Citrus Sinensis ID: 043638

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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-------20
Protein Sequence
MWALFSMPQWVKSTEVTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKNCTNSSGSNEANCHSK
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHccccEEEEccccccEEEEEEEEEEEEEEcEEEEEEcccccccccccccccEEcccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccccccHHcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccEEEEEccccEEEEEEccEEEEEEccccEccccEEEEcccccHHHHHHHHHccccHHHHHHHHccHHHHHHHHHccccccccccccccccccccccccHHccccccccccccccc
Coil and Loop (DISEMBL)
mwalfsmpqwvkstevtnssSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFqsdgwnvdvpsnnavsfvsrhgfVFEVNRELMTCSCrlwqlsgipcehacrciHSWGDKLDKHVHRLWSvdeyrsaygpgMQMLREITHwewqtkdnvlppmknctnssgsneanchsk
Flexible Loop (DISEMBL)
mwalfsmpqwvkstevtnssseQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKnctnssgsneanchsk
Low Complexity Region (SEG)
MWALFSMPQWVKSTEVTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKNCTNSSGSNEANCHSK
Disordered region (IsUnstruct)
********QWV***********QLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNV*********************
Disordered Region (DISOPRED)
MWALFS*PQWVKSTEVTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNV*********************
Disordered Region (DISEMBL)
MWALFSMPQWV**********EQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKNCT*************
Disordered Region (DISPRO)
MWALFSMPQWVKSTEVTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKNC**************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWALFSMPQWVKSTEVTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPPMKNCTNSSGSNEANCHSK
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	198
242068703	276	hypothetical protein SORBIDRAFT_05g02042	0.454	0.326	0.385	1e-09
218194045	1029	hypothetical protein OsI_14206 [Oryza sa	0.388	0.074	0.389	1e-09
222626119	974	hypothetical protein OsJ_13260 [Oryza sa	0.388	0.079	0.389	1e-09
40714668	839	putative transposon protein [Oryza sativ	0.388	0.091	0.389	1e-09
222635302	914	hypothetical protein OsJ_20795 [Oryza sa	0.818	0.177	0.283	2e-09
218197885	725	hypothetical protein OsI_22353 [Oryza sa	0.818	0.223	0.283	2e-09
224068699	573	predicted protein [Populus trichocarpa]	0.863	0.298	0.234	4e-09
108709273	775	transposon protein, putative, Mutator su	0.606	0.154	0.319	4e-09
14018095	746	putative transposon protein [Oryza sativ	0.606	0.160	0.319	5e-09
242073558	784	hypothetical protein SORBIDRAFT_06g02109	0.868	0.219	0.280	6e-09

>gi|242068703|ref|XP_002449628.1| hypothetical protein SORBIDRAFT_05g020420 [Sorghum bicolor] gi|241935471|gb|EES08616.1| hypothetical protein SORBIDRAFT_05g020420 [Sorghum bicolor]

 Score = 68.6 bits (166), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/96 (38%), Positives = 56/96 (58%), Gaps = 6/96 (6%)

Query: 80  QSDGWNVDVPS---NNAVSFVSRHG--FVFEVNRELMTCSCRLWQLSGIPCEHACRCIHS 134
           QS    +DV +   +  V  ++R G  F F VN +  TCSCR WQ+SG+PC HA   I S
Sbjct: 16  QSRNLEIDVVTSSLDGIVELMARGGSTFRFVVNLQGRTCSCRAWQVSGLPCRHAIGFITS 75

Query: 135 W-GDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHW 169
             G+K++ HV   + V+ +R+AY P +  +R+ + W
Sbjct: 76  IPGEKIEDHVDNYYLVESFRAAYDPIIPAIRDKSMW 111

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 68.6 bits (166), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 44/77 (57%)

Query: 104 FEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQML 163
           F V+    TCSCR WQ+SGIPC+HAC       ++ + HV+  +S+D+YR+ Y   +Q +
Sbjct: 682 FTVDLSANTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPV 741

Query: 164 REITHWEWQTKDNVLPP 180
              + W   T    LPP
Sbjct: 742 EHESVWPLSTNPRPLPP 758

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 = 68.6 bits (166), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 44/77 (57%)

