Citrus Sinensis ID: 020522

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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-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-----
Protein Sequence
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEYL
Secondary Structure (PSIPRED)
cEEEEEEcccccEEEEEEEEEEcccccHHHHHHHHHcHHccccccccEEEEEcccccHHHHHHHHHccccHHHHHHHHHHHccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHccccccccccccccccccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEccEEEEEEEcccEEEEEEEcccccccccccccccccccHHHHHHHccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEcccccEEEEEEEEEEccccHHHHHHHHHHHHHccccccccEEEEEcccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccHHHHHHHHHHHHHHcHHHHHHHHHccHHHHHHHHccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEcccEEEEEEccccEEcccccccccccHHHHHHHHHHccccHHHHHHHHccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccEEEcccccccccccEEEEccccccccc
Coil and Loop (DISEMBL)
mltavgidandgiwPVAVYEVEEESNSTWYNFLLKLGEMLrvdngegfcfisdgenGVEDALEALMCRAEIRICAQTVYERMkakfpsniLWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHcmpawakctHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKqccdcgswqlsgipcahaSKCILnvgrevddfvdplltkdryLSTYAVMMQLlpeekcwpsskfesilppqnantpdltihkaknselccskvkQVSVVMSLYLiqpcglseyl
Flexible Loop (DISEMBL)
mltavgidandgiwPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLiqpcglseyl
Low Complexity Region (SEG)
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEYL
Disordered region (IsUnstruct)
***AVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFE*I**********LTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGL****
Disordered Region (DISOPRED)
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESI*************************************IQPCGL****
Disordered Region (DISEMBL)
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEYL
Disordered Region (DISPRO)
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQN************NSELCCSKVKQVSVVMSLYLIQPCGL****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAIEAAREMNVEATEGQVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFESILPPQNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEYL
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	325
40714668	839	putative transposon protein [Oryza sativ	0.883	0.342	0.284	9e-27
218194045	1029	hypothetical protein OsI_14206 [Oryza sa	0.883	0.278	0.284	1e-26
222626119	974	hypothetical protein OsJ_13260 [Oryza sa	0.883	0.294	0.284	1e-26
242082275	846	hypothetical protein SORBIDRAFT_07g02782	0.883	0.339	0.262	1e-24
125553424	1005	hypothetical protein OsI_21092 [Oryza sa	0.883	0.285	0.265	2e-24
31432298	1005	transposon protein, putative, Mutator su	0.883	0.285	0.265	2e-24
242092796	981	hypothetical protein SORBIDRAFT_10g01062	0.981	0.325	0.259	2e-24
147821706	632	hypothetical protein VITISV_007696 [Viti	0.716	0.368	0.299	2e-24
37700327	981	hypothetical protein [Oryza sativa Japon	0.858	0.284	0.286	8e-24
242044494	1036	hypothetical protein SORBIDRAFT_02g02302	0.987	0.309	0.249	1e-23

>gi|40714668|gb|AAR88574.1| putative transposon protein [Oryza sativa Japonica Group] gi|108711944|gb|ABF99739.1| transposon protein, putative, Mutator sub-class [Oryza sativa Japonica Group]

 Score =  127 bits (318), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 90/316 (28%), Positives = 144/316 (45%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVD-NGEGFCFISDGENGVE 59
           +L+AVG DAN+ I+P+A   VE E+ S+W  FL  L + L +   G+G+ F++D + G+ 
Sbjct: 381 LLSAVGRDANNQIYPIAWAVVEYENASSWNWFLGHLQKDLNIPYGGDGWVFLTDQQKGLL 440

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
             +E L  +AE R+CA+ +Y   + +       + FW   RS+NA  F  +  ++     
Sbjct: 441 SVIEHLFPKAEHRMCARHIYANWRKRHRLQEYQKRFWKIARSSNAVLFNHYKSKLANKTP 500

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
             +E L ++    W        + C  V N + + F  W           M E     +T
Sbjct: 501 MGWEDLEKTNPIHWCRAWFKLGSNCDSVENNICESFNNWIIEARFKPIITMLEDIRMKVT 560

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++    N+            +++N      Q  HVL NG S         R +VD+  
Sbjct: 561 RRIQENKTNSERWTMGICPNILKKINKIRHATQFCHVLWNGSSGFEVREKKWRFTVDLSA 620

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
             C C  WQ+SGIPC HA      +  E ++ V+   + D+Y +TY  ++Q +  E  WP
Sbjct: 621 NTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPVEHESVWP 680

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 681 LSTNPRPLPPRVKKMP 696

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218194045|gb|EEC76472.1| hypothetical protein OsI_14206 [Oryza sativa Indica Group]

 Score =  126 bits (317), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 90/316 (28%), Positives = 144/316 (45%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVD-NGEGFCFISDGENGVE 59
           +L+AVG DAN+ I+P+A   VE E+ S+W  FL  L + L +   G+G+ F++D + G+ 
Sbjct: 449 LLSAVGRDANNQIYPIAWAVVEYENASSWNWFLGHLQKDLNIPYGGDGWVFLTDQQKGLL 508

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
             +E L  +AE R+CA+ +Y   + +       + FW   RS+NA  F  +  ++     
Sbjct: 509 SVIEHLFPKAEHRMCARHIYANWRKRHRLQEYQKRFWKIARSSNAVLFNHYKSKLANKTP 568

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
             +E L ++    W        + C  V N + + F  W           M E     +T
Sbjct: 569 MGWEDLEKTNPIHWCRAWFKLGSNCDSVENNICESFNNWIIEARFKPIITMLEDIRMKVT 628

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++    N+            +++N      Q  HVL NG S         R +VD+  
Sbjct: 629 RRIQENKTNSERWTMGICPNILKKINKIRHATQFCHVLWNGSSGFEVREKKWRFTVDLSA 688

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
             C C  WQ+SGIPC HA      +  E ++ V+   + D+Y +TY  ++Q +  E  WP
Sbjct: 689 NTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPVEHESVWP 748

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 749 LSTNPRPLPPRVKKMP 764

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222626119|gb|EEE60251.1| hypothetical protein OsJ_13260 [Oryza sativa Japonica Group]

 Score =  126 bits (317), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 90/316 (28%), Positives = 144/316 (45%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVD-NGEGFCFISDGENGVE 59
           +L+AVG DAN+ I+P+A   VE E+ S+W  FL  L + L +   G+G+ F++D + G+ 
Sbjct: 394 LLSAVGRDANNQIYPIAWAVVEYENASSWNWFLGHLQKDLNIPYGGDGWVFLTDQQKGLL 453

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
             +E L  +AE R+CA+ +Y   + +       + FW   RS+NA  F  +  ++     
Sbjct: 454 SVIEHLFPKAEHRMCARHIYANWRKRHRLQEYQKRFWKIARSSNAVLFNHYKSKLANKTP 513

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
             +E L ++    W        + C  V N + + F  W           M E     +T
Sbjct: 514 MGWEDLEKTNPIHWCRAWFKLGSNCDSVENNICESFNNWIIEARFKPIITMLEDIRMKVT 573

