	1.0	1.0	0.685	2e-45

>gi|356541300|ref|XP_003539116.1| PREDICTED: INO80 complex subunit C-like [Glycine max]

 Score =  247 bits (631), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 112/124 (90%), Positives = 123/124 (99%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAEV+EAELVLP+Y+SFKR+QMYEKYPKGQ+RGRHWKHLKQI+QAENYQNYPPDEPNY 
Sbjct: 55  MEAEVVEAELVLPSYLSFKRVQMYEKYPKGQARGRHWKHLKQIIQAENYQNYPPDEPNYA 114

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITGFEAPY+DPRTNLRYANAEVFK++RSLPNEYVQRYL+LRNAA
Sbjct: 115 NIESPPSMHPCKRICDITGFEAPYHDPRTNLRYANAEVFKIIRSLPNEYVQRYLSLRNAA 174

Query: 121 VVLK 124
           +VLK
Sbjct: 175 IVLK 178

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560493|ref|XP_002521261.1| conserved hypothetical protein [Ricinus communis] gi|223539529|gb|EEF41117.1| conserved hypothetical protein [Ricinus communis]

 Score =  245 bits (626), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 115/124 (92%), Positives = 123/124 (99%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAEVI+AELVLPT++SFK+IQMYEKYPKGQ+RGRHWKHLKQILQAENYQNYPPDEPNYV
Sbjct: 1   MEAEVIKAELVLPTHLSFKKIQMYEKYPKGQARGRHWKHLKQILQAENYQNYPPDEPNYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITGFEAPY DPRTNLRYA+A+VFKLVRSLPN+YVQRYLALRNAA
Sbjct: 61  NIESPPSMHPCKRICDITGFEAPYSDPRTNLRYASADVFKLVRSLPNDYVQRYLALRNAA 120

Query: 121 VVLK 124
           VVLK
Sbjct: 121 VVLK 124

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388516341|gb|AFK46232.1| unknown [Medicago truncatula]

 Score =  241 bits (614), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 120/124 (96%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAEV++AELVLP Y+SFKRIQMY+KYPKGQSRGRHWKHLKQI+QAENYQNYPPDEPNYV
Sbjct: 6   MEAEVVDAELVLPNYLSFKRIQMYDKYPKGQSRGRHWKHLKQIIQAENYQNYPPDEPNYV 65

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITG+EAPYYDP+TNLRYAN +VFK++RSLPNE VQRYL +RNAA
Sbjct: 66  NIESPPSMHPCKRICDITGYEAPYYDPKTNLRYANTDVFKMIRSLPNESVQRYLGMRNAA 125

Query: 121 VVLK 124
           VVLK
Sbjct: 126 VVLK 129

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462405|ref|XP_003601484.1| INO80 complex subunit C [Medicago truncatula] gi|355490532|gb|AES71735.1| INO80 complex subunit C [Medicago truncatula]

 Score =  240 bits (612), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 120/124 (96%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAEV++AELVLP Y+SFKRIQMY+KYPKGQSRGRHWKHLKQI+QAENYQNYPPDEPNYV
Sbjct: 1   MEAEVVDAELVLPNYLSFKRIQMYDKYPKGQSRGRHWKHLKQIIQAENYQNYPPDEPNYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITG+EAPYYDP+TNLRYAN +VFK++RSLPNE VQRYL +RNAA
Sbjct: 61  NIESPPSMHPCKRICDITGYEAPYYDPKTNLRYANTDVFKMIRSLPNESVQRYLGMRNAA 120

Query: 121 VVLK 124
           VVLK
Sbjct: 121 VVLK 124

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504756|gb|AFK40444.1| unknown [Lotus japonicus]

 Score =  239 bits (610), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 108/124 (87%), Positives = 121/124 (97%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAEV++AELVLP Y+SFKR+QM+EKYPKGQSRGRHWKHLKQI+QAENYQNYPPD+PNYV
Sbjct: 1   MEAEVVDAELVLPNYLSFKRVQMHEKYPKGQSRGRHWKHLKQIIQAENYQNYPPDQPNYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITG+EAPYYDPRT LRYAN +VFK++R+LPN+YVQRYLALRNAA
Sbjct: 61  NIESPPSMHPCKRICDITGYEAPYYDPRTTLRYANTDVFKIIRALPNDYVQRYLALRNAA 120

Query: 121 VVLK 124
           VVLK
Sbjct: 121 VVLK 124

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449470210|ref|XP_004152811.1| PREDICTED: INO80 complex subunit C-like [Cucumis sativus] gi|449521619|ref|XP_004167827.1| PREDICTED: INO80 complex subunit C-like [Cucumis sativus]

 Score =  238 bits (606), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 120/124 (96%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           ME+EVIEAELVLP +++FKRIQMYEKYPKGQSRGRHWKHLKQILQAENY NY PDEPNYV
Sbjct: 1   MESEVIEAELVLPIHLNFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYHNYSPDEPNYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHPCKRICDITG+EAPYYDPRT LRYANA++FK++RSLPNEYVQRYLA+RNAA
Sbjct: 61  NIESPPSMHPCKRICDITGYEAPYYDPRTTLRYANADIFKVIRSLPNEYVQRYLAMRNAA 120