Query: 104 FEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQML 163
           F V+    TCSCR WQ+SGIPC+HAC       ++ + HV+  +S+D+YR+ Y   +Q +
Sbjct: 627 FTVDLSANTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPV 686

Query: 164 REITHWEWQTKDNVLPP 180
              + W   T    LPP
Sbjct: 687 EHESVWPLSTNPRPLPP 703

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>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 = 68.6 bits (166), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/77 (38%), Positives = 44/77 (57%)

Query: 104 FEVNRELMTCSCRLWQLSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQML 163
           F V+    TCSCR WQ+SGIPC+HAC       ++ + HV+  +S+D+YR+ Y   +Q +
Sbjct: 614 FTVDLSANTCSCRYWQISGIPCQHACAAYFKMAEEPNNHVNMCFSIDQYRNTYQDVLQPV 673

Query: 164 REITHWEWQTKDNVLPP 180
              + W   T    LPP
Sbjct: 674 EHESVWPLSTNPRPLPP 690

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222635302|gb|EEE65434.1| hypothetical protein OsJ_20795 [Oryza sativa Japonica Group]

 Score = 67.8 bits (164), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 74/166 (44%), Gaps = 4/166 (2%)

Query: 16  VTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQII 75
           V N+  E    W+ +     +     TI R +      +   G  W    I P   +++ 
Sbjct: 587 VDNNLCESFNKWILESRFYPIITMLETIRRKVIVRISDQKTNGARW-RTVICPGILKKL- 644

Query: 76  QNVFQSDGWNVDVPSNNAVSF-VSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHS 134
            NV+ ++        N   SF V  H   F V+ +   CSCR WQLSG+PC HA  CI  
Sbjct: 645 -NVYINESTFCHAICNGGDSFEVKHHEHRFTVHLDKKECSCRYWQLSGLPCPHAISCIFY 703

Query: 135 WGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPP 180
             +KLD ++   +SV+ +RS Y   +Q L  ++ W    ++ +  P
Sbjct: 704 RTNKLDDYIAECYSVEAFRSTYDHYLQPLEGMSAWPQDDREPLNAP 749

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218197885|gb|EEC80312.1| hypothetical protein OsI_22353 [Oryza sativa Indica Group]

 Score = 67.8 bits (164), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 74/166 (44%), Gaps = 4/166 (2%)

Query: 16  VTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQII 75
           V N+  E    W+ +     +     TI R +      +   G  W    I P   +++ 
Sbjct: 398 VDNNLCESFNKWILESRFYPIITMLETIRRKVIVRISDQKTNGARW-RTVICPGILKKL- 455

Query: 76  QNVFQSDGWNVDVPSNNAVSF-VSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHS 134
            NV+ ++        N   SF V  H   F V+ +   CSCR WQLSG+PC HA  CI  
Sbjct: 456 -NVYINESTFCHAICNGGDSFEVKHHEHRFTVHLDKKECSCRYWQLSGLPCPHAISCIFY 514

Query: 135 WGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLPP 180
             +KLD ++   +SV+ +RS Y   +Q L  ++ W    ++ +  P
Sbjct: 515 RTNKLDDYIAECYSVEAFRSTYDHYLQPLEGMSAWPQDDREPLNAP 560

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068699|ref|XP_002302803.1| predicted protein [Populus trichocarpa] gi|222844529|gb|EEE82076.1| predicted protein [Populus trichocarpa]

 Score = 67.0 bits (162), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 41/175 (23%), Positives = 80/175 (45%), Gaps = 4/175 (2%)

Query: 16  VTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQII 75
           +T+  +E    WL++   L V +   TI   + E+   R +   +W+  ++TP+   ++ 
Sbjct: 369 ITSGIAESFYSWLTELTALPVTKIIDTIRHKLMELIYTRKVDSDQWI-TRLTPSVEDKLQ 427

Query: 76  QNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQLSGIPCEHACRCIHSW 135
           + + ++    V    +N        G V  VN +   CSCR WQL+G PC HA   +   
Sbjct: 428 KEILKAQSLQVMFSPSNTFEVQDFLGAVNVVNIDAWDCSCREWQLNGFPCSHAVAVLQHI 487

