Citrus Sinensis ID: 028916

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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--
Protein Sequence
MLPFSLSSSPSTRSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEESI
Secondary Structure (PSIPRED)
cccEEEEcccccccccccccccccccccccccccccccccccccEEEccccccccHHHHHHHHHHHccccEEEcccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHccHHHHHHHccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHccHHHHHHccccccHHHHHHHHHHHcccccEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccEccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHccccEEEEccccccHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHccccHccc
Coil and Loop (DISEMBL)
mlpfslssspstrsfslynninqpiltrqtklfgsrsfssswssfafnplrlsvnHEEMKMVTKRksrgfsavcyaspltarnLQWISTISSTVLMLakgtavpksflvplfalqapaDVISWIKGEYGIWAAFLALLVRLFFfipgelelPFMALLLVIVAPHQVLTLRQRNAARCYYFLgdcwlsgfpafftcgkleesi
Flexible Loop (DISEMBL)
mlpfslssspstrsfslynninQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEESI
Low Complexity Region (SEG)
MlpfslssspstrsfslYNNINQPILTRQTKLfgsrsfssswssfafNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWaaflallvrlfffIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEESI
Disordered region (IsUnstruct)
****************LYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGK*****
Disordered Region (DISOPRED)
************************************************P*R*SV***EMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLE***
Disordered Region (DISEMBL)
************RSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEESI
Disordered Region (DISPRO)
***********TRSF*L********************************LRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGK*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooHHHHHHHHHHHHHHHHHHHiiiiHHHHHHHHHHHHHHHHoooooooHHHHHHHHHHHHHHHHiiiiiiiHHHHHHHHHHHHHHHHoooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLPFSLSSSPSTRSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEESI
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	202	2.2.26 [Sep-21-2011]
F4I1G5	226	Cold-regulated 413 inner	yes	no	0.792	0.707	0.554	2e-43
Q94AL8	225	Cold-regulated 413 inner	no	no	0.925	0.831	0.479	2e-43
Q9SVL6	203	Cold-regulated 413 plasma	no	no	0.529	0.527	0.296	2e-05
O23164	202	Cold-regulated 413 plasma	no	no	0.509	0.509	0.3	3e-05

>sp|F4I1G5|CRIM2_ARATH Cold-regulated 413 inner membrane protein 2, chloroplastic OS=Arabidopsis thaliana GN=COR413IM2 PE=1 SV=1

 Score =  175 bits (444), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 92/166 (55%), Positives = 115/166 (69%), Gaps = 6/166 (3%)

Query: 41  SWSSFAFNPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVL 95
           S S   FNPLRLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   L
Sbjct: 38  STSVVCFNPLRLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVAL 97

Query: 96  MLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMA 155
           M A+GT + KSF+VPLFALQAP  ++SW+KGEYGIWAAFLALL RLFF  P ELELPF+A
Sbjct: 98  MFARGTGIHKSFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIA 157

Query: 156 LLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           LLLVIVAP+QV+++R +           C+L+ F  F   G L+++
Sbjct: 158 LLLVIVAPYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 202

Arabidopsis thaliana (taxid: 3702)

>sp|Q94AL8|CRIM1_ARATH Cold-regulated 413 inner membrane protein 1, chloroplastic OS=Arabidopsis thaliana GN=COR413IM1 PE=1 SV=1

 Score =  175 bits (443), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 95/198 (47%), Positives = 129/198 (65%), Gaps = 11/198 (5%)

Query: 11  STRSFSLYNN---INQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVT---- 63
           S+R  SL++    ++  + +R + L G        S   FNPLRLS + +    V+    
Sbjct: 8   SSRIVSLHHQKPFLSLKLRSRPSDLSG---LGRHTSPVCFNPLRLSGDRQRTATVSTRVE 64

Query: 64  KRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISW 123
           KR+ RG S VCYA+P++A +LQWISTIS   LMLA+GT + KS +VPLFAL AP+ +++W
Sbjct: 65  KRRKRGSSVVCYAAPISANSLQWISTISCLALMLARGTGIHKSVVVPLFALHAPSSIVAW 124

Query: 124 IKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGD 183
           IKGEYG+WAAFLAL+ RLFF  PGELELPF+ALLLVIVAP+QV+ +R +           
Sbjct: 125 IKGEYGVWAAFLALIARLFFTFPGELELPFIALLLVIVAPYQVMNIRGKQEGAIIAIAIS 184