Query: 121 VVLK 124
           VVL+
Sbjct: 121 VVLR 124

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428092|ref|XP_002280413.1| PREDICTED: INO80 complex subunit C [Vitis vinifera] gi|147827595|emb|CAN61977.1| hypothetical protein VITISV_038567 [Vitis vinifera] gi|297744568|emb|CBI37830.3| unnamed protein product [Vitis vinifera]

 Score =  228 bits (580), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 105/124 (84%), Positives = 116/124 (93%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           ME EVIEAE+VLPTY+SFK++QM+EKYPKGQ+RGRHWKHLKQI+QAENYQNYPPDEPNYV
Sbjct: 1   MEPEVIEAEMVLPTYLSFKKVQMHEKYPKGQARGRHWKHLKQIIQAENYQNYPPDEPNYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSM+PCK+ICDITGFEAPY DPRT LRYAN EVFK +R +PNE VQRYLALRNA 
Sbjct: 61  NIESPPSMNPCKKICDITGFEAPYSDPRTTLRYANTEVFKHIRLIPNESVQRYLALRNAQ 120

Query: 121 VVLK 124
           VVLK
Sbjct: 121 VVLK 124

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224139270|ref|XP_002323030.1| predicted protein [Populus trichocarpa] gi|222867660|gb|EEF04791.1| predicted protein [Populus trichocarpa]

 Score =  223 bits (567), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 115/124 (92%), Gaps = 1/124 (0%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           MEAE+I AELVLPT+ SFKRIQ+YEKYPKGQ RGR WKHLKQILQAENYQN PPDEPNYV
Sbjct: 1   MEAELINAELVLPTHFSFKRIQIYEKYPKGQPRGR-WKHLKQILQAENYQNCPPDEPNYV 59

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPSMHP  RICDITGFEAPY+DPRTNLRYAN +VFKLVRSLPNE+VQRYLALRNAA
Sbjct: 60  NIESPPSMHPPLRICDITGFEAPYHDPRTNLRYANTDVFKLVRSLPNEHVQRYLALRNAA 119

Query: 121 VVLK 124
           V LK
Sbjct: 120 VTLK 123

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462407|ref|XP_003601485.1| INO80 complex subunit C [Medicago truncatula] gi|355490533|gb|AES71736.1| INO80 complex subunit C [Medicago truncatula]

 Score =  202 bits (514), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 91/102 (89%), Positives = 99/102 (97%)

Query: 23  MYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEA 82
           MY+KYPKGQSRGRHWKHLKQI+QAENYQNYPPDEPNYVNIESPPSMHPCKRICDITG+EA
Sbjct: 1   MYDKYPKGQSRGRHWKHLKQIIQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGYEA 60

Query: 83  PYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK 124
           PYYDP+TNLRYAN +VFK++RSLPNE VQRYL +RNAAVVLK
Sbjct: 61  PYYDPKTNLRYANTDVFKMIRSLPNESVQRYLGMRNAAVVLK 102

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30691990|ref|NP_849518.1| INO80 complex subunit C [Arabidopsis thaliana] gi|20268791|gb|AAM14098.1| unknown protein [Arabidopsis thaliana] gi|21689815|gb|AAM67551.1| unknown protein [Arabidopsis thaliana] gi|26452808|dbj|BAC43484.1| unknown protein [Arabidopsis thaliana] gi|332661534|gb|AEE86934.1| INO80 complex subunit C [Arabidopsis thaliana]

 Score =  185 bits (470), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/124 (68%), Positives = 103/124 (83%)

Query: 1   MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
           ME E++EA++V+ + +SFK+ Q YEKYPK QS  R WKHLKQILQAEN+ + PPD P YV
Sbjct: 1   MERELMEADIVVASRLSFKKKQAYEKYPKAQSSSRRWKHLKQILQAENFPDLPPDLPTYV 60

Query: 61  NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
           NIESPPS  PCKR+CDITG+EAPY DPRTNLRYANA VF+ VRSL ++ V +YL++RNAA
Sbjct: 61  NIESPPSTQPCKRLCDITGYEAPYVDPRTNLRYANAHVFQTVRSLSSDQVHQYLSIRNAA 120

Query: 121 VVLK 124
           VVLK
Sbjct: 121 VVLK 124

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	124
TAIR|locus:1005716392	124	AT4G38495 "AT4G38495" [Arabido	1.0	1.0	0.685	3.9e-44
ZFIN|ZDB-GENE-040625-97	210	ino80c "INO80 complex subunit	0.733	0.433	0.472	6.5e-19
MGI|MGI:2443014	191	Ino80c "INO80 complex subunit	0.733	0.476	0.439	3.2e-17
POMBASE|SPAC222.04c	117	ies6 "Ino80 complex subunit Ie	0.774	0.820	0.443	6.7e-17
UNIPROTKB|Q6PI98	192	INO80C "INO80 complex subunit	0.733	0.473	0.417	1.1e-16
RGD|1310199	191	Ino80c "INO80 complex subunit	0.733	0.476	0.417	1.1e-16
UNIPROTKB|G4N5J7	195	MGG_06129 "Uncharacterized pro	0.572	0.364	0.547	3.7e-16
ASPGD|ASPL0000050610	186	AN2485 [Emericella nidulans (t	0.532	0.354	0.529	7.1e-13
CGD|CAL0005227	145	orf19.2889 [Candida albicans (	0.814	0.696	0.348	6.4e-12
UNIPROTKB|Q5A1D0	145	CaO19.10407 "Putative uncharac	0.814	0.696	0.348	6.4e-12