Query: 136 GDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQ--TKDNVLP-PMKNCTNS 187
           G  +  +  + ++ + YR  Y   ++ +  +     Q  ++  VLP P++  + S
Sbjct: 488 GRDVYDYCSKFYTTEAYRLTYSESIKPVPTVDKPAPQELSEVQVLPSPLRRISGS 542

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108709273|gb|ABF97068.1| transposon protein, putative, Mutator sub-class [Oryza sativa Japonica Group]

 Score = 67.0 bits (162), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 2/122 (1%)

Query: 60  EWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQ 119
           +WV+D I P  +Q++ +N+  S+     +PS   V  V+     F V+ +   C CR WQ
Sbjct: 557 KWVFD-ICPKIKQKVEKNIEMSNTCYA-LPSRMGVFQVTDRDKQFVVDIKNKQCDCRRWQ 614

Query: 120 LSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLP 179
           L GIPC HA  C+     K +  V   +++  ++ AY   +  +R+ THWE      V P
Sbjct: 615 LIGIPCNHAISCLRHERIKPEDEVSFCYTIQSFKQAYMFNIMPVRDKTHWEKMNGVPVNP 674

Query: 180 PM 181
           P+
Sbjct: 675 PV 676

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14018095|gb|AAK52158.1|AC084831_12 putative transposon protein [Oryza sativa Japonica Group] gi|24796791|gb|AAN64468.1| putative mutator-like transposase [Oryza sativa Japonica Group]

 Score = 66.6 bits (161), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 2/122 (1%)

Query: 60  EWVYDKITPAARQQIIQNVFQSDGWNVDVPSNNAVSFVSRHGFVFEVNRELMTCSCRLWQ 119
           +WV+D I P  +Q++ +N+  S+     +PS   V  V+     F V+ +   C CR WQ
Sbjct: 528 KWVFD-ICPKIKQKVEKNIEMSNTCYA-LPSRMGVFQVTDRDKQFVVDIKNKQCDCRRWQ 585

Query: 120 LSGIPCEHACRCIHSWGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVLP 179
           L GIPC HA  C+     K +  V   +++  ++ AY   +  +R+ THWE      V P
Sbjct: 586 LIGIPCNHAISCLRHERIKPEDEVSFCYTIQSFKQAYMFNIMPVRDKTHWEKMNGVPVNP 645

Query: 180 PM 181
           P+
Sbjct: 646 PV 647

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242073558|ref|XP_002446715.1| hypothetical protein SORBIDRAFT_06g021090 [Sorghum bicolor] gi|241937898|gb|EES11043.1| hypothetical protein SORBIDRAFT_06g021090 [Sorghum bicolor]

 Score = 66.6 bits (161), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 50/178 (28%), Positives = 81/178 (45%), Gaps = 6/178 (3%)

Query: 16  VTNSSSEQLRIWLSKFLDLNVAQRYTTITRTIAEMFQRRYLAGWEWVYDKITPAARQQII 75
           VTN+ +E    W+      ++     TI + I   +  R     ++   KI P   Q++ 
Sbjct: 396 VTNNLAETFNNWIKPEKGKHLDDLLDTIRQMILIKWNHRKKVAMKFT-GKILPHIMQRLR 454

Query: 76  QNVFQSDGWNVDVPSNNAVSFVSR---HGFVFEVNRELMTCSCRLWQLSGIPCEHACRCI 132
           +  +  D   +    +     V++    GF F V+    TCSCR+WQ SGIPC+HA   I
Sbjct: 455 EESYNLDMQIITDSPDGVAELVAKGREDGFRFVVSLPDRTCSCRVWQCSGIPCKHAIAYI 514

Query: 133 HS-WGDKLDKHVHRLWSVDEYRSAYGPGMQMLREITHWEWQTKDNVL-PPMKNCTNSS 188
            S  G+KL+ HV   +SV  +++AY   +  + + + W   T    L PP+   T   
Sbjct: 515 TSKPGEKLEDHVDDYFSVARFKAAYEGSIPCIPDKSMWPKGTHGFFLYPPLLRATGGG 572