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++    N+            +++N      Q  HVL NG S         R +VD+  
Sbjct: 574 RRIQENKTNSERWTMGICPNILKKINKIRHATQFCHVLWNGSSGFEVREKKWRFTVDLSA 633

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
             C C  WQ+SGIPC HA      +  E ++ V+   + D+Y +TY  ++Q +  E  WP
Sbjct: 634 NTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPVEHESVWP 693

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 694 LSTNPRPLPPRVKKMP 709

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242082275|ref|XP_002445906.1| hypothetical protein SORBIDRAFT_07g027820 [Sorghum bicolor] gi|241942256|gb|EES15401.1| hypothetical protein SORBIDRAFT_07g027820 [Sorghum bicolor]

 Score =  120 bits (300), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 83/316 (26%), Positives = 148/316 (46%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGE-GFCFISDGENGVE 59
           +L+A+G DAN+ I+P+A   VE E+ S+W  FL    + L++  G  G+ F++D + G+ 
Sbjct: 476 LLSAIGRDANNQIYPIAWAVVEYENLSSWKWFLGHRQKDLKIPYGAAGWVFLTDKQKGLL 535

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
            A++     AE R+CA+ +Y   + K       + FW   +++N   F  + +++     
Sbjct: 536 KAIDHFFPMAEHRMCARHIYANWRKKHRLQEYQKRFWKIAKASNEMLFNYYKNKLAAKTP 595

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
           + ++ L ++             + C  V N + + F  W           M E     +T
Sbjct: 596 KGWDDLQKTDPVHGCRAFFKEGSNCESVDNNVSESFNSWIIDARFKPIITMLEDICIMVT 655

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++   +N+            R++N      Q  HVL NG S         R +VD+++
Sbjct: 656 RRIQKNRSNSERWTMGICPNILRKVNKIRHATQYCHVLWNGASGFEVRDKKWRFTVDLEQ 715

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
           + C CG WQ+SG+PC HA   +  +  E +++V+   + D+Y +TY  ++Q +  E  W 
Sbjct: 716 KTCSCGYWQVSGLPCRHACAALFTMSDEPNNYVNGCFSIDQYKATYQHVLQPVEHESAWS 775

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 776 VSPNPRPLPPRVKKMP 791

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125553424|gb|EAY99133.1| hypothetical protein OsI_21092 [Oryza sativa Indica Group]

 Score =  119 bits (299), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 84/316 (26%), Positives = 141/316 (44%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGE-GFCFISDGENGVE 59
           +L+A+G DAN+ ++P+A   VE E+  +W  FL  L + + +  G  G+ FI+D + G+ 
Sbjct: 496 LLSAIGRDANNQLYPIAWAVVEYENKDSWNWFLGHLQKDINIPVGAAGWVFITDQQKGLL 555

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
             +  L   AE R+CA+ +Y   + K       + FW   ++ N   F  +  ++     
Sbjct: 556 SIVSTLFPFAEHRMCARHIYANWRKKHRLQEYQKRFWKIAKAPNEQLFNHYKRKLAAKTP 615

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
           R ++ L ++    W+       + C  V N M + F  W           M E     +T
Sbjct: 616 RGWQDLEKTNPIHWSRAWFRLGSNCESVDNNMSESFNSWIIESRFKPIITMLEDIRIQVT 675

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++   +N+            R+ N      Q  HVL NG +         R +VD+  
Sbjct: 676 RRIQENRSNSERWTMTVCPNIIRKFNKIRHRTQFCHVLWNGDAGFEVRDKKWRFTVDLTS 735

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
           + C C  WQ+SGIPC HA   +  + +E ++ +    + +RY  TY  ++Q +  E  WP
Sbjct: 736 KTCSCRYWQVSGIPCQHACAALFKMAQEPNNCIHECFSLERYKKTYQHVLQPVEHESAWP 795

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 796 VSPNPKPLPPRVKKMP 811

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|31432298|gb|AAP53948.1| transposon protein, putative, Mutator sub-class [Oryza sativa Japonica Group]

 Score =  119 bits (299), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 84/316 (26%), Positives = 141/316 (44%), Gaps = 29/316 (9%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGE-GFCFISDGENGVE 59
           +L+A+G DAN+ ++P+A   VE E+  +W  FL  L + + +  G  G+ FI+D + G+ 
Sbjct: 496 LLSAIGRDANNQLYPIAWAVVEYENKDSWNWFLGHLQKDINIPVGAAGWVFITDQQKGLL 555

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
             +  L   AE R+CA+ +Y   + K       + FW   ++ N   F  +  ++     
Sbjct: 556 SIVSTLFPFAEHRMCARHIYANWRKKHRLQEYQKRFWKIAKAPNEQLFNHYKRKLAAKTP 615

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFW-----------MHEYFAQSIT 168
           R ++ L ++    W+       + C  V N M + F  W           M E     +T
Sbjct: 616 RGWQDLEKTNPIHWSRAWFRLGSNCESVDNNMSESFNSWIIESRFKPIITMLEDIRIQVT 675

Query: 169 RRMEAIVNNA--------IEAAREMNVEATEGQVMHVLENGIS---------RVSVDIKK 211
           RR++   +N+            R+ N      Q  HVL NG +         R +VD+  
Sbjct: 676 RRIQENRSNSERWTMTVCPNIIRKFNKIRHRTQFCHVLWNGDAGFEVRDKKWRFTVDLTS 735

Query: 212 QCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWP 271
           + C C  WQ+SGIPC HA   +  + +E ++ +    + +RY  TY  ++Q +  E  WP
Sbjct: 736 KTCSCRYWQVSGIPCQHACAALFKMAQEPNNCIHECFSLERYKKTYQHVLQPVEHESAWP 795

Query: 272 SSKFESILPPQNANTP 287
            S     LPP+    P
Sbjct: 796 VSPNPKPLPPRVKKMP 811

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242092796|ref|XP_002436888.1| hypothetical protein SORBIDRAFT_10g010620 [Sorghum bicolor] gi|241915111|gb|EER88255.1| hypothetical protein SORBIDRAFT_10g010620 [Sorghum bicolor]

 Score =  119 bits (298), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 93/359 (25%), Positives = 161/359 (44%), Gaps = 40/359 (11%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRV-DNGEGFCFISDGENGVE 59
           +L A+G DAN+ ++PVA   V  E+  TWY FL  L + L + + GE +  ISD + G+ 
Sbjct: 500 LLCAIGRDANNQMYPVAWAAVPIENYDTWYWFLSLLQKDLNICNGGEEWVLISDQQKGLL 559

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
            A++ L+  AE R+CA+ +Y   + K+    L + +W   ++++ T F  +   +     
Sbjct: 560 KAVQELVPNAEHRMCARHIYANWRKKYTDKKLQKKWWRCAKASSRTLFNMYRAYLAQETP 619

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKF--------FFWMHEYFAQSITRRM 171
              + +M++  E W+       + C  V N + + F        F+ +         + M
Sbjct: 620 EGAQDMMKTSPEHWSRAFFRIGSNCDSVDNNICESFNNSIMEARFYPVISMCEHIRKKLM 679