TAIR|locus:1005716392 AT4G38495 "AT4G38495" [Arabidopsis thaliana (taxid:3702)]

 Score = 465 (168.7 bits), Expect = 3.9e-44, P = 3.9e-44
 Identities = 85/124 (68%), Positives = 103/124 (83%)

Query:     1 MEAEVIEAELVLPTYMSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYV 60
             ME E++EA++V+ + +SFK+ Q YEKYPK QS  R WKHLKQILQAEN+ + PPD P YV
Sbjct:     1 MERELMEADIVVASRLSFKKKQAYEKYPKAQSSSRRWKHLKQILQAENFPDLPPDLPTYV 60

Query:    61 NIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAA 120
             NIESPPS  PCKR+CDITG+EAPY DPRTNLRYANA VF+ VRSL ++ V +YL++RNAA
Sbjct:    61 NIESPPSTQPCKRLCDITGYEAPYVDPRTNLRYANAHVFQTVRSLSSDQVHQYLSIRNAA 120

Query:   121 VVLK 124
             VVLK
Sbjct:   121 VVLK 124

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-040625-97 ino80c "INO80 complex subunit C" [Danio rerio (taxid:7955)]

 Score = 227 (85.0 bits), Expect = 6.5e-19, P = 6.5e-19
 Identities = 43/91 (47%), Positives = 59/91 (64%)

Query:    33 RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
             + R WK+LKQIL AE    +  ++PNY NI++PPSM P K+  DI+G  A Y DP+T LR
Sbjct:   119 KNRTWKNLKQILAAEKALLWKINDPNYCNIDAPPSMKPAKKYSDISGLPANYTDPQTKLR 178

Query:    93 YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
             +A+ E F  +R LP + V  YL LR A  ++
Sbjct:   179 FASTEEFSYIRQLPTDVVTGYLTLRKATCIV 209

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

MGI|MGI:2443014 Ino80c "INO80 complex subunit C" [Mus musculus (taxid:10090)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 40/91 (43%), Positives = 59/91 (64%)

Query:    33 RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
             + R WK+LKQIL AE    +  ++PNY +I++PPS  P K+  DI+G  A Y DP++ LR
Sbjct:   100 KNRTWKNLKQILAAERALPWQLNDPNYFSIDAPPSFKPAKKYSDISGLLANYTDPQSKLR 159

Query:    93 YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
             ++  E F  +R LP++ V  YLALR A  ++
Sbjct:   160 FSTVEEFSYIRRLPSDVVTGYLALRKATSIV 190

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0031011 "Ino80 complex" evidence=ISO

GO:0071339 "MLL1 complex" evidence=ISO

POMBASE|SPAC222.04c ies6 "Ino80 complex subunit Ies6" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 208 (78.3 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 43/97 (44%), Positives = 65/97 (67%)

Query:    28 PKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDP 87
             P  +++ R  ++L+QI+Q +  QN  P + +Y +IE+PPS+ P  + CD+TG  A Y DP
Sbjct:    22 PNYKAQPRRNRNLRQIIQNDPVQN-EPSKFSYSSIEAPPSVLPQPKYCDVTGLLAIYTDP 80

Query:    88 RTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK 124
             +T LRY N E++ L+R LP+   Q YL LR++ VVLK
Sbjct:    81 KTRLRYHNKEIYGLIRELPSGADQEYLKLRSSDVVLK 117

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=IDA

GO:0006338 "chromatin remodeling" evidence=IPI

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IDA

UNIPROTKB|Q6PI98 INO80C "INO80 complex subunit C" [Homo sapiens (taxid:9606)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 38/91 (41%), Positives = 59/91 (64%)

Query:    33 RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
             + R WK+LKQIL +E    +  ++PNY +I++PPS  P K+  D++G  A Y DP++ LR
Sbjct:   101 KNRTWKNLKQILASERALPWQLNDPNYFSIDAPPSFKPAKKYSDVSGLLANYTDPQSKLR 160

Query:    93 YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
             ++  E F  +R LP++ V  YLALR A  ++
Sbjct:   161 FSTIEEFSYIRRLPSDVVTGYLALRKATSIV 191

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0071339 "MLL1 complex" evidence=IDA

GO:0031011 "Ino80 complex" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

RGD|1310199 Ino80c "INO80 complex subunit C" [Rattus norvegicus (taxid:10116)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 38/91 (41%), Positives = 58/91 (63%)

Query:    33 RGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLR 92
             + R WK+LKQIL AE    +  ++PNY +I++PPS  P K+  D++G  A Y DP++ LR
Sbjct:   100 KNRTWKNLKQILAAERALPWQLNDPNYFSIDAPPSFKPAKKYSDVSGLLANYTDPQSKLR 159

Query:    93 YANAEVFKLVRSLPNEYVQRYLALRNAAVVL 123
             ++  E F  +R LP++ V  YL LR A  ++
Sbjct:   160 FSTVEEFSYIRRLPSDVVTGYLTLRKATSIV 190