Query: 184 CWLSGFPAFFTCGKLEES 201
            +L+ F  F   G LE++
Sbjct: 185 GFLA-FQHFSRAGSLEKA 201

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVL6|CRPM2_ARATH Cold-regulated 413 plasma membrane protein 2 OS=Arabidopsis thaliana GN=COR413PM2 PE=2 SV=1

 Score = 49.3 bits (116), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 35/118 (29%), Positives = 65/118 (55%), Gaps = 11/118 (9%)

Query: 55  NHEEMKMVTKRKSRGFSAVCYASPLT--ARNLQWISTISSTVLMLAK----GTAVPKSFL 108
           + EE+K+  K+    FS V     L      L+++++ ++  L++       T +  S L
Sbjct: 23  DMEELKVAAKKL---FSDVSKLGGLGFGVSFLKFLASFAAIYLLILDRTNWKTKMLTSLL 79

Query: 109 VPLFALQAPADVISWIKGEYGIWAAFLALLVRLFF--FIPGELELPFMALLLVIVAPH 164
           +P   L  P+ + +++ G+ G W AF+A+++RLFF    P  LE+P   +LL++V+PH
Sbjct: 80  IPYIFLSLPSVIFNFLSGDVGKWIAFVAVVLRLFFPKHFPDWLEMPGSLILLLVVSPH 137

Arabidopsis thaliana (taxid: 3702)

>sp|O23164|CRPM4_ARATH Cold-regulated 413 plasma membrane protein 4 OS=Arabidopsis thaliana GN=At4g37220 PE=2 SV=2

 Score = 48.1 bits (113), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/110 (30%), Positives = 57/110 (51%), Gaps = 7/110 (6%)

Query: 84  LQWISTISSTVLMLAK----GTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLV 139
           LQW ++I +  L++       T +  + LVP      P+ +  +  G++G W A +A++V
Sbjct: 50  LQWAASIFAIYLLILDRTNWKTKMLTTLLVPYIFFTLPSVIFQFFSGDFGKWIALIAIIV 109

Query: 140 RLFF--FIPGELELPFMALLLVIVAPHQVL-TLRQRNAARCYYFLGDCWL 186
           RLFF    P  LE+P   +L+V+V+P  +  TLR+         +  C+L
Sbjct: 110 RLFFPKEFPEWLEIPVALILIVVVSPSLIAWTLRESWVGAVICLVIACYL 159

Arabidopsis thaliana (taxid: 3702)

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	202
449459334	224	PREDICTED: cold-regulated 413 inner memb	0.727	0.656	0.615	9e-48
225463388	210	PREDICTED: uncharacterized protein LOC10	0.910	0.876	0.543	2e-44
297851356	482	predicted protein [Arabidopsis lyrata su	0.841	0.352	0.541	4e-43
18397074	226	cold regulated 314 thylakoid membrane 2	0.792	0.707	0.554	9e-42
19424007	219	unknown protein [Arabidopsis thaliana]	0.792	0.730	0.554	1e-41
12323527	484	unknown protein; 31966-27882 [Arabidopsi	0.792	0.330	0.554	1e-41
18397077	225	cold regulated 314 inner membrane 1 [Ara	0.925	0.831	0.479	1e-41
224116758	229	predicted protein [Populus trichocarpa]	0.905	0.799	0.548	6e-39
42571691	183	cold regulated 314 thylakoid membrane 2	0.742	0.819	0.551	1e-38
357519219	234	Cold acclimation protein COR413-TM1 [Med	0.688	0.594	0.577	5e-35

>gi|449459334|ref|XP_004147401.1| PREDICTED: cold-regulated 413 inner membrane protein 2, chloroplastic-like [Cucumis sativus] gi|449500602|ref|XP_004161143.1| PREDICTED: cold-regulated 413 inner membrane protein 2, chloroplastic-like [Cucumis sativus]

 Score =  195 bits (495), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 104/169 (61%), Positives = 118/169 (69%), Gaps = 22/169 (13%)

Query: 2   LPFSLSSSPSTRSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKM 61
           +P SL SSP     SL +   Q                   SS  +NPLR +V  E    
Sbjct: 24  VPLSLRSSPPNAKLSLNSAAKQ-------------------SSICYNPLRFAVGSEG--- 61

