Citrus Sinensis ID: 027204

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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------
Protein Sequence
MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Secondary Structure (PSIPRED)
cccccHHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHcccccEEEEcccccccccccccccccccHccccccccEEEEcHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MALCKRVVKLVADSGvrvtksqgfnlnysntIGYRQISQLVKSNGKRAFLVDTLQLVRGleaqgvpskQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Flexible Loop (DISEMBL)
MALCKRVVKLvadsgvrvtksqgfnlnysntIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELryeidkvtagqrldlnlergrirdelanqnaettnltnklDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Low Complexity Region (SEG)
MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Disordered region (IsUnstruct)
**LCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFV*******************************************************IDKVTA***LDL********************LTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL*
Disordered Region (DISOPRED)
***********************************************AFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFV**********IQEANLSKFKS******************KLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG***********ETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Disordered Region (DISEMBL)
MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK*************SMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Disordered Region (DISPRO)
MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHxxxxxxxxxxxxxxxxxxxxxLRYEIDKVTAGQRLDLNLERGRIxxxxxxxxxxxxxxxxxxxxxIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM
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	226	2.2.26 [Sep-21-2011]
Q6DJ87	267	Coiled-coil domain-contai	yes	no	0.907	0.767	0.277	2e-17
P43557	207	Protein FMP32, mitochondr	yes	no	0.694	0.758	0.280	8e-17
Q9GZT6	254	Coiled-coil domain-contai	yes	no	0.796	0.708	0.277	2e-16
O14042	216	Protein fmp32, mitochondr	yes	no	0.823	0.861	0.261	9e-16
Q8C3X2	256	Coiled-coil domain-contai	yes	no	0.796	0.703	0.262	1e-15
Q4V897	256	Coiled-coil domain-contai	yes	no	0.796	0.703	0.277	1e-15
Q0P4J6	262	Mitochondrial calcium uni	yes	no	0.920	0.793	0.248	3e-14
Q96AQ8	359	Mitochondrial calcium uni	no	no	0.805	0.506	0.274	4e-13
Q9CXD6	340	Mitochondrial calcium uni	no	no	0.787	0.523	0.27	7e-12
Q10073	211	Uncharacterized CCDC90 fa	no	no	0.539	0.578	0.270	1e-06

>sp|Q6DJ87|CC90B_XENTR Coiled-coil domain-containing protein 90B, mitochondrial OS=Xenopus tropicalis GN=ccdc90b PE=2 SV=2

 Score = 89.4 bits (220), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 63/227 (27%), Positives = 112/227 (49%), Gaps = 22/227 (9%)

Query: 19  TKSQGFNLNYSNTIGY--RQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76
           T  +GF  + +   GY  RQ+   +    +R    DT  LVR LE  G    QAE I +A
Sbjct: 42  TWKKGFATSAALPAGYDVRQVE--ITPLEQRKLTFDTHALVRELETHGFDKVQAETIVSA 99

Query: 77  ITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRS 136
           +  + N S++ V    V++ + + T     A+L   + ++   ++  F+ L+ E EK++ 
Sbjct: 100 LATLTNASIDTVYRDMVTRAQQEITVQQIMAHLDSIRKDMVILEKSEFATLRAENEKMKI 159

Query: 137 DIEKMRSELRYEIDKVTAGQRLDLNLERGRIRD--------------ELANQNAET---- 178
           ++E +R  L  E ++++A  +LD+NLER R+ D              E   +NA T    
Sbjct: 160 ELEHVRQHLLNETNRISADAKLDMNLERSRLTDLFTEQEKKLMEASTEFHKKNATTDSVI 219

Query: 179 TNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225
           T +  K+D +I +L+  ME+ K D ++Y   ++ +  A+ L   R+ 
Sbjct: 220 TEINKKIDIDIASLKTLMESHKLDTVRYMAASVFTCLAIALGFYRLW 266

Xenopus tropicalis (taxid: 8364)

>sp|P43557|FMP32_YEAST Protein FMP32, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=FMP32 PE=1 SV=1

 Score = 87.0 bits (214), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 92/157 (58%)

Query: 69  QAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQ 128
           QA  I   +T+ +   + +V+     + ++ +    Q  + +K + ++ S+    F  +Q
Sbjct: 50  QATTIVEIMTDAIRGGVNHVSQDLAKREKLTQLSYQQRVDFAKLRDQLLSADRSEFHNIQ 109

Query: 129 RETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDRE 188
            E E +++D+EK+R++LR EI K  AG +LDL+LE+GRIR+E ++ + +   +  K+++E
Sbjct: 110 NEYESVKNDLEKLRNKLREEITKTNAGFKLDLSLEKGRIREESSHHDLQIKEIDTKIEQE 169

Query: 189 IHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225
           +  ++  +++ K  V+++ IG      A+ LA +R+L
Sbjct: 170 VTNMKMQIDSVKTQVMQWLIGVCTGTFALVLAYMRLL 206

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

>sp|Q9GZT6|CC90B_HUMAN Coiled-coil domain-containing protein 90B, mitochondrial OS=Homo sapiens GN=CCDC90B PE=1 SV=2

 Score = 86.3 bits (212), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 55/198 (27%), Positives = 101/198 (51%), Gaps = 18/198 (9%)