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005730 "nucleolus" evidence=ISO

GO:0006281 "DNA repair" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0031011 "Ino80 complex" evidence=ISO

GO:0071339 "MLL1 complex" evidence=ISO;ISS

UNIPROTKB|G4N5J7 MGG_06129 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 201 (75.8 bits), Expect = 3.7e-16, P = 3.7e-16
 Identities = 40/73 (54%), Positives = 48/73 (65%)

Query:    54 PDEPN--YVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQ 111
             P  P+  Y NIES PSM P KR CDITG  APY DP+T LRY N EVF ++R LP+   +
Sbjct:   123 PSAPSATYTNIESAPSMAPMKRYCDITGLPAPYNDPKTRLRYHNKEVFGIIRGLPSGVAE 182

Query:   112 RYLALRNAAVVLK 124
             ++L  R A  VLK
Sbjct:   183 QFLEARGAHTVLK 195

GO:0003674 "molecular_function" evidence=ND

ASPGD|ASPL0000050610 AN2485 [Emericella nidulans (taxid:162425)]

 Score = 170 (64.9 bits), Expect = 7.1e-13, P = 7.1e-13
 Identities = 36/68 (52%), Positives = 45/68 (66%)

Query:    59 YVNIESPPSMHPCKR--ICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLAL 116
             Y NIES PS+HP ++   CDITG  A Y DP+T LRY + EVF ++R+L     + YL L
Sbjct:   119 YTNIESAPSLHPSQQRPYCDITGLPASYTDPKTRLRYHDKEVFGVIRTLGQGVPESYLEL 178

Query:   117 RNAAVVLK 124
             R A VVLK
Sbjct:   179 RAAHVVLK 186

GO:0006338 "chromatin remodeling" evidence=IEA

GO:0031011 "Ino80 complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

CGD|CAL0005227 orf19.2889 [Candida albicans (taxid:5476)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 38/109 (34%), Positives = 60/109 (55%)

Query:    24 YEKYP-KGQSRGRHWKHLKQILQAE-NY-----QNYPPDEPNYVNIESPPSMHPCKRICD 76
             +++ P + Q   R +K  +Q++  E  Y      N   D P Y +I SPPS+ P  + CD
Sbjct:    37 FKQNPNRKQQSNRRYKPSRQLISDELKYLQSKQSNLKFDTPTYNSIMSPPSLKPTMKYCD 96

Query:    77 ITGFEAPYYDPRTNLRYANAEVFK-LVRSLPNEYVQRYLALRNAAVVLK 124
             ITG    Y  P   LR+ N+E+++ +++++P    Q YL LR A V+LK
Sbjct:    97 ITGLPTNYKCPSNQLRFYNSEIYQEVIKNMPAGVDQEYLQLRGANVILK 145

GO:0003674 "molecular_function" evidence=ND

GO:0031011 "Ino80 complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006338 "chromatin remodeling" evidence=IEA

UNIPROTKB|Q5A1D0 CaO19.10407 "Putative uncharacterized protein" [Candida albicans SC5314 (taxid:237561)]

 Score = 161 (61.7 bits), Expect = 6.4e-12, P = 6.4e-12
 Identities = 38/109 (34%), Positives = 60/109 (55%)

Query:    24 YEKYP-KGQSRGRHWKHLKQILQAE-NY-----QNYPPDEPNYVNIESPPSMHPCKRICD 76
             +++ P + Q   R +K  +Q++  E  Y      N   D P Y +I SPPS+ P  + CD
Sbjct:    37 FKQNPNRKQQSNRRYKPSRQLISDELKYLQSKQSNLKFDTPTYNSIMSPPSLKPTMKYCD 96

Query:    77 ITGFEAPYYDPRTNLRYANAEVFK-LVRSLPNEYVQRYLALRNAAVVLK 124
             ITG    Y  P   LR+ N+E+++ +++++P    Q YL LR A V+LK
Sbjct:    97 ITGLPTNYKCPSNQLRFYNSEIYQEVIKNMPAGVDQEYLQLRGANVILK 145

GO:0003674 "molecular_function" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00036163001	SubName- Full=Putative uncharacterized protein (Chromosome chr3 scaffold_8, whole genome shotgun sequence); (124 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00025649001	SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (1308 aa)					•				0.428

---

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	124
COG5195	118	COG5195, COG5195, Uncharacterized conserved protei	9e-24
pfam08265	30	pfam08265, YL1_C, YL1 nuclear protein C-terminal d	3e-12
smart00993	30	smart00993, YL1_C, YL1 nuclear protein C-terminal	1e-10

>gnl|CDD|227522 COG5195, COG5195, Uncharacterized conserved protein [Function unknown]

 Score = 88.1 bits (218), Expect = 9e-24
 Identities = 39/99 (39%), Positives = 57/99 (57%), Gaps = 1/99 (1%)

Query: 26  KYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYY 85
           K    + + R +K L+Q++     +N       Y++IE+PPS+ P  + CD+TG  APY 
Sbjct: 21  KKSTYKGKNRRFKTLRQLIPRLTIENESSKH-RYLSIEAPPSVKPRMKYCDVTGLPAPYT 79