Query: 62  VTKRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVI 121
           + K+KSRG SAVCYA P+  R LQWISTISS VLMLAKGT + KSF+VPLFALQAPA VI
Sbjct: 62  INKKKSRGLSAVCYAMPVNTRTLQWISTISSVVLMLAKGTGIQKSFIVPLFALQAPASVI 121

Query: 122 SWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLR 170
           SWIKGEYGIW+AFLALLVRLFFFIPGELE+PF++LLLVIVAP+QV  LR
Sbjct: 122 SWIKGEYGIWSAFLALLVRLFFFIPGELEIPFISLLLVIVAPYQVQNLR 170

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463388|ref|XP_002273366.1| PREDICTED: uncharacterized protein LOC100265908 [Vitis vinifera] gi|297740634|emb|CBI30816.3| unnamed protein product [Vitis vinifera]

 Score =  184 bits (466), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 107/197 (54%), Positives = 133/197 (67%), Gaps = 13/197 (6%)

Query: 5   SLSSSPSTRSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTK 64
           SLS S +T +FSL++   +P L+ Q+    ++ FS       F+ LR   NH    +V K
Sbjct: 3   SLSISTAT-AFSLHS---KPFLSLQSPPHQAKLFS-----LRFHHLRFQGNH---GVVMK 50

Query: 65  RKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWI 124
           +  RGF AVCY++PLT  NLQW+ T+SS VLML++GTA  KSFLVPLFALQAP  +ISWI
Sbjct: 51  KNRRGFGAVCYSAPLTPPNLQWVCTVSSAVLMLSRGTAAQKSFLVPLFALQAPTSIISWI 110

Query: 125 KGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDC 184
           KGEYG W AFLALLVRLFFFIPGELELPF+ALLLVIVAP+QV+ LR          L   
Sbjct: 111 KGEYGAWTAFLALLVRLFFFIPGELELPFVALLLVIVAPYQVMNLRGTQMGAIVSLLIAG 170

Query: 185 WLSGFPAFFTCGKLEES 201
           +L+ F  F   G L+ +
Sbjct: 171 YLA-FQHFSRAGSLQRA 186

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297851356|ref|XP_002893559.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297339401|gb|EFH69818.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  179 bits (455), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 97/179 (54%), Positives = 122/179 (68%), Gaps = 9/179 (5%)

Query: 28  RQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTAR 82
           R + L G      S S+  FNPLRLS + +    V+    KR+ RG S VCYA+P L+ +
Sbjct: 226 RSSDLSG---LGHSTSAVCFNPLRLSADRQPTATVSTRVEKRRKRGSSVVCYATPMLSVQ 282

Query: 83  NLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLF 142
           NLQWISTIS   LM A+GT + KSF+VPLFALQAP  +ISW+KGEYGIWAAFLALL RLF
Sbjct: 283 NLQWISTISCVALMFARGTGIHKSFVVPLFALQAPLGIISWMKGEYGIWAAFLALLTRLF 342

Query: 143 FFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           F  PGELELPF+ALLLVIVAP+QV+++R +           C+L+ F  F   G L+++
Sbjct: 343 FAFPGELELPFIALLLVIVAPYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGSLQKA 400

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18397074|ref|NP_564327.1| cold regulated 314 thylakoid membrane 2 [Arabidopsis thaliana] gi|426019472|sp|F4I1G5.1|CRIM2_ARATH RecName: Full=Cold-regulated 413 inner membrane protein 2, chloroplastic; Short=AtCOR413-IM2; AltName: Full=Cold-regulated 413 thylakoid membrane 2; Short=AtCOR413-TM2; Flags: Precursor gi|332192959|gb|AEE31080.1| cold regulated 314 thylakoid membrane 2 [Arabidopsis thaliana]

 Score =  175 bits (444), Expect = 9e-42,   Method: Compositional matrix adjust.
 Identities = 92/166 (55%), Positives = 115/166 (69%), Gaps = 6/166 (3%)

Query: 41  SWSSFAFNPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVL 95
           S S   FNPLRLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   L
Sbjct: 38  STSVVCFNPLRLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVAL 97

Query: 96  MLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMA 155
           M A+GT + KSF+VPLFALQAP  ++SW+KGEYGIWAAFLALL RLFF  P ELELPF+A
Sbjct: 98  MFARGTGIHKSFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIA 157