Query: 46  KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
           +R    DT  LV+ LE  G    QAE I +A+T + N SL+ +    V++ + + T    
Sbjct: 56  QRKLTFDTHALVQDLETHGFDKTQAETIVSALTALSNVSLDTIYKEMVTQAQQEITVQQL 115

Query: 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
            A+L   + ++   ++  F+ L+ E EK++ ++++++ +L +E  ++ A  +LD+NLER 
Sbjct: 116 MAHLDAIRKDMVILEKSEFANLRAENEKMKIELDQVKQQLMHETSRIRADNKLDINLERS 175

Query: 166 RIRDELANQNAE----TTNLT--------------NKLDREIHALRAHMEAAKYDVIKYC 207
           R+ D   +Q  +    TT  T              NK+D EI +L+  ME+ K + I+Y 
Sbjct: 176 RVTDMFTDQEKQLMETTTEFTKKDTQTKSIISETSNKIDAEIASLKTLMESNKLETIRYL 235

Query: 208 IGTLVSISAVGLAIVRIL 225
             ++ +  A+ L   R  
Sbjct: 236 AASVFTCLAIALGFYRFW 253

Homo sapiens (taxid: 9606)

>sp|O14042|FMP32_SCHPO Protein fmp32, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=fmp32 PE=3 SV=1

 Score = 83.6 bits (205), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 50/191 (26%), Positives = 102/191 (53%), Gaps = 5/191 (2%)

Query: 41  VKSNGKRAFL-----VDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSK 95
           V+S G   F       ++L+ VR L+  G+  K++E +   I+ V +D  E ++   V+K
Sbjct: 26  VRSLGLNGFYRKYHGFNSLRFVRVLQEAGIDDKKSETLMRLISNVYSDMHEKISDFSVTK 85

Query: 96  GEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAG 155
            +  +    Q+ + +  +SE+QS +      L  + E+L SD+E++++  R +++  T+ 
Sbjct: 86  EQQDRVMYQQKVDFAHLRSELQSIERQEMVALHSQVEQLFSDVERLKTSFRDQLNNSTSE 145

Query: 156 QRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSIS 215
            RL LN++R    DE A+Q+ +   L+ ++D E+   R  + + K   +++  G +    
Sbjct: 146 ARLQLNIDRLNHYDETASQDLKLRELSAEIDTEMSNFRTQLASFKTQTLQWVFGIVTGSG 205

Query: 216 AVGLAIVRILM 226
           A+ LA VR+++
Sbjct: 206 ALLLAYVRLII 216

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

>sp|Q8C3X2|CC90B_MOUSE Coiled-coil domain-containing protein 90B, mitochondrial OS=Mus musculus GN=Ccdc90b PE=2 SV=1

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/198 (26%), Positives = 103/198 (52%), Gaps = 18/198 (9%)

Query: 46  KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
           +R    DT  LV+ LE  G    QA+ I + ++ + N SL+ +    V+K + + T    
Sbjct: 56  QRKLTFDTHALVQDLETHGFDKTQAQTIVSVLSTLSNVSLDTIYKEMVTKAQQEITVQQL 115

Query: 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
            A+L   + ++   ++  F+ L+ E EK++ ++++++ +L  E  ++ A  +LD+NLER 
Sbjct: 116 MAHLDSIRKDMVILEKSEFANLRAENEKMKIELDQVKQQLTNETSRIRADNKLDINLERS 175

Query: 166 RIRD--------------ELANQNAETTNL----TNKLDREIHALRAHMEAAKYDVIKYC 207
           R+ D              E A ++ +T ++    +NK+D EI +L+  ME++K + I+Y 
Sbjct: 176 RVTDMFTDQEKQLIEATNEFAKKDTQTKSIISETSNKIDTEIASLKTLMESSKLETIRYL 235

Query: 208 IGTLVSISAVGLAIVRIL 225
             ++ +  A+ L   R  
Sbjct: 236 AASVFTCLAIALGFYRFW 253

Mus musculus (taxid: 10090)

>sp|Q4V897|CC90B_RAT Coiled-coil domain-containing protein 90B, mitochondrial OS=Rattus norvegicus GN=Ccdc90b PE=2 SV=1

 Score = 83.6 bits (205), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 55/198 (27%), Positives = 100/198 (50%), Gaps = 18/198 (9%)

Query: 46  KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
           +R    DT  LV+ LE  G    QA+ I + ++ + N SL+ V    V+K + + T    
Sbjct: 56  QRKLTFDTHALVQDLETHGFDKGQAQTIVSVLSTLSNVSLDTVYKEMVTKAQQEITIQQL 115

Query: 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
            A+L   + ++   ++  F+ L+ E EK++ ++++++ +L  E  ++ A  RLD+NLER 
Sbjct: 116 MAHLDSIRKDMVILEKSEFANLRAENEKMKIELDQVKQQLINETSRIRADNRLDINLERS 175

Query: 166 RIRDELANQNA---ETTN---------------LTNKLDREIHALRAHMEAAKYDVIKYC 207
           R+ D   +Q     E TN                +NK+D EI +L+  ME++K + I+Y 
Sbjct: 176 RVTDMFTDQEKQLMEATNEFTKKDMQTKSIISETSNKIDTEIASLKTLMESSKLETIRYL 235