Query: 86  DPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNAAVVLK 124
            P T LRY N+E++KL+  LP+   Q YL LR    VLK
Sbjct: 80  CPNTGLRYHNSEIYKLICELPSGRDQEYLKLREFGKVLK 118

Length = 118

>gnl|CDD|191983 pfam08265, YL1_C, YL1 nuclear protein C-terminal domain

 Score = 56.3 bits (137), Expect = 3e-12
 Identities = 16/30 (53%), Positives = 21/30 (70%)

Query: 73  RICDITGFEAPYYDPRTNLRYANAEVFKLV 102
           + CDITG  A Y DP+T L Y+N E FK++
Sbjct: 1   KYCDITGLPAKYKDPKTGLPYSNVEAFKVI 30

This domain is found in proteins of the YL1 family. These proteins have been shown to be DNA-binding and may be a transcription factor. This domain is found in proteins that are not YL1 proteins. Length = 30

>gnl|CDD|198061 smart00993, YL1_C, YL1 nuclear protein C-terminal domain

 Score = 51.7 bits (125), Expect = 1e-10
 Identities = 18/30 (60%), Positives = 23/30 (76%)

Query: 73  RICDITGFEAPYYDPRTNLRYANAEVFKLV 102
           + CDITG  A Y DP+T LRYANAE +K++
Sbjct: 1   KYCDITGLPARYRDPKTGLRYANAEAYKVI 30

This domain is found in proteins of the YL1 family. These proteins have been shown to be DNA-binding and may be a transcription factor. This domain is found in proteins that are not YL1 proteins. Length = 30

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	124
KOG4137	102	consensus Uncharacterized conserved protein [Funct	100.0
COG5195	118	Uncharacterized conserved protein [Function unknow	100.0
PF08265	30	YL1_C: YL1 nuclear protein C-terminal domain; Inte	99.63
KOG3362	156	consensus Predicted BBOX Zn-finger protein [Genera	99.47
KOG2897	390	consensus DNA-binding protein YL1 and related prot	98.44
PF04438	30	zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc	98.43
KOG4317	383	consensus Predicted Zn-finger protein [Function un	96.79
PF13824	55	zf-Mss51: Zinc-finger of mitochondrial splicing su	94.3
KOG2857	157	consensus Predicted MYND Zn-finger protein/hormone	89.64

>KOG4137 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=3.9e-39  Score=230.77  Aligned_cols=102  Identities=42%  Similarity=0.719  Sum_probs=95.1

Q ss_pred             CCCCchhhhhcCCCCCCCCcccccHHHHHHHhhhCCCCCCCCCceeeeCCCCCCCCcccccccCCCcccCCCCCCCCccC
Q 033229           16 MSFKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYAN   95 (124)
Q Consensus        16 ~~FK~~~~~~~~~~~~~k~r~~K~lkQll~~e~~~~~~~~~ptY~si~appS~~P~kkyCdITGl~A~Y~dP~tglrY~~   95 (124)
                      .+||++       ..+.+.|+.||++|++..|..+.+.+..++|++|+||||++|+++|||||||||.|+||.|||||||
T Consensus         1 ~~fk~p-------~~kk~t~~~kn~rq~~~~e~~q~l~~~k~tYfsi~appSv~PakKycDvTGLpapYtdP~t~Lry~n   73 (102)
T KOG4137|consen    1 MKFQKP-------WYKKSTRRGKNMRQKILKELLQRLIEKKHTYFSIEAPPSVKPAKKYCDVTGLPAPYTDPNTGLRYHN   73 (102)
T ss_pred             CCccCc-------cccCCcccCccHHHHHhhhhhhhcccccCceEEecCCCccccchhhccccCCcccccCCCccceecc
Confidence            367775       3345679999999999999998888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCChHHHHHHHHhhccccccC
Q 033229           96 AEVFKLVRSLPNEYVQRYLALRNAAVVLK  124 (124)
Q Consensus        96 ~~~y~~ir~l~~~~~q~YL~lR~a~~~lk  124 (124)
                      +++|+.|++||+|+||+||.|||++++||
T Consensus        74 aeiY~~i~empsd~vq~ylklRg~~~~l~  102 (102)
T KOG4137|consen   74 AEIYKLICEMPSDRVQEYLKLRGFGKVLK  102 (102)
T ss_pred             HHHHHHHHHCCchHhhhHHhhhccccccC
Confidence            99999999999999999999999999996

>COG5195 Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=4.3e-36  Score=218.56  Aligned_cols=99  Identities=40%  Similarity=0.741  Sum_probs=90.7