Query: 172 EAIVNNAIEAAR-------------EMNVE----------ATEGQVMHVLENGISRVSVD 208
             I  N   AA              +MN+E            +G    V E    +  V+
Sbjct: 680 VRIQENRARAANWTGTICPNVFKKLKMNIEWSGRCYVLWNGEDG--FEVQEREDRKYIVN 737

Query: 209 IKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEK 268
           ++ + C C  WQLSG+PC HA  CI     ++DDF+ P  +K+ Y+ TY  ++Q +   +
Sbjct: 738 LQNKECTCRYWQLSGLPCCHAISCIYKASLKLDDFIAPCYSKEAYMMTYQHVLQPVQGPE 797

Query: 269 CWPSSKFESILPP---QNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEY 324
            WP+S     LPP   +    P     + +  E   +K+ +V   M+  L   CG  ++
Sbjct: 798 NWPTSDMPRPLPPAFVKMPGRPKTQRRREQGEEPKGTKLSKVGTKMTCRL---CGKQDH 853

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147821706|emb|CAN65999.1| hypothetical protein VITISV_007696 [Vitis vinifera]

 Score =  119 bits (297), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 82/274 (29%), Positives = 126/274 (45%), Gaps = 41/274 (14%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLL-KLGEMLRVD-NGEGFCFISDGENGV 58
           +L AVG D ND I+P+A   VE E+ S+W  FL   L ++  VD NG G           
Sbjct: 336 LLVAVGNDGNDNIFPIAFAIVEIENKSSWTWFLQCLLDDIGHVDENGWGLV--------- 386

Query: 59  EDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLD 118
            +  + LM  AE R C + ++   K  FP  +L    W A R+T    F  H+DE+K LD
Sbjct: 387 -ETFKDLMPNAEHRFCVRHLHXNFKKDFPXKVLKDAMWSAARATTKNSFDFHMDELKKLD 445

Query: 119 ERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAI---V 175
            + YEWL++     W+ H     +K   + N + + F  W+ E   + +   ME I   +
Sbjct: 446 VKAYEWLVKLDVRTWSRHAFNPRSKSDTLVNNIAESFNAWILEAXDKPVLTMMEIIRVML 505

Query: 176 NNAIEAARE--------------MNVEATEGQVMHVLE--NGIS----------RVSVDI 209
              ++  R+                +E  + +V H +   NG S          R  VD+
Sbjct: 506 MQRLQTKRDHMRRYEGRVCPRIYKKLERIKXEVGHCISRWNGESKYEVEYIYGGRYVVDL 565

Query: 210 KKQCCDCGSWQLSGIPCAHASKCILNVGREVDDF 243
            ++ C CG W LSGIPC HA+  I+  G +++ +
Sbjct: 566 NERTCGCGRWGLSGIPCFHAAAAIIEHGEQLETY 599

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|37700327|gb|AAR00617.1| hypothetical protein [Oryza sativa Japonica Group] gi|108709800|gb|ABF97595.1| transposon protein, putative, Mutator sub-class [Oryza sativa Japonica Group]

 Score =  117 bits (293), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 89/311 (28%), Positives = 137/311 (44%), Gaps = 32/311 (10%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVED 60
           +LTAVGID ND I+P+A+  VE ES STW  FL  L + + + N   +  ++D + G+  
Sbjct: 492 LLTAVGIDPNDCIFPIAMAVVEVESFSTWSWFLQTLKDDVGIVNTYPWTIMTDKQKGLIP 551

Query: 61  ALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDER 120
           A++ L   +E R C + +Y+  +  F   IL    W   RS++  E+    +E+K L+E 
Sbjct: 552 AVQQLFPDSEHRFCVRHLYQNFQQSFKGEILKNQLWACARSSSVQEWNTKFEEMKALNED 611

Query: 121 CYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAI------ 174
            Y WL +     W       + KC  + N   + F  ++ E     I   +E I      
Sbjct: 612 AYNWLEQMAPNTWVRAFFSDFPKCDILLNNSCEVFNKYILEAREMPILTMLEKIKGQLMT 671

Query: 175 --VNNAIEA------------------AREMNV----EATEGQVMHVLENGISRVSVDIK 210
              N   EA                  A + N+     A +G V  V E G   + VD+ 
Sbjct: 672 RFFNKQKEAQKWQGPICPKIRKKLLKIAEQANICYVLPAGKG-VFQVEERGTKYI-VDVV 729

Query: 211 KQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCW 270
            + CDC  W L+GIPC HA  CI       +DF+    + + + + YA  +    ++  W
Sbjct: 730 TKHCDCRRWDLTGIPCCHAIACIREDHLSEEDFLPHCYSINAFKAVYAENIIPCNDKANW 789

Query: 271 PSSKFESILPP 281
                  ILPP
Sbjct: 790 EKMNGPQILPP 800

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242044494|ref|XP_002460118.1| hypothetical protein SORBIDRAFT_02g023020 [Sorghum bicolor] gi|241923495|gb|EER96639.1| hypothetical protein SORBIDRAFT_02g023020 [Sorghum bicolor]

 Score =  116 bits (290), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 89/357 (24%), Positives = 160/357 (44%), Gaps = 36/357 (10%)

Query: 1   MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRV-DNGEGFCFISDGENGVE 59
           +L AVG DAN+ ++PVA   V  E+  TWY F+  L + L + D G  +  ISD + G+ 
Sbjct: 544 LLCAVGRDANNQMYPVAWAAVPIENYDTWYWFISLLQKDLNISDGGSEWVLISDQQKGLL 603

Query: 60  DALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFYRHLDEIKVLDE 119
            A++ L+  AE R+CA+ +Y   + K+    L + +W   +++N + F  +   +     
Sbjct: 604 KAVKELVPNAEHRMCARHIYANWRKKYTDKKLQKKWWRCAKASNTSLFNLYRAWLAEATP 663

Query: 120 RCYEWLMESKWERWALHCMPAWAKCTHVTNKMGKKFFFWMHEYFAQSITRRMEAIVNNAI 179
                +M +  E W+       + C  + N M + F   + E     +    EAI    +
Sbjct: 664 EGAADMMTTSPEHWSRAYFRLGSNCDSIDNNMCESFNNSIMEARFYPVISMCEAIRKKLM 723

Query: 180 EAAREMNVEATE--GQV---------------------------MHVLENGISRVSVDIK 210
              +E    A +  G++                             V E    R +V+++
Sbjct: 724 VRIQENRTRAQKWNGKICPNIFKKLKLSIQLSGNCIVLWNGEHGFEVQEREDRRYTVNLQ 783

Query: 211 KQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCW 270
            + C C  WQLSG+PC HA   I     +++D++ P  + D Y++TYA ++Q +   + W
Sbjct: 784 LKQCSCRYWQLSGLPCCHAISAIYKASHKIEDYIAPCFSIDAYMATYAHVLQPVEGAENW 843