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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)

No hits with e-value below 0.001 by BLAST

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	6.3.2	LOW CONFIDENCE prediction!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: OsJ_06504 transposon protein, putative, unclassified (1068 aa) (Oryza sativa Japonica)

Predicted Functional Partners:

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

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	198
smart00575	28	smart00575, ZnF_PMZ, plant mutator transposase zin	2e-06
pfam04434	38	pfam04434, SWIM, SWIM zinc finger	6e-04

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

 Score = 42.5 bits (101), Expect = 2e-06
 Identities = 14/17 (82%), Positives = 15/17 (88%)

Query: 112 TCSCRLWQLSGIPCEHA 128
           TCSCR +QLSGIPC HA
Sbjct: 2   TCSCRKFQLSGIPCRHA 18

Length = 28

>gnl|CDD|218087 pfam04434, SWIM, SWIM zinc finger

 Score = 35.9 bits (83), Expect = 6e-04
 Identities = 11/17 (64%), Positives = 14/17 (82%)

Query: 112 TCSCRLWQLSGIPCEHA 128
           +CSC  +QL GIPC+HA
Sbjct: 14  SCSCPAFQLYGIPCKHA 30

This domain is found in bacterial, archaeal and eukaryotic proteins. It is predicted to be organised into two N-terminal beta-strands and a C-terminal alpha helix, thus possibly adopting a fold similar to that of the C2H2 zinc finger (pfam00096). SWIM is thought to be a versatile domain that can interact with DNA or proteins in different contexts. Length = 38

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
smart00575	28	ZnF_PMZ plant mutator transposase zinc finger.	99.35
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	98.97
PF04434	40	SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc f	98.7
COG5431	117	Uncharacterized metal-binding protein [Function un	91.08

>smart00575 ZnF_PMZ plant mutator transposase zinc finger

Probab=99.35  E-value=3.7e-13  Score=76.68  Aligned_cols=28  Identities=54%  Similarity=0.904  Sum_probs=25.7

Q ss_pred             ceeeccccccCCCCchhHHHHHHHhcCC
Q 043638          111 MTCSCRLWQLSGIPCEHACRCIHSWGDK  138 (198)
Q Consensus       111 ~tCtC~~wql~giPC~HaiAa~~~~~~~  138 (198)
                      ++|||++||++||||+|||||+...|++
T Consensus         1 ~~CsC~~~~~~gipC~H~i~v~~~~~~~   28 (28)
T smart00575        1 KTCSCRKFQLSGIPCRHALAAAIHIGLS   28 (28)
T ss_pred             CcccCCCcccCCccHHHHHHHHHHhCCC
Confidence            5899999999999999999999988763

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

Probab=98.97  E-value=6.3e-10  Score=107.61  Aligned_cols=153  Identities=15%  Similarity=0.263  Sum_probs=87.1

Q ss_pred             ccccCCCccccccccccchHHHHHHHHHhh--hCCcHHHHHHHHHHHHHHHHHHHH-Hhhhhcccc-------cCChhhh
Q 043638            2 WALFSMPQWVKSTEVTNSSSEQLRIWLSKF--LDLNVAQRYTTITRTIAEMFQRRY-LAGWEWVYD-------KITPAAR   71 (198)
Q Consensus         2 w~~s~~~~~~k~~~mt~N~aEsfN~~i~~~--R~lPI~~m~e~ir~~~~~~f~~Rr-~~a~~~~~~-------~l~p~~~   71 (198)
                      ||..=|..-.-.+..||..+||+|+.|++.  +..+|..+++..-.-+-.+..+-- ....++...       .+-..+.
T Consensus       443 WapaY~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs  522 (846)
T PLN03097        443 WVPTYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVS  522 (846)
T ss_pred             hhHHHhcccccCCcccccccccHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHH
Confidence            555555555556788999999999999984  445565555433222222111100 000111000       1111223