Query: 208 IGTLVSISAVGLAIVRIL 225
             ++ +  A+ L   R  
Sbjct: 236 AASVFTCLAIALGFYRFW 253

Rattus norvegicus (taxid: 10116)

>sp|Q0P4J6|MCUR1_XENTR Mitochondrial calcium uniporter regulator 1 OS=Xenopus tropicalis GN=ccdc90a PE=2 SV=1

 Score = 79.0 bits (193), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 57/229 (24%), Positives = 119/229 (51%), Gaps = 21/229 (9%)

Query: 17  RVTKSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76
           RVT  + FN+  ++T+ Y    + + ++  + +  DT  +V+ LEA G  ++Q+E + +A
Sbjct: 36  RVTCFRDFNI-ITSTMQYNLDKRNIYTSVGKHYFFDTHAVVQLLEANGFSAEQSEIVVSA 94

Query: 77  ITEVLNDSLENVAHTFVSKGEMQKTEMIQEANL-SKFKSEVQSSQEHHFSMLQRETEKLR 135
           + ++LN ++ N+ H  +   E Q+  + Q  +L +  K ++   ++  FS L+ + EK++
Sbjct: 95  LVKILNVNM-NLIHKDMVTKEQQEISLQQVMSLIASVKKDMIILEKSEFSALRTQNEKVK 153

Query: 136 SDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELAN------------------QNAE 177
            ++++++ +L   I KV A  +LD NLE+ R+++  A+                  Q+  
Sbjct: 154 IELQQLKKQLNDSIVKVRASNKLDFNLEKSRVKEMHADNERKLLELRTSIVELHSQQDRG 213

Query: 178 TTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
            T    K+D E+  ++   E+ K D IKY  G++ +   + L   R+ +
Sbjct: 214 LTQTKRKIDTEVSGVKTMQESHKLDTIKYLAGSVFTCLTIALGFYRLWI 262

Xenopus tropicalis (taxid: 8364)

>sp|Q96AQ8|MCUR1_HUMAN Mitochondrial calcium uniporter regulator 1 OS=Homo sapiens GN=CCDC90A PE=1 SV=1

 Score = 75.1 bits (183), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 56/204 (27%), Positives = 104/204 (50%), Gaps = 22/204 (10%)

Query: 43  SNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTE 102
           S+G R    DT  LV  LE  G  ++QAE I +A+ ++L  +++ V    V+K  MQ+  
Sbjct: 158 SSGSRKLYFDTHALVCLLEDNGFATQQAEIIVSALVKILEANMDIVYKDMVTK--MQQEI 215

Query: 103 MIQE--ANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDL 160
             Q+  + ++  K ++   ++  FS L+ E EK++ ++ +++ ++  E+ KV    +LD 
Sbjct: 216 TFQQVMSQIANVKKDMIILEKSEFSALRAENEKIKLELHQLKQQVMDEVIKVRTDTKLDF 275

Query: 161 NLERGRIRD----------EL--------ANQNAETTNLTNKLDREIHALRAHMEAAKYD 202
           NLE+ R+++          EL        A Q+   T    K++ E+  L+  +E+ K D
Sbjct: 276 NLEKSRVKELYSLNEKKLLELRTEIVALHAQQDRALTQTDRKIETEVAGLKTMLESHKLD 335

Query: 203 VIKYCIGTLVSISAVGLAIVRILM 226
            IKY  G++ +   V L   R+ +
Sbjct: 336 NIKYLAGSIFTCLTVALGFYRLWI 359

Homo sapiens (taxid: 9606)

>sp|Q9CXD6|MCUR1_MOUSE Mitochondrial calcium uniporter regulator 1 OS=Mus musculus GN=Ccdc90a PE=2 SV=1

 Score = 70.9 bits (172), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 54/200 (27%), Positives = 100/200 (50%), Gaps = 22/200 (11%)

Query: 47  RAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQE 106
           R    DT  LV  LEA G   +QAE I +A+ ++   ++  +    VSK  MQ+   +Q+
Sbjct: 143 RQLYFDTHALVCLLEANGFTIQQAEIIVSALVKITETNMNIIYKDMVSK--MQQEIALQQ 200

Query: 107 --ANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLER 164
             + ++  K ++   ++  FS L+ E EK++ ++ +++ ++  E+ KV    +L+ NLE+
Sbjct: 201 VLSKIANVKKDMVILEKSEFSALRAENEKIKLELHQLKQQVMDEVTKVRTDTKLNFNLEK 260

Query: 165 GRIRD----------EL--------ANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKY 206
            R+++          EL        A Q+   T    K++ E+  L+  +EA K D IKY
Sbjct: 261 SRVKELYSLNEKKMLELRTEIVSLHAQQDRALTQTDRKIETEVAGLKTMLEAHKLDTIKY 320

Query: 207 CIGTLVSISAVGLAIVRILM 226
             G++ +   V L   R+ +
Sbjct: 321 LAGSVFTCLTVALGFYRLWI 340

Mus musculus (taxid: 10090)

>sp|Q10073|YAN8_SCHPO Uncharacterized CCDC90 family protein C3H1.08c, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC3H1.08c PE=3 SV=1

 Score = 53.9 bits (128), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/122 (27%), Positives = 65/122 (53%)