Query: 271 PSSKFESILPP---QNANTPDLTIHKAKNSELCCSKVKQVSVVMSLYLIQPCGLSEY 324
           P+++    LPP   +    P     + +  +   +K+ +V V M+  L   CG S++
Sbjct: 844 PTAEMPKPLPPAFVKMPGRPKTQRTREQWEQPKGTKLSRVGVKMTCRL---CGKSDH 897

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	325
TAIR|locus:1006230722	750	AT1G64255 [Arabidopsis thalian	0.267	0.116	0.311	3.7e-09
TAIR|locus:2197122	785	AT1G49920 "AT1G49920" [Arabido	0.283	0.117	0.268	4.8e-07
TAIR|locus:2014230	719	AT1G64260 "AT1G64260" [Arabido	0.252	0.114	0.253	7.2e-07

TAIR|locus:1006230722 AT1G64255 [Arabidopsis thaliana (taxid:3702)]

 Score = 108 (43.1 bits), Expect = 3.7e-09, Sum P(2) = 3.7e-09
 Identities = 28/90 (31%), Positives = 38/90 (42%)

Query:   193 QVMHVLENGISRVSVDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDR 252
             QV   L+ G     V +    C CG +Q    PC HA      +      +VD   T +R
Sbjct:   633 QVATALDKG--ECIVQLSDCSCTCGDFQRYKFPCLHALAVCKKLKFNPLQYVDDCYTLER 690

Query:   253 YLSTYAVMMQLLPEEKCWP-SSKFESILPP 281
                TYA +   +PE   WP +S    +LPP
Sbjct:   691 LKRTYATIFSHVPEMSAWPEASGVPRLLPP 720

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2197122 AT1G49920 "AT1G49920" [Arabidopsis thaliana (taxid:3702)]

 Score = 108 (43.1 bits), Expect = 4.8e-07, Sum P(2) = 4.8e-07
 Identities = 25/93 (26%), Positives = 38/93 (40%)

Query:   207 VDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPE 266
             V +    C CG +Q +  PC HA      +      +VD   T +RY  TY+     +PE
Sbjct:   652 VQLNDTTCTCGEFQKNKFPCLHALAVCDELKINPLQYVDDCYTVERYHKTYSAKFSPVPE 711

Query:   267 EKCWPSSK-FESILPPQNANTPDLTIHKAKNSE 298
                WP +    +++PP     P     K K  +
Sbjct:   712 LSAWPEAYGVPTLIPPVIEPPPPKVSGKGKEKD 744

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2014230 AT1G64260 "AT1G64260" [Arabidopsis thaliana (taxid:3702)]

 Score = 100 (40.3 bits), Expect = 7.2e-07, Sum P(2) = 7.2e-07
 Identities = 21/83 (25%), Positives = 34/83 (40%)

Query:   207 VDIKKQCCDCGSWQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPE 266
             V +    C C  +Q    PC HA      +      +VD   T ++Y  TYA     +P+
Sbjct:   636 VQLNVSTCTCRKFQSYKFPCLHALAVFEKLKINPLQYVDECYTVEQYCKTYAATFSPVPD 695

Query:   267 EKCWPSS-KFESILPPQNANTPD 288
                WP   +  ++ PP    +P+
Sbjct:   696 VAAWPEDCRVPTLFPPSQQLSPN 718

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" 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

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: OsJ_13260 transposon protein, putative, unclassified (839 aa) (Oryza sativa Japonica)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	325
pfam10551	88	pfam10551, MULE, MULE transposase domain	1e-07
smart00575	28	smart00575, ZnF_PMZ, plant mutator transposase zin	0.002

>gnl|CDD|220806 pfam10551, MULE, MULE transposase domain

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 2/83 (2%)

Query: 1  MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVED 60
             AVG+D +   +P+A   V +ES  +W  FL  L + L          ISDG+ G++ 
Sbjct: 8  YKGAVGVDHHGQGFPLAFALVSDESEESWTWFLEGLKKALGGRPPL--TIISDGDKGLKK 65

Query: 61 ALEALMCRAEIRICAQTVYERMK 83
          A++ +   A  R+C   +   +K
Sbjct: 66 AIKEVFPNARHRLCLWHILRNLK 88

This domain was identified by Babu and colleagues. Length = 88

>gnl|CDD|128845 smart00575, ZnF_PMZ, plant mutator transposase zinc finger

 Score = 34.8 bits (81), Expect = 0.002
 Identities = 11/18 (61%), Positives = 13/18 (72%)

Query: 212 QCCDCGSWQLSGIPCAHA 229
           + C C  +QLSGIPC HA
Sbjct: 1   KTCSCRKFQLSGIPCRHA 18

Length = 28

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	325
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF00872	381	Transposase_mut: Transposase, Mutator family; Inte	99.85
PF10551	93	MULE: MULE transposase domain; InterPro: IPR018289	99.84
COG3328	379	Transposase and inactivated derivatives [DNA repli	99.61
smart00575	28	ZnF_PMZ plant mutator transposase zinc finger.	99.13
PF04434	40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.52
PF06782	470	UPF0236: Uncharacterised protein family (UPF0236);	96.05
PF13610	140	DDE_Tnp_IS240: DDE domain	95.8
PF01610	249	DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Aut	94.94
PF15288	40	zf-CCHC_6: Zinc knuckle	92.37
COG3316	215	Transposase and inactivated derivatives [DNA repli	86.99
PF02178	13	AT_hook: AT hook motif; InterPro: IPR017956 AT hoo	86.01
COG4888	104	Uncharacterized Zn ribbon-containing protein [Gene	85.87
PRK14892	99	putative transcription elongation factor Elf1; Pro	83.5
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	82.11
COG5431	117	Uncharacterized metal-binding protein [Function un	80.84

>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional

Probab=100.00  E-value=3.1e-45  Score=365.62  Aligned_cols=252  Identities=12%  Similarity=0.157  Sum_probs=217.3

Q ss_pred             CeEEEEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHH
Q 020522            1 MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYE   80 (325)
Q Consensus         1 ll~a~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~   80 (325)
                      |..++|+|+|++++++|+||+.+|+.|+|.|+|++|+++|++.  .|.+||||++.+|.+||++|||++.||+|+|||++
T Consensus       304 fa~FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk--~P~tIiTDqd~am~~AI~~VfP~t~Hr~C~wHI~~  381 (846)
T PLN03097        304 LALFVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQ--APKVIITDQDKAMKSVISEVFPNAHHCFFLWHILG  381 (846)
T ss_pred             EEEEEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCC--CCceEEecCCHHHHHHHHHHCCCceehhhHHHHHH
Confidence            4679999999999999999999999999999999999999987  69999999999999999999999999999999999