Q ss_pred             CCchhhhhcCCCCCCCCcccccHHHHHHHhhhCCCCCCCCCceeeeCCCCCCCCcccccccCCCcccCCCCCCCCccCHH
Q 033229           18 FKRIQMYEKYPKGQSRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAE   97 (124)
Q Consensus        18 FK~~~~~~~~~~~~~k~r~~K~lkQll~~e~~~~~~~~~ptY~si~appS~~P~kkyCdITGl~A~Y~dP~tglrY~~~~   97 (124)
                      ||++++       +.+.|++|+++|||..+..++.+. ..+|++|+||||++|+++|||||||+|.||||.|||||||++
T Consensus        20 fk~~~Y-------k~~~rr~ktlrQli~~~~i~ne~s-k~~Y~sieappSv~P~~KyCDvTGL~a~Yt~P~t~lrYhn~e   91 (118)
T COG5195          20 FKKSTY-------KGKNRRFKTLRQLIPRLTIENESS-KHRYLSIEAPPSVKPRMKYCDVTGLPAPYTCPNTGLRYHNSE   91 (118)
T ss_pred             ccCccc-------cCcccchhhHHHHccccccccccc-cceeEeecCCCccccccccccccCCcccccCCCcCceeccHH
Confidence            888654       346799999999999987666444 579999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCChHHHHHHHHhhccccccC
Q 033229           98 VFKLVRSLPNEYVQRYLALRNAAVVLK  124 (124)
Q Consensus        98 ~y~~ir~l~~~~~q~YL~lR~a~~~lk  124 (124)
                      +|+.|++||+|++|+||+||++++|||
T Consensus        92 iY~lI~elpsg~dQeylkLR~~~~vLk  118 (118)
T COG5195          92 IYKLICELPSGRDQEYLKLREFGKVLK  118 (118)
T ss_pred             HHHHhhcCCCchhHHHHHhhhcCcccC
Confidence            999999999999999999999999997

>PF08265 YL1_C: YL1 nuclear protein C-terminal domain; InterPro: IPR013272 This domain is found at the C terminus in proteins of the YL1 family []

Probab=99.63  E-value=1.1e-16  Score=93.28  Aligned_cols=30  Identities=53%  Similarity=1.047  Sum_probs=28.8

Q ss_pred             ccccccCCCcccCCCCCCCCccCHHHHHHh
Q 033229           73 RICDITGFEAPYYDPRTNLRYANAEVFKLV  102 (124)
Q Consensus        73 kyCdITGl~A~Y~dP~tglrY~~~~~y~~i  102 (124)
                      |+|||||+||+|+||+|||||+|.++|++|
T Consensus         1 k~C~iTglpA~Y~DP~T~l~Y~n~~ayk~i   30 (30)
T PF08265_consen    1 KYCDITGLPARYRDPKTGLPYANSEAYKII   30 (30)
T ss_pred             CcccccCCCccccCCCCCCcccCHHHhhcC
Confidence            689999999999999999999999999976

These proteins have been shown to be DNA-binding and may be transcription factors []. This domain is also found in proteins that do not belong to the YL1 family.

>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]

Probab=99.47  E-value=1.3e-14  Score=110.95  Aligned_cols=68  Identities=22%  Similarity=0.480  Sum_probs=60.7

Q ss_pred             CCCcccccHHHHHHHhhhCCCCCCCCCceeeeCCCCCCCCcccccccCCCcccCCCCCCCCccCHHHHHH
Q 033229           32 SRGRHWKHLKQILQAENYQNYPPDEPNYVNIESPPSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKL  101 (124)
Q Consensus        32 ~k~r~~K~lkQll~~e~~~~~~~~~ptY~si~appS~~P~kkyCdITGl~A~Y~dP~tglrY~~~~~y~~  101 (124)
                      .+.+++|||+++|++... ++. ..++|.++.||||.+|.++||.|||++++|.|-.||.+||++.|+++
T Consensus        80 ~~~~~RKnf~~~Ldea~~-~~~-k~~~Y~~~~a~p~~KP~r~fCaVCG~~S~ysC~~CG~kyCsv~C~~~  147 (156)
T KOG3362|consen   80 FKLRFRKNFQALLDEALL-NLM-KNPNYHTAYAKPSFKPLRKFCAVCGYDSKYSCVNCGTKYCSVRCLKT  147 (156)
T ss_pred             hhhhHHHHHHHHHHccch-hhh-hccchhhcccCCCCCCcchhhhhcCCCchhHHHhcCCceeechhhhh
Confidence            467899999999987654 222 56899999999999999999999999999999999999999999986

>KOG2897 consensus DNA-binding protein YL1 and related proteins [General function prediction only]

Probab=98.44  E-value=1.1e-07  Score=81.89  Aligned_cols=46  Identities=37%  Similarity=0.675  Sum_probs=38.9

Q ss_pred             CcccccccCCCcccCCCCCCCCccCHHHHHHhhcCChHHHHHHHHhhcc
Q 033229           71 CKRICDITGFEAPYYDPRTNLRYANAEVFKLVRSLPNEYVQRYLALRNA  119 (124)
Q Consensus        71 ~kkyCdITGl~A~Y~dP~tglrY~~~~~y~~ir~l~~~~~q~YL~lR~a  119 (124)
                      .+-.|.|||.||+|.||.|||+|+++.+|++||.   ..-+.|+.+||-
T Consensus       292 ~~~~C~iTg~PA~Y~DPVT~lPy~ta~AFKviRe---~y~~~~~~~~~~  337 (390)
T KOG2897|consen  292 ERVVCVITGRPARYLDPVTGLPYSTAQAFKVIRE---RYKKHLRSIRGN  337 (390)
T ss_pred             ccccccccCCcccccCcccCCcchhHHHHHHHHH---HHHHHhhhcccc
Confidence            5669999999999999999999999999999995   345566666653

>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.43  E-value=7.4e-08  Score=55.83  Aligned_cols=30  Identities=30%  Similarity=0.659  Sum_probs=23.9