Query: 55  QLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKS 114
           Q  R LE  G   K AE IT  +  +  ++L  +      K + +     Q+    + + 
Sbjct: 41  QSSRRLEQAGYSVKNAETITNLMRTITGEALTELEKNIGFKAKQESVSFQQKRTFLQIRK 100

Query: 115 EVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQ 174
            +++ +E+ F  +++ ++KL ++IEK +S LR ++    +  RL+LNLE+GR++D   ++
Sbjct: 101 YLETIEENEFDKVRKSSDKLINEIEKTKSSLREDVKTALSEVRLNLNLEKGRMKDAATSR 160

Query: 175 NA 176
           N 
Sbjct: 161 NT 162

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

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	226
224103329	231	predicted protein [Populus trichocarpa]	1.0	0.978	0.805	1e-101
449457500	249	PREDICTED: protein FMP32, mitochondrial-	0.995	0.903	0.763	7e-97
18398123	230	uncharacterized protein [Arabidopsis tha	1.0	0.982	0.756	1e-95
297836694	230	hypothetical protein ARALYDRAFT_900313 [	1.0	0.982	0.765	2e-95
255586310	238	conserved hypothetical protein [Ricinus	0.973	0.924	0.784	4e-94
388504548	236	unknown [Lotus japonicus]	0.991	0.949	0.751	4e-93
297735052	297	unnamed protein product [Vitis vinifera]	0.884	0.673	0.83	9e-91
225431215	306	PREDICTED: protein FMP32, mitochondrial-	0.880	0.650	0.834	1e-90
357518139	241	Coiled-coil domain-containing protein 90	0.893	0.838	0.817	1e-89
357483649	233	Coiled-coil domain-containing protein 90	1.0	0.969	0.734	1e-89

>gi|224103329|ref|XP_002313013.1| predicted protein [Populus trichocarpa] gi|222849421|gb|EEE86968.1| predicted protein [Populus trichocarpa]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 186/231 (80%), Positives = 206/231 (89%), Gaps = 5/231 (2%)

Query: 1   MALCKRVVKLVADSGVRVTKSQGFNLNYSNTIG----YRQISQLVK-SNGKRAFLVDTLQ 55
           MALC RVV+   +S +   KS+  N + S++ G    YR ISQLV+ +N KRAFLVDTL 
Sbjct: 1   MALCSRVVRSGVNSAIFFAKSRAINPSSSSSFGNRFDYRHISQLVRPNNNKRAFLVDTLA 60

Query: 56  LVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSE 115
           LVRGLE+QGVPSKQAEAITAAITEVLNDSLENVA++FVSK EMQK+EMIQ++NLSKFKSE
Sbjct: 61  LVRGLESQGVPSKQAEAITAAITEVLNDSLENVAYSFVSKAEMQKSEMIQDSNLSKFKSE 120

Query: 116 VQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 175
           VQSSQEHHFS+LQRETEKLR DI+KMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN
Sbjct: 121 VQSSQEHHFSLLQRETEKLRGDIDKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 180

Query: 176 AETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           AETTNLTNKLDREIHALRAH+EAAKYDVIKYCIGTLVSI AVG+A VRIL+
Sbjct: 181 AETTNLTNKLDREIHALRAHLEAAKYDVIKYCIGTLVSICAVGIATVRILL 231

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457500|ref|XP_004146486.1| PREDICTED: protein FMP32, mitochondrial-like [Cucumis sativus] gi|449515255|ref|XP_004164665.1| PREDICTED: protein FMP32, mitochondrial-like [Cucumis sativus]

 Score =  358 bits (920), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 187/245 (76%), Positives = 204/245 (83%), Gaps = 20/245 (8%)

Query: 2   ALCKRVVKLVADSGVR---VTKSQGF----------NLNYSNTI-------GYRQISQLV 41
           A CKRV +LVA+SG+R   V+    F          NL+ S ++         RQISQLV
Sbjct: 5   AACKRVGQLVANSGLRRLGVSNVSSFESSIFDHSANNLSASISLISRYRHYECRQISQLV 64

Query: 42  KSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKT 101
           KSNGKR FLVDTL LVR LE QGVPS QAEAITAAITEVLNDSLEN++H+FVSKGEMQK 
Sbjct: 65  KSNGKRLFLVDTLALVRKLEGQGVPSNQAEAITAAITEVLNDSLENISHSFVSKGEMQKI 124

Query: 102 EMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLN 161
           EMIQ++NLSKFKSEVQSSQ HHFS+L  ETEKLR+DIEKMRSELRYEIDKVTAGQRLDLN
Sbjct: 125 EMIQDSNLSKFKSEVQSSQGHHFSLLGHETEKLRNDIEKMRSELRYEIDKVTAGQRLDLN 184

Query: 162 LERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAI 221
           LERGRIRDELANQNAETTNLTNKLDREIH LRA +EAAKYDVIKYCIGTLVSISAVGLA+
Sbjct: 185 LERGRIRDELANQNAETTNLTNKLDREIHGLRAQLEAAKYDVIKYCIGTLVSISAVGLAV 244