Query: 156 LLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           LLLVIVAP+QV+++R +           C+L+ F  F   G L+++
Sbjct: 158 LLLVIVAPYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 202

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|19424007|gb|AAL87293.1| unknown protein [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 92/166 (55%), Positives = 115/166 (69%), Gaps = 6/166 (3%)

Query: 41  SWSSFAFNPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVL 95
           S S   FNPLRLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   L
Sbjct: 31  STSVVCFNPLRLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVAL 90

Query: 96  MLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMA 155
           M A+GT + KSF+VPLFALQAP  ++SW+KGEYGIWAAFLALL RLFF  P ELELPF+A
Sbjct: 91  MFARGTGIHKSFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIA 150

Query: 156 LLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           LLLVIVAP+QV+++R +           C+L+ F  F   G L+++
Sbjct: 151 LLLVIVAPYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 195

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12323527|gb|AAG51739.1|AC068667_18 unknown protein; 31966-27882 [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 92/166 (55%), Positives = 115/166 (69%), Gaps = 6/166 (3%)

Query: 41  SWSSFAFNPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVL 95
           S S   FNPLRLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   L
Sbjct: 239 STSVVCFNPLRLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVAL 298

Query: 96  MLAKGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMA 155
           M A+GT + KSF+VPLFALQAP  ++SW+KGEYGIWAAFLALL RLFF  P ELELPF+A
Sbjct: 299 MFARGTGIHKSFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIA 358

Query: 156 LLLVIVAPHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           LLLVIVAP+QV+++R +           C+L+ F  F   G L+++
Sbjct: 359 LLLVIVAPYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 403

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18397077|ref|NP_564328.1| cold regulated 314 inner membrane 1 [Arabidopsis thaliana] gi|75164996|sp|Q94AL8.1|CRIM1_ARATH RecName: Full=Cold-regulated 413 inner membrane protein 1, chloroplastic; Short=AtCOR413-IM1; AltName: Full=Cold-regulated 413 thylakoid membrane 1; Short=AtCOR413-TM1; Flags: Precursor gi|15028239|gb|AAK76616.1| unknown protein [Arabidopsis thaliana] gi|21592634|gb|AAM64583.1| unknown [Arabidopsis thaliana] gi|22136822|gb|AAM91755.1| unknown protein [Arabidopsis thaliana] gi|26452616|dbj|BAC43391.1| unknown protein [Arabidopsis thaliana] gi|332192960|gb|AEE31081.1| cold regulated 314 inner membrane 1 [Arabidopsis thaliana]

 Score =  175 bits (443), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 95/198 (47%), Positives = 129/198 (65%), Gaps = 11/198 (5%)

Query: 11  STRSFSLYNN---INQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVT---- 63
           S+R  SL++    ++  + +R + L G        S   FNPLRLS + +    V+    
Sbjct: 8   SSRIVSLHHQKPFLSLKLRSRPSDLSG---LGRHTSPVCFNPLRLSGDRQRTATVSTRVE 64

Query: 64  KRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISW 123
           KR+ RG S VCYA+P++A +LQWISTIS   LMLA+GT + KS +VPLFAL AP+ +++W
Sbjct: 65  KRRKRGSSVVCYAAPISANSLQWISTISCLALMLARGTGIHKSVVVPLFALHAPSSIVAW 124

Query: 124 IKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGD 183
           IKGEYG+WAAFLAL+ RLFF  PGELELPF+ALLLVIVAP+QV+ +R +           
Sbjct: 125 IKGEYGVWAAFLALIARLFFTFPGELELPFIALLLVIVAPYQVMNIRGKQEGAIIAIAIS 184

Query: 184 CWLSGFPAFFTCGKLEES 201
            +L+ F  F   G LE++
Sbjct: 185 GFLA-FQHFSRAGSLEKA 201

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224116758|ref|XP_002331870.1| predicted protein [Populus trichocarpa] gi|222875388|gb|EEF12519.1| predicted protein [Populus trichocarpa]

 Score =  166 bits (420), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 108/197 (54%), Positives = 130/197 (65%), Gaps = 14/197 (7%)