Q ss_pred             HHHhhCC-----CchhHHHHHhhhc-ccChHHHHHHHHHH-HhhhhHhhHHHHhc--ccchhhhcccCCCccccccccch
Q 020522           81 RMKAKFP-----SNILWQLFWGACR-STNATEFYRHLDEI-KVLDERCYEWLMES--KWERWALHCMPAWAKCTHVTNKM  151 (325)
Q Consensus        81 n~~~~~~-----~~~~~~~~~~~~~-a~t~~eF~~~~~~l-~~~~~~~~~~L~~~--~~~~W~~~~~~~~~~~~~~t~N~  151 (325)
                      |+.+++.     .+.+.+.|.++.+ +.+++||+..|..| .+++.+..+||..+  .+++|+++|+++.+..|+.||++
T Consensus       382 ~~~e~L~~~~~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWapaY~k~~F~agm~sTqR  461 (846)
T PLN03097        382 KVSENLGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQR  461 (846)
T ss_pred             HHHHHhhHHhhhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhHHHhcccccCCcccccc
Confidence            9999875     3578889998776 67999999999986 57899999999997  89999999999999999999999


Q ss_pred             hHHHHHHHHHhh--hhhhHHHHHHH----------------------------------------------HHHHHHhcc
Q 020522          152 GKKFFFWMHEYF--AQSITRRMEAI----------------------------------------------VNNAIEAAR  183 (325)
Q Consensus       152 ~Es~N~~i~~~r--~~pi~~~~e~i----------------------------------------------l~~~~~~a~  183 (325)
                      +||+|++|++..  ..+|..+++.+                                              +|+++..+.
T Consensus       462 SES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs~iYT~~iF~kFQ~El~~~~  541 (846)
T PLN03097        462 SESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKKFQVEVLGAV  541 (846)
T ss_pred             cccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHHHHhHHHHHHHHHHHHHHhh
Confidence            999999998743  34455544443                                              677788777


Q ss_pred             ccEEEEeC----CceEEEEEec-ceEEEEEcc----CccccccccccCCCCchhHHHHHHhcC--CccccccCccchHHH
Q 020522          184 EMNVEATE----GQVMHVLENG-ISRVSVDIK----KQCCDCGSWQLSGIPCAHASKCILNVG--REVDDFVDPLLTKDR  252 (325)
Q Consensus       184 ~~~v~~~~----~~~~~V~~~~-~~~~~V~l~----~~~CsC~~~~~~giPC~Halav~~~~~--~~~~~~v~~~yt~~~  252 (325)
                      .|.+...+    ...|.|.+.. ...|.|..+    ..+|+|++|+..||||+|||.|+.+.+  ..|+.||.++||.++
T Consensus       542 ~~~~~~~~~dg~~~~y~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v~~IP~~YILkRWTKdA  621 (846)
T PLN03097        542 ACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLSAIPSQYILKRWTKDA  621 (846)
T ss_pred             heEEeeeccCCceEEEEEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCcccCchhhhhhhchhhh
Confidence            77766542    2367787533 356878554    579999999999999999999999988  479999999999887


Q ss_pred             HH
Q 020522          253 YL  254 (325)
Q Consensus       253 ~~  254 (325)
                      -.
T Consensus       622 K~  623 (846)
T PLN03097        622 KS  623 (846)
T ss_pred             hh
Confidence            54

>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element

Probab=99.85  E-value=7.7e-23  Score=192.30  Aligned_cols=159  Identities=18%  Similarity=0.217  Sum_probs=142.0

Q ss_pred             CeEEEEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHH
Q 020522            1 MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYE   80 (325)
Q Consensus         1 ll~a~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~   80 (325)
                      +++|+|+|.+|+..+||+.+.+.|+.++|.-||+.|+++ |..  .+..||+|+++||.+||.++||++.++.|.+|+++
T Consensus       185 ~~v~iGi~~dG~r~vLg~~~~~~Es~~~W~~~l~~L~~R-Gl~--~~~lvv~Dg~~gl~~ai~~~fp~a~~QrC~vH~~R  261 (381)
T PF00872_consen  185 VYVAIGIDEDGRREVLGFWVGDRESAASWREFLQDLKER-GLK--DILLVVSDGHKGLKEAIREVFPGAKWQRCVVHLMR  261 (381)
T ss_pred             hhhhhhhhcccccceeeeecccCCccCEeeecchhhhhc-ccc--ccceeeccccccccccccccccchhhhhheechhh
Confidence            578999999999999999999999999999999999999 877  49999999999999999999999999999999999


Q ss_pred             HHHhhCCC---chhHHHHHhhhcccChHHHHHHHHHH----HhhhhHhhHHHHhcccchhhhcccCCCccccccccchhH
Q 020522           81 RMKAKFPS---NILWQLFWGACRSTNATEFYRHLDEI----KVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGK  153 (325)
Q Consensus        81 n~~~~~~~---~~~~~~~~~~~~a~t~~eF~~~~~~l----~~~~~~~~~~L~~~~~~~W~~~~~~~~~~~~~~t~N~~E  153 (325)
                      |+.++++.   +.+.+.+..+..+.+.++....++++    ....|++.++|++...+.|+..-|+...+--+.|||.+|
T Consensus       262 Nv~~~v~~k~~~~v~~~Lk~I~~a~~~e~a~~~l~~f~~~~~~kyp~~~~~l~~~~~~~~tf~~fP~~~~~~i~TTN~iE  341 (381)
T PF00872_consen  262 NVLRKVPKKDRKEVKADLKAIYQAPDKEEAREALEEFAEKWEKKYPKAAKSLEENWDELLTFLDFPPEHRRSIRTTNAIE  341 (381)
T ss_pred             hhccccccccchhhhhhccccccccccchhhhhhhhcccccccccchhhhhhhhccccccceeeecchhccccchhhhcc
Confidence            99998864   36777888888888887777777775    456899999999988888998888887666778999999


Q ss_pred             HHHHHHHHh
Q 020522          154 KFFFWMHEY  162 (325)
Q Consensus       154 s~N~~i~~~  162 (325)
                      |+|+.|++.
T Consensus       342 sln~~irrr  350 (381)
T PF00872_consen  342 SLNKEIRRR  350 (381)
T ss_pred             ccccchhhh
Confidence            999999873

Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated

>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]

Probab=99.84  E-value=5.1e-21  Score=144.50  Aligned_cols=78  Identities=31%  Similarity=0.400  Sum_probs=74.6

Q ss_pred             EEEEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHHHH
Q 020522            3 TAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERM   82 (325)
Q Consensus         3 ~a~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~n~   82 (325)
                      +++|+|++|+.+|+||+++++|+.++|.|||+.+++.++.  . |.+||||++.|+.+|++++||++.|++|.||+.+|+
T Consensus        16 ~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~--~-p~~ii~D~~~~~~~Ai~~vfP~~~~~~C~~H~~~n~   92 (93)
T PF10551_consen   16 IAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMPQ--K-PKVIISDFDKALINAIKEVFPDARHQLCLFHILRNI   92 (93)
T ss_pred             eEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhcccc--C-ceeeeccccHHHHHHHHHHCCCceEehhHHHHHHhh
Confidence            5999999999999999999999999999999999999876  2 999999999999999999999999999999999998


Q ss_pred             H
Q 020522           83 K   83 (325)
Q Consensus        83 ~   83 (325)
                      +
T Consensus        93 k   93 (93)
T PF10551_consen   93 K   93 (93)
T ss_pred             C
Confidence            5

This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].