Query: 222 VRILM 226
           +RILM
Sbjct: 245 LRILM 249

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18398123|ref|NP_565388.1| uncharacterized protein [Arabidopsis thaliana] gi|17529264|gb|AAL38859.1| unknown protein [Arabidopsis thaliana] gi|20198032|gb|AAD22294.2| expressed protein [Arabidopsis thaliana] gi|21536621|gb|AAM60953.1| unknown [Arabidopsis thaliana] gi|29824341|gb|AAP04131.1| unknown protein [Arabidopsis thaliana] gi|330251406|gb|AEC06500.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  354 bits (909), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 174/230 (75%), Positives = 197/230 (85%), Gaps = 4/230 (1%)

Query: 1   MALCKRVVKLVADSGVRVTKSQGFNLNYS----NTIGYRQISQLVKSNGKRAFLVDTLQL 56
           M L KR+  L A S + + K +G   +          YRQ S+L K+NG+RAFLVDTL L
Sbjct: 1   MTLSKRLALLGAQSAITLAKPRGLGSSLGLLDRRPFPYRQFSELTKANGRRAFLVDTLAL 60

Query: 57  VRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEV 116
           VR LEAQGVPSKQAEAIT+AITEVLNDSLENV+ +FVSK EMQK EMIQ++NLSKFKSEV
Sbjct: 61  VRSLEAQGVPSKQAEAITSAITEVLNDSLENVSESFVSKAEMQKIEMIQDSNLSKFKSEV 120

Query: 117 QSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNA 176
           +SSQEHHF++LQRETEKLR DIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 
Sbjct: 121 KSSQEHHFTVLQRETEKLRGDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNT 180

Query: 177 ETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           ETTNLTNKLDREIHALRA +EA+KY+VIKYCIGTLVSISAVGLA++RI++
Sbjct: 181 ETTNLTNKLDREIHALRAQLEASKYEVIKYCIGTLVSISAVGLAVLRIMI 230

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297836694|ref|XP_002886229.1| hypothetical protein ARALYDRAFT_900313 [Arabidopsis lyrata subsp. lyrata] gi|297332069|gb|EFH62488.1| hypothetical protein ARALYDRAFT_900313 [Arabidopsis lyrata subsp. lyrata]

 Score =  353 bits (907), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 176/230 (76%), Positives = 199/230 (86%), Gaps = 4/230 (1%)

Query: 1   MALCKRVVKLVADSGVRVTKSQGF--NLNYSN--TIGYRQISQLVKSNGKRAFLVDTLQL 56
           M L KR+  L A S + + K +G   +L   N     YRQ S+L K+NG+RAFLVDTL L
Sbjct: 1   MTLSKRLALLGAQSAITLAKPRGLVSSLGLLNRRQFPYRQYSELTKANGRRAFLVDTLAL 60

Query: 57  VRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEV 116
           VR LEAQGVPSKQAEAIT+AITEVLNDSLENV+ +FVSK EMQK EMIQ++NLSKFKSEV
Sbjct: 61  VRSLEAQGVPSKQAEAITSAITEVLNDSLENVSESFVSKAEMQKIEMIQDSNLSKFKSEV 120

Query: 117 QSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNA 176
           +SSQEHHF++LQRETEKLR DIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 
Sbjct: 121 KSSQEHHFTVLQRETEKLRGDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNT 180

Query: 177 ETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           ETTNLTNKLDREIHALRA +EA+KY+VIKYCIGTLVSISAVGLA++RI++
Sbjct: 181 ETTNLTNKLDREIHALRAQLEASKYEVIKYCIGTLVSISAVGLAVLRIMI 230

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586310|ref|XP_002533806.1| conserved hypothetical protein [Ricinus communis] gi|223526260|gb|EEF28575.1| conserved hypothetical protein [Ricinus communis]

 Score =  349 bits (896), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 178/227 (78%), Positives = 197/227 (86%), Gaps = 7/227 (3%)

Query: 7   VVKLVADSGV---RVTKSQGFNL----NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRG 59
           V ++ A+SG+   R ++  GF       +++    RQISQ VKSNG+R FLVDTL LVR 
Sbjct: 12  VGQIRANSGIHFLRGSRRVGFGALDFDPFASISPCRQISQFVKSNGRRVFLVDTLALVRR 71

Query: 60  LEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSS 119
           LEAQGVPSKQAEAIT AITEVLNDSLENV+H+ VSK EMQKTEMIQE NLSKFKSEVQSS
Sbjct: 72  LEAQGVPSKQAEAITGAITEVLNDSLENVSHSVVSKTEMQKTEMIQETNLSKFKSEVQSS 131

Query: 120 QEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETT 179
           QEHHFS+LQ ETEKLR DIEKMRSELR+EIDKVTAGQRLDLNLERGRIRDELA+QNAET+
Sbjct: 132 QEHHFSLLQHETEKLRHDIEKMRSELRHEIDKVTAGQRLDLNLERGRIRDELADQNAETS 191

Query: 180 NLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           NLTNKLDREIHALRA +EAAKYDVIKYCIGTLVSISAVGLA++RILM
Sbjct: 192 NLTNKLDREIHALRAQLEAAKYDVIKYCIGTLVSISAVGLAVLRILM 238

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388504548|gb|AFK40340.1| unknown [Lotus japonicus]

 Score =  346 bits (888), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 175/233 (75%), Positives = 196/233 (84%), Gaps = 9/233 (3%)