Q ss_pred             CcccccccCCCcccCCCCCCCCccCHHHHH
Q 033229           71 CKRICDITGFEAPYYDPRTNLRYANAEVFK  100 (124)
Q Consensus        71 ~kkyCdITGl~A~Y~dP~tglrY~~~~~y~  100 (124)
                      ++++|.|+|.+|+|+||+++++|++.++|+
T Consensus         1 ~~~~C~vC~~~~kY~Cp~C~~~~CSl~C~k   30 (30)
T PF04438_consen    1 PRKLCSVCGNPAKYRCPRCGARYCSLACYK   30 (30)
T ss_dssp             --EEETSSSSEESEE-TTT--EESSHHHHH
T ss_pred             CcCCCccCcCCCEEECCCcCCceeCcEeEC
Confidence            467999999999999999999999999985

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 the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.

>KOG4317 consensus Predicted Zn-finger protein [Function unknown]

Probab=96.79  E-value=0.00033  Score=60.11  Aligned_cols=48  Identities=23%  Similarity=0.376  Sum_probs=35.2

Q ss_pred             cccccccCC-CcccCCCCCCCCccCHHHHHHhhc------CChHHHHHHHHhhcc
Q 033229           72 KRICDITGF-EAPYYDPRTNLRYANAEVFKLVRS------LPNEYVQRYLALRNA  119 (124)
Q Consensus        72 kkyCdITGl-~A~Y~dP~tglrY~~~~~y~~ir~------l~~~~~q~YL~lR~a  119 (124)
                      .-+|.|||. ++.||||+|.++||+..||+.=..      +-..|.|+.=.+|+.
T Consensus         7 ~~~C~ic~vq~~~YtCPRCn~~YCsl~CYr~h~~~CsE~FyrdqV~~eL~~~r~d   61 (383)
T KOG4317|consen    7 FLACGICGVQKREYTCPRCNLLYCSLKCYRNHKHSCSEKFYRDQVKQELSGKRAD   61 (383)
T ss_pred             eeeccccccccccccCCCCCccceeeeeecCCCccchHHHHHHHHHHHhhhcccc
Confidence            458999996 789999999999999999986443      223344555555554

>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51

Probab=94.30  E-value=0.027  Score=36.93  Aligned_cols=25  Identities=12%  Similarity=0.242  Sum_probs=21.8

Q ss_pred             cccccCC----CcccCCCCCCCCccCHHH
Q 033229           74 ICDITGF----EAPYYDPRTNLRYANAEV   98 (124)
Q Consensus        74 yCdITGl----~A~Y~dP~tglrY~~~~~   98 (124)
                      +|.+|+-    .-+|.||.||++++.++.
T Consensus         1 ~Cpv~~~~~~~~v~~~Cp~cGipthcS~e   29 (55)
T PF13824_consen    1 LCPVCKKDLPAHVNFECPDCGIPTHCSEE   29 (55)
T ss_pred             CCCCCccccccccCCcCCCCCCcCccCHH
Confidence            5999999    999999999999876654

>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]

Probab=89.64  E-value=0.19  Score=39.09  Aligned_cols=34  Identities=26%  Similarity=0.408  Sum_probs=28.6

Q ss_pred             cccccccCC-CcccCCCCCCCCccCHHHHHHhhcC
Q 033229           72 KRICDITGF-EAPYYDPRTNLRYANAEVFKLVRSL  105 (124)
Q Consensus        72 kkyCdITGl-~A~Y~dP~tglrY~~~~~y~~ir~l  105 (124)
                      ...|.||-- +.+|+||.|..+||+.-||++=+.-
T Consensus         5 t~tC~ic~e~~~KYKCpkC~vPYCSl~CfKiHk~t   39 (157)
T KOG2857|consen    5 TTTCVICLESEIKYKCPKCSVPYCSLPCFKIHKST   39 (157)
T ss_pred             eeeehhhhcchhhccCCCCCCccccchhhhhccCC
Confidence            346888865 5699999999999999999987763

---

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	124
2yqq_A	56	Zinc finger HIT domain-containing protein 3; struc	98.35
1x4s_A	59	Protein FON, zinc finger HIT domain containing pro	98.26

>2yqq_A Zinc finger HIT domain-containing protein 3; structure genomics, ZF-HIT domain, TRIP-3, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=2.7e-07  Score=59.54  Aligned_cols=38  Identities=16%  Similarity=0.293  Sum_probs=33.3

Q ss_pred             CCCCCCcccccccCCCcccCCCCCCCCccCHHHHHHhh
Q 033229           66 PSMHPCKRICDITGFEAPYYDPRTNLRYANAEVFKLVR  103 (124)
Q Consensus        66 pS~~P~kkyCdITGl~A~Y~dP~tglrY~~~~~y~~ir  103 (124)
                      .++.-...+|.|||.+++|+||+|++|||+.++|+.-+
T Consensus         6 ~~~~~~~~~C~vC~~~~kY~CPrC~~~yCSl~C~k~Hk   43 (56)
T 2yqq_A            6 SGLKCSTVVCVICLEKPKYRCPACRVPYCSVVCFRKHK   43 (56)
T ss_dssp             CCCCCCCCCCTTTCSCCSEECTTTCCEESSHHHHHHHH
T ss_pred             cccCCCCCccCcCcCCCeeeCCCCCCCeeCHHHHHHHH
Confidence            35666677999999999999999999999999998754