>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=99.61  E-value=1.7e-15  Score=140.43  Aligned_cols=157  Identities=15%  Similarity=0.193  Sum_probs=130.8

Q ss_pred             CeEEEEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHH
Q 020522            1 MLTAVGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYE   80 (325)
Q Consensus         1 ll~a~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~   80 (325)
                      +++|+|+|.+|+..+|++.+.+.|+ ..|.-||..|+.+ |..  ....+++|+++|+.+||.++||.+.++.|..|+.+
T Consensus       165 ~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~r-gl~--~v~l~v~Dg~~gl~~aI~~v~p~a~~Q~C~vH~~R  240 (379)
T COG3328         165 VYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNR-GLS--DVLLVVVDGLKGLPEAISAVFPQAAVQRCIVHLVR  240 (379)
T ss_pred             eeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhc-ccc--ceeEEecchhhhhHHHHHHhccHhhhhhhhhHHHh
Confidence            5789999999999999999999999 9999999999998 666  47888889999999999999999999999999999


Q ss_pred             HHHhhCCCc---hhHHHHHhhhcccChHH----HHHHHHHHHhhhhHhhHHHHhcccchhhhcccCCCccccccccchhH
Q 020522           81 RMKAKFPSN---ILWQLFWGACRSTNATE----FYRHLDEIKVLDERCYEWLMESKWERWALHCMPAWAKCTHVTNKMGK  153 (325)
Q Consensus        81 n~~~~~~~~---~~~~~~~~~~~a~t~~e----F~~~~~~l~~~~~~~~~~L~~~~~~~W~~~~~~~~~~~~~~t~N~~E  153 (325)
                      |+..+...+   .....+..+..+.+.++    |+...+.+....|....|+.+...+.|....|+...+--+.|||.+|
T Consensus       241 nll~~v~~k~~d~i~~~~~~I~~a~~~e~~~~~~~~~~~~w~~~yP~i~~~~~~~~~~~~~F~~fp~~~r~~i~ttN~IE  320 (379)
T COG3328         241 NLLDKVPRKDQDAVLSDLRSIYIAPDAEEALLALLAFSELWGKRYPAILKSWRNALEELLPFFAFPSEIRKIIYTTNAIE  320 (379)
T ss_pred             hhhhhhhhhhhHHHHhhhhhhhccCCcHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHhcccccCcHHHHhHhhcchHHH
Confidence            999887654   34444555555555554    44444445567788999999988888888888877566788999999


Q ss_pred             HHHHHHHH
Q 020522          154 KFFFWMHE  161 (325)
Q Consensus       154 s~N~~i~~  161 (325)
                      ++|+.++.
T Consensus       321 ~~n~~ir~  328 (379)
T COG3328         321 SLNKLIRR  328 (379)
T ss_pred             HHHHHHHH
Confidence            99997775

>smart00575 ZnF_PMZ plant mutator transposase zinc finger

Probab=99.13  E-value=2.4e-11  Score=69.69  Aligned_cols=27  Identities=44%  Similarity=1.015  Sum_probs=24.9

Q ss_pred             ccccccccccCCCCchhHHHHHHhcCC
Q 020522          212 QCCDCGSWQLSGIPCAHASKCILNVGR  238 (325)
Q Consensus       212 ~~CsC~~~~~~giPC~Halav~~~~~~  238 (325)
                      .+|||++||..||||+|+|+|+...+.
T Consensus         1 ~~CsC~~~~~~gipC~H~i~v~~~~~~   27 (28)
T smart00575        1 KTCSCRKFQLSGIPCRHALAAAIHIGL   27 (28)
T ss_pred             CcccCCCcccCCccHHHHHHHHHHhCC
Confidence            479999999999999999999998764

>PF04434 SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.52  E-value=7.8e-08  Score=60.27  Aligned_cols=30  Identities=33%  Similarity=0.794  Sum_probs=27.2

Q ss_pred             EEccCccccccccccCCCCchhHHHHHHhc
Q 020522          207 VDIKKQCCDCGSWQLSGIPCAHASKCILNV  236 (325)
Q Consensus       207 V~l~~~~CsC~~~~~~giPC~Halav~~~~  236 (325)
                      +++...+|||..|+..|.||+|++|++...
T Consensus        10 ~~~~~~~CsC~~~~~~~~~CkHi~av~~~~   39 (40)
T PF04434_consen   10 VSIEQASCSCPYFQFRGGPCKHIVAVLLAL   39 (40)
T ss_pred             ccccccEeeCCCccccCCcchhHHHHHHhh
Confidence            667789999999999999999999998764

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 SWIM (SWI2/SNF2 and MuDR) zinc-binding domain, which is found in a variety of prokaryotic and eukaryotic proteins, such as mitogen-activated protein kinase kinase kinase 1 (or MEKK1). It is also found in the related protein MEX (MEKK1-related protein X), a testis-expressed protein that acts as an E3 ubiquitin ligase through the action of E2 ubiquitin-conjugating enzymes in the proteasome degradation pathway; the SWIM domain is critical for MEX ubiquitination []. SWIM domains are also found in the homologous recombination protein Sws1 [], as well as in several hypothetical proteins. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding

>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function

Probab=96.05  E-value=0.029  Score=54.67  Aligned_cols=94  Identities=15%  Similarity=0.188  Sum_probs=77.7

Q ss_pred             eccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHHHHHhhCC-CchhHHHHHhhhc
Q 020522           22 EEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKFP-SNILWQLFWGACR  100 (325)
Q Consensus        22 ~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~n~~~~~~-~~~~~~~~~~~~~  100 (325)
                      ...+.+.|.-+.+.+.+.....+...+.+.+|+...|..++. .+|++.|.+..+|+.+.+.+.++ .+.+.+.++++.+
T Consensus       234 ~~~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~~~~~~~~~~al~  312 (470)
T PF06782_consen  234 GESAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHDPELKEKIRKALK  312 (470)
T ss_pred             ccchHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhChHHHHHHHHHHH
Confidence            356678899999988888765543367889999999998887 99999999999999999998885 4567777888888


Q ss_pred             ccChHHHHHHHHHHHh
Q 020522          101 STNATEFYRHLDEIKV  116 (325)
Q Consensus       101 a~t~~eF~~~~~~l~~  116 (325)
                      .....+++..++.+..
T Consensus       313 ~~d~~~l~~~L~~~~~  328 (470)
T PF06782_consen  313 KGDKKKLETVLDTAES  328 (470)
T ss_pred             hcCHHHHHHHHHHHHH
Confidence            8888888888888764

>PF13610 DDE_Tnp_IS240: DDE domain

Probab=95.80  E-value=0.002  Score=52.05  Aligned_cols=60  Identities=18%  Similarity=0.153  Sum_probs=53.2