Query: 3   LCKRVVKLVADSGVRVTKSQG-FNLNYSNTI--------GYRQISQLVKSNGKRAFLVDT 53
           +CKRV +L    G RV+K Q  F     N +        G R IS+LVKSNGK  FLVDT
Sbjct: 4   ICKRVKQLARFGGFRVSKVQSSFERPICNPLSASSPSVSGTRHISELVKSNGKHLFLVDT 63

Query: 54  LQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFK 113
           L LVR LE QGVPSKQAEAITAAIT VLNDSLENV+ + VSKGEMQKTEMIQE+NLSKFK
Sbjct: 64  LALVRRLEGQGVPSKQAEAITAAITGVLNDSLENVSQSLVSKGEMQKTEMIQESNLSKFK 123

Query: 114 SEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELAN 173
           SEVQSSQ HHFS+LQ ETEKLR+DIEKMRSELRYE+DKVTAGQRLD+NLERGRIR+EL+N
Sbjct: 124 SEVQSSQGHHFSLLQHETEKLRNDIEKMRSELRYEMDKVTAGQRLDMNLERGRIREELSN 183

Query: 174 QNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           Q+AE ++LTNKLDREIH+LRA MEAAKYDVIKYCIG+LVSISAVGLA++RILM
Sbjct: 184 QSAENSSLTNKLDREIHSLRAQMEAAKYDVIKYCIGSLVSISAVGLAVIRILM 236

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735052|emb|CBI17414.3| unnamed protein product [Vitis vinifera]

 Score =  338 bits (867), Expect = 9e-91,   Method: Compositional matrix adjust.
 Identities = 166/200 (83%), Positives = 177/200 (88%)

Query: 27  NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLE 86
            Y     YR  SQ VKSNG R FLVDTL LVR LEAQG+PSK AEAIT+ ITEVLNDSLE
Sbjct: 98  GYCRRSDYRPFSQFVKSNGGRLFLVDTLALVRKLEAQGIPSKHAEAITSTITEVLNDSLE 157

Query: 87  NVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELR 146
           NVA + VSKGE+QK EM QE+NLSKFKSEV+SSQ HHFS+LQ ETEKLRSDIEKMRSELR
Sbjct: 158 NVAQSLVSKGEIQKIEMTQESNLSKFKSEVESSQGHHFSLLQHETEKLRSDIEKMRSELR 217

Query: 147 YEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKY 206
           YEIDKVTAG RLDLNLERGRIRDELANQNAETT+LTNKLDREIHALRA +EAAKYDVIKY
Sbjct: 218 YEIDKVTAGLRLDLNLERGRIRDELANQNAETTSLTNKLDREIHALRAQLEAAKYDVIKY 277

Query: 207 CIGTLVSISAVGLAIVRILM 226
           CIGTLVSISAVGLA++RILM
Sbjct: 278 CIGTLVSISAVGLAVIRILM 297

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225431215|ref|XP_002267188.1| PREDICTED: protein FMP32, mitochondrial-like [Vitis vinifera]

 Score =  338 bits (866), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 166/199 (83%), Positives = 177/199 (88%)

Query: 28  YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLEN 87
           Y     YR  SQ VKSNG R FLVDTL LVR LEAQG+PSK AEAIT+ ITEVLNDSLEN
Sbjct: 108 YCRRSDYRPFSQFVKSNGGRLFLVDTLALVRKLEAQGIPSKHAEAITSTITEVLNDSLEN 167

Query: 88  VAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRY 147
           VA + VSKGE+QK EM QE+NLSKFKSEV+SSQ HHFS+LQ ETEKLRSDIEKMRSELRY
Sbjct: 168 VAQSLVSKGEIQKIEMTQESNLSKFKSEVESSQGHHFSLLQHETEKLRSDIEKMRSELRY 227

Query: 148 EIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYC 207
           EIDKVTAG RLDLNLERGRIRDELANQNAETT+LTNKLDREIHALRA +EAAKYDVIKYC
Sbjct: 228 EIDKVTAGLRLDLNLERGRIRDELANQNAETTSLTNKLDREIHALRAQLEAAKYDVIKYC 287

Query: 208 IGTLVSISAVGLAIVRILM 226
           IGTLVSISAVGLA++RILM
Sbjct: 288 IGTLVSISAVGLAVIRILM 306

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357518139|ref|XP_003629358.1| Coiled-coil domain-containing protein 90B [Medicago truncatula] gi|355523380|gb|AET03834.1| Coiled-coil domain-containing protein 90B [Medicago truncatula]

 Score =  334 bits (857), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 166/203 (81%), Positives = 182/203 (89%), Gaps = 1/203 (0%)

Query: 24  FNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLND 83
            + + S T  + Q SQLVKSNGK  FLVDTL LVR LE QGVPSKQAEAITAAITEVLND
Sbjct: 40  LSFSASTTRSFSQ-SQLVKSNGKHLFLVDTLALVRRLEGQGVPSKQAEAITAAITEVLND 98

Query: 84  SLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRS 143
           SLENV+   VSKGEMQKTEMIQE+NLSKFKSEVQSSQ HHFS+LQ ETEKLR+DIEKMRS
Sbjct: 99  SLENVSQALVSKGEMQKTEMIQESNLSKFKSEVQSSQGHHFSLLQHETEKLRNDIEKMRS 158