Query: 7   SSSPSTRSFSLYNNINQPILTRQTKLFGSRSFSSSWSSFAFNPLRLSVNHEEMKMVTKRK 66
           S S   +  S+ N +  P +T           SSS+++F  NPLRLS+   EM M  KRK
Sbjct: 21  SGSKKKQFLSIQNPLRSPTVT---------PLSSSFTTF--NPLRLSIKSNEMMMKIKRK 69

Query: 67  --SRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAVPKSFLVPLFALQAPADVISWI 124
              RGF AVC+A  LT  +L WIS +SS VL+LAKGTAV KSFLVPLFALQAP  VISWI
Sbjct: 70  ESGRGFGAVCHAGSLTTPSLPWISALSSAVLVLAKGTAVQKSFLVPLFALQAPPAVISWI 129

Query: 125 KGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQVLTLRQRNAARCYYFLGDC 184
           KGEYGIW AFLALL RLFFFIPGELELPFMALLLVIVAP+QV+ +R +        +   
Sbjct: 130 KGEYGIWTAFLALLFRLFFFIPGELELPFMALLLVIVAPYQVMNIRGKQEGAIVGLVIAA 189

Query: 185 WLSGFPAFFTCGKLEES 201
           +L+ F  F   G ++ +
Sbjct: 190 YLA-FQHFSRIGNMQRA 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42571691|ref|NP_973936.1| cold regulated 314 thylakoid membrane 2 [Arabidopsis thaliana] gi|332192958|gb|AEE31079.1| cold regulated 314 thylakoid membrane 2 [Arabidopsis thaliana]

 Score =  165 bits (418), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 86/156 (55%), Positives = 109/156 (69%), Gaps = 6/156 (3%)

Query: 51  RLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVLMLAKGTAVPK 105
           RLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   LM A+GT + K
Sbjct: 5   RLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVALMFARGTGIHK 64

Query: 106 SFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLLVIVAPHQ 165
           SF+VPLFALQAP  ++SW+KGEYGIWAAFLALL RLFF  P ELELPF+ALLLVIVAP+Q
Sbjct: 65  SFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIALLLVIVAPYQ 124

Query: 166 VLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
           V+++R +           C+L+ F  F   G L+++
Sbjct: 125 VMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 159

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357519219|ref|XP_003629898.1| Cold acclimation protein COR413-TM1 [Medicago truncatula] gi|355523920|gb|AET04374.1| Cold acclimation protein COR413-TM1 [Medicago truncatula]

 Score =  153 bits (386), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 86/149 (57%), Positives = 103/149 (69%), Gaps = 10/149 (6%)

Query: 47  FNPL--RLSVNHEEMKMVTKRKS-----RGFSAVCYAS-PLTARNLQWISTISSTVLMLA 98
           FNPL  R    H  +K+    K+     R FS+  YA  P T  N+QW+ST+SS VL+LA
Sbjct: 52  FNPLCLRSFTRHYGIKIAHNPKTSTNGFRLFSS--YAPYPFTTPNIQWLSTVSSLVLILA 109

Query: 99  KGTAVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFFFIPGELELPFMALLL 158
           KGTAVPKSF+VPLFALQAPA V SWI+G YG+W+AFLALLVRLFF IPGELELPF+A LL
Sbjct: 110 KGTAVPKSFIVPLFALQAPAPVFSWIQGRYGVWSAFLALLVRLFFHIPGELELPFIAFLL 169

Query: 159 VIVAPHQVLTLRQRNAARCYYFLGDCWLS 187
           VIVAPH+ + LR          L   +L+
Sbjct: 170 VIVAPHEAVRLRDTKEGAVISLLIAVYLA 198

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	202
TAIR|locus:2013743	226	COR314-TM2 "AT1G29390" [Arabid	0.757	0.676	0.490	2.2e-34
TAIR|locus:505006154	225	COR413IM1 "AT1G29395" [Arabido	0.742	0.666	0.490	4.6e-34

TAIR|locus:2013743 COR314-TM2 "AT1G29390" [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 78/159 (49%), Positives = 101/159 (63%)

Query:    48 NPLRLSVNHEEMKMVT----KRKSRGFSAVCYASP-LTARNLQWISTISSTVLMLAKGTA 102
             NPLRLS + +    V+    KR+ RG S VCYA+P L+  NLQWISTIS   LM A+GT 
Sbjct:    45 NPLRLSADRQRTATVSARAEKRRKRGSSVVCYATPMLSVHNLQWISTISCVALMFARGTG 104