Q ss_pred             hhhhhhhhhhcCCcee------ec---cCC-Ccce-EEe--CCeEEEEEcc----cceeeccccccCCCCchhHHHHHHH
Q 043638           72 QQIIQNVFQSDGWNVD------VP---SNN-AVSF-VSR--HGFVFEVNRE----LMTCSCRLWQLSGIPCEHACRCIHS  134 (198)
Q Consensus        72 ~~i~p~i~k~~~~~~~------V~---~~g-~~~f-V~~--~~~~~~VdL~----~~tCtC~~wql~giPC~HaiAa~~~  134 (198)
                      +.++++|+++...++.      +.   ..| ...| |.+  ....|.|..+    .-+|+|++|+..||||+|||.|+..
T Consensus       523 ~iYT~~iF~kFQ~El~~~~~~~~~~~~~dg~~~~y~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~  602 (846)
T PLN03097        523 GVYTHAVFKKFQVEVLGAVACHPKMESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQM  602 (846)
T ss_pred             HHhHHHHHHHHHHHHHHhhheEEeeeccCCceEEEEEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhh
Confidence            4556666666544321      21   122 1257 775  3456777554    4599999999999999999999999


Q ss_pred             hcCCccccccccccHHHHHHhhC
Q 043638          135 WGDKLDKHVHRLWSVDEYRSAYG  157 (198)
Q Consensus       135 ~~~~~~~~v~~~ys~~~~~~tY~  157 (198)
                      .++.-   |++.|-+..|.+-..
T Consensus       603 ~~v~~---IP~~YILkRWTKdAK  622 (846)
T PLN03097        603 CQLSA---IPSQYILKRWTKDAK  622 (846)
T ss_pred             cCccc---Cchhhhhhhchhhhh
Confidence            98753   444444445544433

>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=98.70  E-value=1.2e-08  Score=62.43  Aligned_cols=30  Identities=33%  Similarity=0.727  Sum_probs=27.6

Q ss_pred             EEcccceeeccccccCCCCchhHHHHHHHh
Q 043638          106 VNRELMTCSCRLWQLSGIPCEHACRCIHSW  135 (198)
Q Consensus       106 VdL~~~tCtC~~wql~giPC~HaiAa~~~~  135 (198)
                      +++...+|||+.|+..|.||.|++|++...
T Consensus        10 ~~~~~~~CsC~~~~~~~~~CkHi~av~~~~   39 (40)
T PF04434_consen   10 VSIEQASCSCPYFQFRGGPCKHIVAVLLAL   39 (40)
T ss_pred             ccccccEeeCCCccccCCcchhHHHHHHhh
Confidence            778899999999999999999999998764

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

>COG5431 Uncharacterized metal-binding protein [Function unknown]

Probab=91.08  E-value=0.11  Score=38.32  Aligned_cols=59  Identities=15%  Similarity=0.159  Sum_probs=38.9

Q ss_pred             EEeCCeEEEEEcccceeecccccc----C-CCCchhHHHHHHHhcCCcccccccccc--HHHHHHhhC
Q 043638           97 VSRHGFVFEVNRELMTCSCRLWQL----S-GIPCEHACRCIHSWGDKLDKHVHRLWS--VDEYRSAYG  157 (198)
Q Consensus        97 V~~~~~~~~VdL~~~tCtC~~wql----~-giPC~HaiAa~~~~~~~~~~~v~~~ys--~~~~~~tY~  157 (198)
                      +-+..+.|+++++  .|||..+-.    - .-||.|.|+.=...-..-.++|+-||-  .+-+...|+
T Consensus        38 yvG~~rdYIl~~g--fCSCp~~~~svvl~Gk~~C~Hi~glk~A~~~gk~~~I~~y~~d~~~Il~e~ys  103 (117)
T COG5431          38 YVGKERDYILEGG--FCSCPDFLGSVVLKGKSPCAHIIGLKVAKITGKYDYIDAYYVDYPDILREKYS  103 (117)
T ss_pred             EEccccceEEEcC--cccCHHHHhHhhhcCcccchhhhheeeeeecCcEEEEEEecccHHHHHHHHHh
Confidence            3456678998876  899987762    2 457999998755555566677766653  233444444

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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

No hit with probability above 80.00

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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

No hit with probability above 80.00