Query: 144 ELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDV 203
           ELRYE+DKVTAGQRLDLNLERGR R+EL+NQ+AET NLTNKLDREIH+LRA +EAAKY+V
Sbjct: 159 ELRYEMDKVTAGQRLDLNLERGRTREELSNQSAETNNLTNKLDREIHSLRAQLEAAKYEV 218

Query: 204 IKYCIGTLVSISAVGLAIVRILM 226
           IKYCIGTLVSISAVGLA++RILM
Sbjct: 219 IKYCIGTLVSISAVGLAVLRILM 241

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357483649|ref|XP_003612111.1| Coiled-coil domain-containing protein 90B [Medicago truncatula] gi|355513446|gb|AES95069.1| Coiled-coil domain-containing protein 90B [Medicago truncatula]

 Score =  334 bits (857), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 169/230 (73%), Positives = 192/230 (83%), Gaps = 4/230 (1%)

Query: 1   MALCKRVVKLVADSGVRVTKSQGFNLNYS----NTIGYRQISQLVKSNGKRAFLVDTLQL 56
           +A C+R+ +L  +SGV +T   G+ +  S    + +G    S   KSNG+R FLVDTL L
Sbjct: 4   VAACRRLGRLRTNSGVGLTGFAGYGIGASKFTPSILGSMYFSGFGKSNGQRLFLVDTLAL 63

Query: 57  VRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEV 116
           V+ LE QGVP KQAEAIT AITEVLNDSLENV+ + VSK EMQ+TEM QEANLSKFK+EV
Sbjct: 64  VKRLEGQGVPLKQAEAITGAITEVLNDSLENVSRSLVSKEEMQRTEMQQEANLSKFKTEV 123

Query: 117 QSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNA 176
           QSSQ HHFS+LQ ETEKL++DIEKMRSELRYEIDKVTAGQRLDLNLERGRIR+EL NQNA
Sbjct: 124 QSSQGHHFSLLQHETEKLKNDIEKMRSELRYEIDKVTAGQRLDLNLERGRIREELTNQNA 183

Query: 177 ETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           ET NLTNKLDREIHALRA +EAAKYDVIKYCIGTLVSISAVGLA++RILM
Sbjct: 184 ETNNLTNKLDREIHALRAQLEAAKYDVIKYCIGTLVSISAVGLAVLRILM 233

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	226
TAIR|locus:2042644	230	AT2G16460 "AT2G16460" [Arabido	1.0	0.982	0.756	3e-85
TAIR|locus:2080838	298	AT3G51090 "AT3G51090" [Arabido	0.915	0.694	0.730	1.3e-75
UNIPROTKB|G4N0K5	286	MGG_07736 "Uncharacterized pro	0.774	0.611	0.337	2.2e-25
ASPGD|ASPL0000030120	307	AN10711 [Emericella nidulans (	0.800	0.589	0.303	4.2e-24
CGD|CAL0006025	208	orf19.2939 [Candida albicans (	0.827	0.899	0.298	1.6e-22
UNIPROTKB|Q5AIB4	208	FMP32 "Potential mitochondrial	0.827	0.899	0.298	1.6e-22
SGD|S000001848	207	FMP32 "Putative protein of unk	0.694	0.758	0.280	1.9e-19
POMBASE|SPAC2C4.09	216	SPAC2C4.09 "DUF1640 family pro	0.774	0.810	0.262	7.5e-18
UNIPROTKB|Q9GZT6	254	CCDC90B "Coiled-coil domain-co	0.650	0.578	0.286	2e-15
UNIPROTKB|F1NVU8	252	CCDC90B "Uncharacterized prote	0.632	0.567	0.293	2.6e-15

TAIR|locus:2042644 AT2G16460 "AT2G16460" [Arabidopsis thaliana (taxid:3702)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 174/230 (75%), Positives = 197/230 (85%)

Query:     1 MALCKRVVKLVADSGVRVTKSQGFNLNYS----NTIGYRQISQLVKSNGKRAFLVDTLQL 56
             M L KR+  L A S + + K +G   +          YRQ S+L K+NG+RAFLVDTL L
Sbjct:     1 MTLSKRLALLGAQSAITLAKPRGLGSSLGLLDRRPFPYRQFSELTKANGRRAFLVDTLAL 60

Query:    57 VRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEV 116
             VR LEAQGVPSKQAEAIT+AITEVLNDSLENV+ +FVSK EMQK EMIQ++NLSKFKSEV
Sbjct:    61 VRSLEAQGVPSKQAEAITSAITEVLNDSLENVSESFVSKAEMQKIEMIQDSNLSKFKSEV 120

Query:   117 QSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNA 176
             +SSQEHHF++LQRETEKLR DIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 
Sbjct:   121 KSSQEHHFTVLQRETEKLRGDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNT 180

Query:   177 ETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
             ETTNLTNKLDREIHALRA +EA+KY+VIKYCIGTLVSISAVGLA++RI++
Sbjct:   181 ETTNLTNKLDREIHALRAQLEASKYEVIKYCIGTLVSISAVGLAVLRIMI 230

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0005739 "mitochondrion" evidence=IDA

GO:0046872 "metal ion binding" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

TAIR|locus:2080838 AT3G51090 "AT3G51090" [Arabidopsis thaliana (taxid:3702)]

 Score = 762 (273.3 bits), Expect = 1.3e-75, P = 1.3e-75
 Identities = 157/215 (73%), Positives = 182/215 (84%)