Query:   103 VPKSFLVPLFALQAPADVISWIKGEYGIWXXXXXXXXXXXXXIPGELELPFMALLLVIVA 162
             + KSF+VPLFALQAP  ++SW+KGEYGIW              P ELELPF+ALLLVIVA
Sbjct:   105 IHKSFVVPLFALQAPMGIVSWMKGEYGIWAAFLALLTRLFFSFPVELELPFIALLLVIVA 164

Query:   163 PHQVLTLRQRNAARCYYFLGDCWLSGFPAFFTCGKLEES 201
             P+QV+++R +           C+L+ F  F   G L+++
Sbjct:   165 PYQVMSIRGKQEGAILSLAISCFLA-FQHFSRAGTLQKA 202

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009631 "cold acclimation" evidence=IMP

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0031357 "integral to chloroplast inner membrane" evidence=IDA

GO:0070417 "cellular response to cold" evidence=IEP

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0042631 "cellular response to water deprivation" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

TAIR|locus:505006154 COR413IM1 "AT1G29395" [Arabidopsis thaliana (taxid:3702)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 79/161 (49%), Positives = 104/161 (64%)

Query:    48 NPLRLSVNHEEMKMVT----KRKSRGFSAVCYASPLTARNLQWISTISSTVLMLAKGTAV 103
             NPLRLS + +    V+    KR+ RG S VCYA+P++A +LQWISTIS   LMLA+GT +
Sbjct:    45 NPLRLSGDRQRTATVSTRVEKRRKRGSSVVCYAAPISANSLQWISTISCLALMLARGTGI 104

Query:   104 PKSFLVPLFALQAPADVISWIKGEYGIWXXXXXXXXXXXXXIPGELELPFMALLLVIVAP 163
              KS +VPLFAL AP+ +++WIKGEYG+W              PGELELPF+ALLLVIVAP
Sbjct:   105 HKSVVVPLFALHAPSSIVAWIKGEYGVWAAFLALIARLFFTFPGELELPFIALLLVIVAP 164

Query:   164 HQVLTLRQRNAARCYYFLGDCWLSGFPAF--FT-CGKLEES 201
             +QV+ +R +             +SGF AF  F+  G LE++
Sbjct:   165 YQVMNIRGKQEGAIIAIA----ISGFLAFQHFSRAGSLEKA 201


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.325   0.137   0.430    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      202       158   0.00085  106 3  11 22  0.43    31
                                                     30  0.43    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  606 (64 KB)
  Total size of DFA:  153 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.38u 0.12s 12.50t   Elapsed:  00:00:00
  Total cpu time:  12.38u 0.12s 12.50t   Elapsed:  00:00:00
  Start:  Mon May 20 20:35:35 2013   End:  Mon May 20 20:35:35 2013

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=ISS;IDA

GO:0009631 "cold acclimation" evidence=IEP;IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IEP;RCA

GO:0042631 "cellular response to water deprivation" evidence=IEP;RCA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0031357 "integral to chloroplast inner membrane" evidence=IDA

GO:0070417 "cellular response to cold" evidence=IEP

GO:0009269 "response to desiccation" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009414 "response to water deprivation" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0042538 "hyperosmotic salinity response" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
F4I1G5	CRIM2_ARATH	No assigned EC number	0.5542	0.7920	0.7079	yes	no

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

Fail to connect to STRING server

---

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	202
pfam05562	186	pfam05562, WCOR413, Cold acclimation protein WCOR4	1e-32

>gnl|CDD|191305 pfam05562, WCOR413, Cold acclimation protein WCOR413

 Score =  115 bits (289), Expect = 1e-32
 Identities = 45/127 (35%), Positives = 67/127 (52%), Gaps = 9/127 (7%)

Query: 47  FNPLRLSVNHEEMKMVTKRKSRGFSAVCYAS-PLTARNLQWISTISSTVLMLAKG----T 101
                LS + +E+    K+      A+           LQW+++I++  L++       T
Sbjct: 10  AAAALLSSDLQELGAAAKK--LASHAIKLGGLGFGTTFLQWLASIAAIYLLILDRTNWKT 67