Q ss_pred             EEEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhcccc
Q 020522            5 VGIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRA   69 (325)
Q Consensus         5 ~g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a   69 (325)
                      .++|.+++  +|++-|-+.-+...=..||+.+.+..+.   .|..|+||+..+...|++++.+..
T Consensus        22 ~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~~---~p~~ivtDk~~aY~~A~~~l~~~~   81 (140)
T PF13610_consen   22 RAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHRG---EPRVIVTDKLPAYPAAIKELNPEG   81 (140)
T ss_pred             Eeeccccc--chhhhhhhhcccccceeeccccceeecc---ccceeecccCCccchhhhhccccc
Confidence            57899999  8999999999999999999999888653   599999999999999999998763

>PF01610 DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element

Probab=94.94  E-value=0.022  Score=50.44  Aligned_cols=66  Identities=15%  Similarity=0.049  Sum_probs=56.0

Q ss_pred             EEEeeccccchHHHHHHHH-hhhcccCCCCCeEEEeCCchhHHHHHHhhccccccccchHHHHHHHHhhC
Q 020522           18 VYEVEEESNSTWYNFLLKL-GEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRICAQTVYERMKAKF   86 (325)
Q Consensus        18 ~aiv~~E~~~~w~wfl~~l-~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~C~~Hi~~n~~~~~   86 (325)
                      ++++++-+.++..-||+.+ -.... .  ...+|++|...+...|+++.||+|.+..-.+|+++++.+.+
T Consensus        30 l~i~~~r~~~~l~~~~~~~~~~~~~-~--~v~~V~~Dm~~~y~~~~~~~~P~A~iv~DrFHvvk~~~~al   96 (249)
T PF01610_consen   30 LDILPGRDKETLKDFFRSLYPEEER-K--NVKVVSMDMSPPYRSAIREYFPNAQIVADRFHVVKLANRAL   96 (249)
T ss_pred             EEEcCCccHHHHHHHHHHhCccccc-c--ceEEEEcCCCccccccccccccccccccccchhhhhhhhcc
Confidence            4688999999999999877 43312 1  58899999999999999999999999999999999987644

Transposases have been grouped into various families [, , ]. This family includes the IS204 [], IS1001 [], IS1096 [] and IS1165 [] transposases. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated

>PF15288 zf-CCHC_6: Zinc knuckle

Probab=92.37  E-value=0.062  Score=33.04  Aligned_cols=25  Identities=8%  Similarity=-0.035  Sum_probs=21.5

Q ss_pred             ccCCCccccceeeeEEeecCCCCCC
Q 020522          299 LCCSKVKQVSVVMSLYLIQPCGLSE  323 (325)
Q Consensus       299 ~~c~~c~~~gh~~~~~~~~~~~~~~  323 (325)
                      .+|++|+++||..+.-.|++-+..+
T Consensus         2 ~kC~~CG~~GH~~t~k~CP~~~~~~   26 (40)
T PF15288_consen    2 VKCKNCGAFGHMRTNKRCPMYCWSG   26 (40)
T ss_pred             ccccccccccccccCccCCCCCCCC
Confidence            5899999999999999999866543

>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=86.99  E-value=1.6  Score=37.60  Aligned_cols=62  Identities=26%  Similarity=0.236  Sum_probs=51.2

Q ss_pred             EEcCCCCeEEEEEEEeeccccchHHHHHHHHhhhcccCCCCCeEEEeCCchhHHHHHHhhcccccccc
Q 020522            6 GIDANDGIWPVAVYEVEEESNSTWYNFLLKLGEMLRVDNGEGFCFISDGENGVEDALEALMCRAEIRI   73 (325)
Q Consensus         6 g~D~~~~~~~la~aiv~~E~~~~w~wfl~~l~~~lg~~~~~~~~iisD~~~gl~~Av~~vfP~a~h~~   73 (325)
                      ++|.+|+  +|-+-|...-|...=.-||..+.+.-|    .|.+|+||+.+....|+.++-+...|+.
T Consensus        92 Aid~~g~--~Ld~~L~~rRn~~aAk~Fl~kllk~~g----~p~v~vtDka~s~~~A~~~l~~~~ehr~  153 (215)
T COG3316          92 AIDADGL--TLDVWLSKRRNALAAKAFLKKLLKKHG----EPRVFVTDKAPSYTAALRKLGSEVEHRT  153 (215)
T ss_pred             hhccCCC--eEEEEEEcccCcHHHHHHHHHHHHhcC----CCceEEecCccchHHHHHhcCcchheec
Confidence            4566654  889999999999888999998877753    4999999999999999999988655543

>PF02178 AT_hook: AT hook motif; InterPro: IPR017956 AT hooks are DNA-binding motifs with a preference for A/T rich regions

Probab=86.01  E-value=0.31  Score=22.40  Aligned_cols=10  Identities=10%  Similarity=-0.034  Sum_probs=3.5

Q ss_pred             CCCCCCcccc
Q 020522          285 NTPDLTIHKA  294 (325)
Q Consensus       285 r~~GRPk~~R  294 (325)
                      |++|||+|.-
T Consensus         2 r~RGRP~k~~   11 (13)
T PF02178_consen    2 RKRGRPRKNA   11 (13)
T ss_dssp             --SS--TT--
T ss_pred             CcCCCCcccc
Confidence            6789998753

These motifs are found in a variety of proteins, including the high mobility group (HMG) proteins [], in DNA-binding proteins from plants [] and in hBRG1 protein, a central ATPase of the human switching/sucrose non-fermenting (SWI/SNF) remodeling complex []. High mobility group (HMG) proteins are a family of relatively low molecular weight non-histone components in chromatin []. HMG-I and HMG-Y (HMGA) are proteins of about 100 amino acid residues which are produced by the alternative splicing of a single gene. HMG-I/Y proteins bind preferentially to the minor groove of AT-rich regions in double-stranded DNA in a non-sequence specific manner [, ]. It is suggested that these proteins could function in nucleosome phasing and in the 3' end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to, AT-rich regions. ; GO: 0003677 DNA binding; PDB: 2EZE_A 2EZD_A 2EZF_A 2EZG_A.

>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]

Probab=85.87  E-value=0.74  Score=34.31  Aligned_cols=25  Identities=24%  Similarity=0.523  Sum_probs=19.7

Q ss_pred             CccCCCcccccee---------eeEEeecCCCCC
Q 020522          298 ELCCSKVKQVSVV---------MSLYLIQPCGLS  322 (325)
Q Consensus       298 ~~~c~~c~~~gh~---------~~~~~~~~~~~~  322 (325)
                      ...|++|+....+         ...--|.-||++
T Consensus        22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls   55 (104)
T COG4888          22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLS   55 (104)
T ss_pred             eEecCccCCeeeeEEEEEecCceeEEEcccCcce
Confidence            5899999877666         366779999985

>PRK14892 putative transcription elongation factor Elf1; Provisional

Probab=83.50  E-value=1.1  Score=33.69  Aligned_cols=25  Identities=20%  Similarity=0.462  Sum_probs=17.5

Q ss_pred             CCccCCCccccceee-------eEEeecCCCCC
Q 020522          297 SELCCSKVKQVSVVM-------SLYLIQPCGLS  322 (325)
Q Consensus       297 ~~~~c~~c~~~gh~~-------~~~~~~~~~~~  322 (325)
                      ....|+.|+.. .+.       ....|+-||..
T Consensus        20 t~f~CP~Cge~-~v~v~~~k~~~h~~C~~CG~y   51 (99)
T PRK14892         20 KIFECPRCGKV-SISVKIKKNIAIITCGNCGLY   51 (99)
T ss_pred             cEeECCCCCCe-EeeeecCCCcceEECCCCCCc
Confidence            35899999942 221       47889999963

>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=82.11  E-value=0.61  Score=23.46  Aligned_cols=13  Identities=8%  Similarity=0.158  Sum_probs=11.4

Q ss_pred             cCCCccccceeee
Q 020522          300 CCSKVKQVSVVMS  312 (325)
Q Consensus       300 ~c~~c~~~gh~~~  312 (325)
                      +|-+|++.||+.+
T Consensus         2 ~C~~C~~~GH~~~   14 (18)
T PF00098_consen    2 KCFNCGEPGHIAR   14 (18)
T ss_dssp             BCTTTSCSSSCGC
T ss_pred             cCcCCCCcCcccc
Confidence            6999999999864

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 CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....