>1x4s_A Protein FON, zinc finger HIT domain containing protein 2; structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.85.1.2

Probab=98.26  E-value=3.5e-07  Score=59.71  Aligned_cols=38  Identities=21%  Similarity=0.235  Sum_probs=32.9

Q ss_pred             CCCCCCCcccccccC----CCcccCCCCCCCCccCHHHHHHh
Q 033229           65 PPSMHPCKRICDITG----FEAPYYDPRTNLRYANAEVFKLV  102 (124)
Q Consensus        65 ppS~~P~kkyCdITG----l~A~Y~dP~tglrY~~~~~y~~i  102 (124)
                      .+|-.++...|.||+    .+|+|+||+|++|||+..+|+.=
T Consensus         4 ~~s~m~~~~~C~vC~~~~~~~akY~CPrC~~rYCSl~C~k~H   45 (59)
T 1x4s_A            4 GSSGMEPAGPCGFCPAGEVQPARYTCPRCNAPYCSLRCYRTH   45 (59)
T ss_dssp             CCSSCCCCEEECSSCTTCCEEECEECTTTCCEESSHHHHHHH
T ss_pred             CCCCCCCCCcCcCCCCCcCCCccccCcCCCCCccChHHHHHH
Confidence            455566678999999    59999999999999999999853

---

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	124
d1x4sa1	46	Zinc finger HIT domain containing protein 2, ZNHIT	96.62
d1y0jb1	36	U-shaped transcription factor, different fingers {	88.91
d2dana1	47	Zinc finger MYND domain-containing protein 10, ZMY	87.96

>d1x4sa1 g.85.1.2 (A:8-53) Zinc finger HIT domain containing protein 2, ZNHIT2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: HIT zinc finger
domain: Zinc finger HIT domain containing protein 2, ZNHIT2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.62  E-value=0.00028  Score=42.36  Aligned_cols=28  Identities=25%  Similarity=0.460  Sum_probs=25.1

Q ss_pred             cccccC-CCcccCCCCCCCCccCHHHHHH
Q 033229           74 ICDITG-FEAPYYDPRTNLRYANAEVFKL  101 (124)
Q Consensus        74 yCdITG-l~A~Y~dP~tglrY~~~~~y~~  101 (124)
                      +|.|++ -+++|+||+++.+||+..+|+.
T Consensus         9 lC~vC~~~~~KY~CP~C~~~yCSL~CyK~   37 (46)
T d1x4sa1           9 FCPAGEVQPARYTCPRCNAPYCSLRCYRT   37 (46)
T ss_dssp             SSCTTCCEEECEECTTTCCEESSHHHHHH
T ss_pred             cChhhhCccccccCCCCCCceechHHHhh
Confidence            688887 4789999999999999999985

>d1y0jb1 g.37.1.2 (B:1-36) U-shaped transcription factor, different fingers {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Small proteins
fold: beta-beta-alpha zinc fingers
superfamily: beta-beta-alpha zinc fingers
family: C2HC finger
domain: U-shaped transcription factor, different fingers
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=88.91  E-value=0.13  Score=28.67  Aligned_cols=20  Identities=5%  Similarity=0.208  Sum_probs=17.2

Q ss_pred             CcccCCCCCCCCccCHHHHH
Q 033229           81 EAPYYDPRTNLRYANAEVFK  100 (124)
Q Consensus        81 ~A~Y~dP~tglrY~~~~~y~  100 (124)
                      ||+|.|+-||+||.+....+
T Consensus         6 parf~c~pcgirfss~stle   25 (36)
T d1y0jb1           6 PARFMCLPCGIAFSSPSTLE   25 (36)
T ss_dssp             CCCCBCTTTCCBCSCHHHHH
T ss_pred             ccceeccccceeecChhHHH
Confidence            78899999999999987654

>d2dana1 g.85.1.1 (A:8-54) Zinc finger MYND domain-containing protein 10, ZMYND10 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: HIT/MYND zinc finger-like
superfamily: HIT/MYND zinc finger-like
family: MYND zinc finger
domain: Zinc finger MYND domain-containing protein 10, ZMYND10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.96  E-value=0.17  Score=29.31  Aligned_cols=33  Identities=21%  Similarity=0.187  Sum_probs=27.7

Q ss_pred             CCCCcccccccCCCcccCCCCCC-CCccCHHHHH
Q 033229           68 MHPCKRICDITGFEAPYYDPRTN-LRYANAEVFK  100 (124)
Q Consensus        68 ~~P~kkyCdITGl~A~Y~dP~tg-lrY~~~~~y~  100 (124)
                      +.|.+..|..+|-++..+|..++ .+|++.++-.
T Consensus         4 ~~p~~~~C~~Cg~~~~~~Cs~C~~~~YCs~~CQ~   37 (47)
T d2dana1           4 VAPERPRCAYCSAEASKRCSRCQNEWYCCRECQV   37 (47)
T ss_dssp             CCCCCCCCSSSCCCCCEECTTTSCSEESSHHHHH
T ss_pred             cCCCCCcCcCCCChhhccCCCCCCEeeCCHHHHH
Confidence            45666679999999999999998 6888888754