Query: 102 AVPKSFLVPLFALQAPADVISWIKGEYGIWAAFLALLVRLFF--FIPGELELPFMALLLV 159
            +  S LVP   L  P+ + SWI+GE G W AF+A++VRLFF    PGELELP   +LLV
Sbjct: 68  NILTSLLVPYIFLSLPSVIFSWIRGEVGKWIAFIAVIVRLFFPRHFPGELELPGALILLV 127

Query: 160 IVAPHQV 166
           +VAP  +
Sbjct: 128 VVAPSLI 134

This family consists of several WCOR413-like plant cold acclimation proteins. Length = 186

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	202
PF05562	187	WCOR413: Cold acclimation protein WCOR413; InterPr	100.0

>PF05562 WCOR413: Cold acclimation protein WCOR413; InterPro: IPR008892 This family consists of several WCOR413-like plant cold acclimation proteins

Probab=100.00  E-value=2.5e-63  Score=417.64  Aligned_cols=156  Identities=35%  Similarity=0.631  Sum_probs=143.3

Q ss_pred             cccccceeeccCCcceeEEeeecCCCceeEeec-CCCchhhHHHHHHHHHhhH-hhhc---CCCCCchhHHHHHHhhCCh
Q 028916           44 SFAFNPLRLSVNHEEMKMVTKRKSRGFSAVCYA-SPLTARNLQWISTISSTVL-MLAK---GTAVPKSFLVPLFALQAPA  118 (202)
Q Consensus        44 ~~~fnpl~~~~~~~~~~~~~~~~~~g~~~~c~a-~~~~t~~LqWiasiAAi~L-iLdr---~TniltSLLVPyialslPs  118 (202)
                      ...+|+..+++|-.+.+.  ..|+++..++|++ +++++++|||++++||+|| ++||   ||||+|||||||+|+|+|+
T Consensus         8 ~~~~~~~~l~sd~~~l~~--aa~kl~~~a~~~~~~~~~t~~lqWias~aAi~LlildrtnwkTniltslLVPyi~lslPs   85 (187)
T PF05562_consen    8 SSEFAAALLSSDLQELGM--AAKKLASHAICLGSLGFGTSFLQWIASIAAIYLLILDRTNWKTNILTSLLVPYIFLSLPS   85 (187)
T ss_pred             cchhhhhhhccCHHHHHH--HHHhhhcceeeeccccccHHHHHHHHHHHHHHHHhccCccchhhhhHHHHHHHHHHhCcH
Confidence            367889999987544333  3466788899995 8999999999999999999 5555   6999999999999999999


Q ss_pred             hhhhhhcCcchhHHHHHHHHHHHhh--cCCCccchhhhhhhhhhccchhhhh-hcccceeeeeeehhhhhhcccchhhcc
Q 028916          119 DVISWIKGEYGIWAAFLALLVRLFF--FIPGELELPFMALLLVIVAPHQVLT-LRQRNAARCYYFLGDCWLSGFPAFFTC  195 (202)
Q Consensus       119 ~vf~~iRGe~G~WiAFlAvvlRLFF--~fP~eLElP~a~iLLvVVAP~~i~~-lRgs~~G~vI~L~IacYLl~~qHir~~  195 (202)
                      ++|+|+|||||+||||+|+++||||  |||||||||++++||+||||+|+|+ +||+|+|++||++|||||+ |||||++
T Consensus        86 ~if~~~rGe~G~WiAFlavv~RLFfp~~fP~~LElP~a~iLLivvaP~~~~~~~R~~~~G~vi~l~I~~YLl-~qHi~~~  164 (187)
T PF05562_consen   86 VIFNWFRGEYGKWIAFLAVVLRLFFPRHFPGELELPGALILLIVVAPSQIANTFRGSQIGAVICLAIACYLL-QQHIRAS  164 (187)
T ss_pred             HHHHHHhccccHHHHHHHHHHHHhCcccCCchhhcchhhheeeEeCchHHHHhccCCeeehhHHHHHHHHHH-HHHHHhc
Confidence            9999999999999999999999999  6999999999999999999999999 5999999999999999999 9999999


Q ss_pred             CCcccCC
Q 028916          196 GKLEESI  202 (202)
Q Consensus       196 GG~r~Af  202 (202)
                      ||+||||
T Consensus       165 Gg~r~aF  171 (187)
T PF05562_consen  165 GGFRNAF  171 (187)
T ss_pred             CChhhhh
Confidence            9999997

---

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

---

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