>COG5431 Uncharacterized metal-binding protein [Function unknown]

Probab=80.84  E-value=1.3  Score=33.31  Aligned_cols=52  Identities=17%  Similarity=0.256  Sum_probs=31.8

Q ss_pred             EEEEEecceEEEEEccCcccccccccc-----CCCCchhHHHHHHhcCCccccccCccc
Q 020522          195 MHVLENGISRVSVDIKKQCCDCGSWQL-----SGIPCAHASKCILNVGREVDDFVDPLL  248 (325)
Q Consensus       195 ~~V~~~~~~~~~V~l~~~~CsC~~~~~-----~giPC~Halav~~~~~~~~~~~v~~~y  248 (325)
                      |.|.-...+.|+++.+  -|||..|-.     -.-||.|+++.-...-..-.++|+-+|
T Consensus        35 ~fVyvG~~rdYIl~~g--fCSCp~~~~svvl~Gk~~C~Hi~glk~A~~~gk~~~I~~y~   91 (117)
T COG5431          35 FFVYVGKERDYILEGG--FCSCPDFLGSVVLKGKSPCAHIIGLKVAKITGKYDYIDAYY   91 (117)
T ss_pred             EEEEEccccceEEEcC--cccCHHHHhHhhhcCcccchhhhheeeeeecCcEEEEEEec
Confidence            4454423457888776  899998762     235799999865443333345555444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	325
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.4 bits (109), Expect = 1e-05
 Identities = 31/259 (11%), Positives = 78/259 (30%), Gaps = 67/259 (25%)

Query: 50  FISDGE-NGVEDALEALMCRAEIRICAQTVYERMKAKFPSNILWQLFWGACRSTNATEFY 108
           F+ + +   V+D  ++++ + EI          + +K   +   +LFW            
Sbjct: 29  FVDNFDCKDVQDMPKSILSKEEID-------HIIMSKDAVSGTLRLFWTLLSKQEEM-VQ 80

Query: 109 RHLDEIKVLDERCYEWLMESKWERWALHCM-PAWAKCTHVTNKMGKKFFFWMHEYFAQSI 167
           + ++E+  ++   Y++L              P+     ++  +   + +     +   ++
Sbjct: 81  KFVEEVLRIN---YKFL----MSPIKTEQRQPSMMTRMYIEQR--DRLYNDNQVFAKYNV 131

Query: 168 TRRMEAIVNNAIEAAREMNVEATEGQVMH--------VLENGISRVSVDIKKQCCDCGS- 218
           +R          +A  E+     +  ++          +      V +  K QC      
Sbjct: 132 SR--LQPYLKLRQALLELRPA--KNVLIDGVLGSGKTWV---ALDVCLSYKVQCKMDFKI 184

Query: 219 -WQLSGIPCAHASKCILNVGREVDDFVDPLLTKDRYLSTYAVMMQLLPEEKCWPSSKFES 277
            W              LN+        + +L           M+Q L     +      +
Sbjct: 185 FW--------------LNLKNCNSP--ETVLE----------MLQKL----LYQIDPNWT 214

Query: 278 ILPPQNANTPDLTIHKAKN 296
                ++N   L IH  + 
Sbjct: 215 SRSDHSSNIK-LRIHSIQA 232

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	325
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	81.42
2ezd_A	26	High mobility group protein HMG-I/HMG-Y; DNA bindi	80.58

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=81.42  E-value=0.87  Score=31.35  Aligned_cols=32  Identities=9%  Similarity=-0.001  Sum_probs=22.6

Q ss_pred             cccCCCccCCCccccceeee-------EEeecCCCCCCC
Q 020522          293 KAKNSELCCSKVKQVSVVMS-------LYLIQPCGLSEY  324 (325)
Q Consensus       293 ~R~~~~~~c~~c~~~gh~~~-------~~~~~~~~~~~~  324 (325)
                      +|......|-+|.+.||+.+       ...|-.||+++-
T Consensus        19 ~~~~r~~~C~~Cg~~GH~a~~C~~~~~~~~C~~Cg~~GH   57 (74)
T 2li8_A           19 KRRSKGDRCYNCGGLDHHAKECKLPPQPKKCHFCQSISH   57 (74)
T ss_dssp             SCCSTTSCCTTTCCSSSCTTTCSSCCCCCCCTTTCCTTS
T ss_pred             cccCCCCcccccCCcCcCcccCCCCCCCCccCCcCCcCC
Confidence            33344567999999999874       356778887763

>2ezd_A High mobility group protein HMG-I/HMG-Y; DNA binding protein, minor groove DNA binding, transcriptional CO-activator, architectural factor; HET: DNA; NMR {Homo sapiens} SCOP: j.10.1.1 PDB: 2eze_A*

Probab=80.58  E-value=1.1  Score=23.51  Aligned_cols=17  Identities=6%  Similarity=0.042  Sum_probs=12.5

Q ss_pred             CCCCCCCCCCcccccCC
Q 020522          281 PQNANTPDLTIHKAKNS  297 (325)
Q Consensus       281 P~~~r~~GRPk~~R~~~  297 (325)
                      |.-+|++||||-+.-++
T Consensus         2 ptpKrpRgRpkGSKNk~   18 (26)
T 2ezd_A            2 PTPKRPRGRPKGSKNKG   18 (26)
T ss_dssp             CSCCCCSSCCTTCCCCS
T ss_pred             CCCcCCCCCcCcccccC
Confidence            55589999999666544

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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	325
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	82.06

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=82.06  E-value=0.18  Score=29.16  Aligned_cols=11  Identities=27%  Similarity=0.338  Sum_probs=5.8

Q ss_pred             CCCccccceee
Q 020522          301 CSKVKQVSVVM  311 (325)
Q Consensus       301 c~~c~~~gh~~  311 (325)
                      |-+|++.||+.
T Consensus        25 C~~Cg~~GH~~   35 (42)
T d2exfa1          25 CWKCGKEGHQM   35 (42)
T ss_dssp             CSSSCCSSSCT
T ss_pred             cccCCCCCeec
Confidence            55555555543