Query:    20 KSQGFNLNYSNTIGY---RQ-----ISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAE 71
             K+Q F  + S+ + Y   RQ     ISQL+K+NGKR FLVDTL LVR LEAQG+PSKQAE
Sbjct:    84 KTQEFRSSSSSLVSYSSFRQFHARFISQLIKTNGKRLFLVDTLALVRSLEAQGLPSKQAE 143

Query:    72 AITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRET 131
             AIT AITEVLNDSL  V+   VSKGEMQK EM QE+NLSKFKSE+ SS +HHFS+LQ E 
Sbjct:   144 AITGAITEVLNDSLGVVSQLVVSKGEMQKAEMTQESNLSKFKSEINSSLDHHFSLLQHEN 203

Query:   132 EKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHA 191
             EKLR+DIE++RS++R+EIDKVTAGQRLDLNLE+GRIRDEL NQN ET+NLTNKLDREIH 
Sbjct:   204 EKLRNDIERIRSDIRHEIDKVTAGQRLDLNLEKGRIRDELQNQNGETSNLTNKLDREIHT 263

Query:   192 LRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
             LRA +EAAKY+VIKYCIGTLVSISAVGLA++RI+M
Sbjct:   264 LRAQLEAAKYEVIKYCIGTLVSISAVGLAVLRIVM 298

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0006635 "fatty acid beta-oxidation" evidence=RCA

GO:0006914 "autophagy" evidence=RCA

GO:0009062 "fatty acid catabolic process" evidence=RCA

UNIPROTKB|G4N0K5 MGG_07736 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 59/175 (33%), Positives = 103/175 (58%)

Query:    52 DTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK 111
             DTL+LV+ L+++G    QAEA+   + +V+ +S++N+  T V + +  K    Q+ + +K
Sbjct:   112 DTLKLVQRLQSEGFTETQAEAMMKILNDVIEESIQNLTRTMVPREDAAKATYTQKVDFAK 171

Query:   112 FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDEL 171
              +SE+ S+     +  +   E+L +DI K+ S LR EI +  A  RLDLNLE+GRIR+E 
Sbjct:   172 LRSELLSTDNTETNTTRAAHERLTNDIAKLSSRLRDEIGRTQASVRLDLNLEKGRIREEA 231

Query:   172 ANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
              +Q  +      K+++E  ALR  +E  K+  +++ +G     +A+ L + R+LM
Sbjct:   232 VSQELKIKETETKIEQEAAALRQQLEQVKFQTLQWLMGLCTGFAALMLGLWRLLM 286

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

ASPGD|ASPL0000030120 AN10711 [Emericella nidulans (taxid:162425)]

 Score = 276 (102.2 bits), Expect = 4.2e-24, P = 4.2e-24
 Identities = 55/181 (30%), Positives = 105/181 (58%)

Query:    46 KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
             KR    DTL+ V+ L+ +G   +QA A+   + +V+ +S++N+  T V + + +++   Q
Sbjct:   127 KRDHHFDTLKFVQRLKDEGFSEEQAVAMMRVLNDVIQESIQNLTRTMVLREDTERSAYTQ 186

Query:   106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
             + + +K +SE+ ++      +++   EK+ +D+ K+ S LR EI +  A  RLDLNLE+G
Sbjct:   187 KVDFAKLRSELLNADSTEAQLIRSSHEKIAADLAKLNSRLRDEIGRTQASVRLDLNLEKG 246

Query:   166 RIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225
             RIR+E  +Q         ++++E+  LR  +EA K+  +++ +G     +A+ L   R+L
Sbjct:   247 RIREEANSQEMRIKETETRIEQEVAGLRERVEAVKFSTLQWLMGVCTGTAALILGAWRLL 306

Query:   226 M 226
             M
Sbjct:   307 M 307

GO:0008150 "biological_process" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

CGD|CAL0006025 orf19.2939 [Candida albicans (taxid:5476)]

 Score = 261 (96.9 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 58/194 (29%), Positives = 103/194 (53%)

Query:    30 NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVA 89
             +TI  R +S + K + ++   V TLQ     +  G   KQAE     +   +ND + ++ 
Sbjct:    19 STINSRSLSGITKFDTRK--FVQTLQ-----DKGGFSEKQAEVAVNVVNAAINDGIYSIT 71

Query:    90 HTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEI 149
             +  V K  +      Q+ N +K K E+Q+  +  F+ L++E EKLR+D+  +++ L+ EI
Sbjct:    72 NNLVKKESLSSIAYQQKVNFAKLKGELQTMDKSEFTSLKKEQEKLRTDLTNLKNRLKEEI 131

Query:   150 DKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG 209
              K  A  RLDLNLE+GRIR+E +       +  +++D E+  ++  ++  K  V+++ +G
Sbjct:   132 TKNQASVRLDLNLEKGRIREESSQHELRIEDTYSRIDEEVSNMKMQIKTVKTQVLQWLMG 191

Query:   210 TLVSISAVGLAIVR 223
                   A+ L  VR
Sbjct:   192 VSTGTLALLLTFVR 205

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q5AIB4 FMP32 "Potential mitochondrial protein Fmp32" [Candida albicans SC5314 (taxid:237561)]

 Score = 261 (96.9 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 58/194 (29%), Positives = 103/194 (53%)

Query:    30 NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVA 89
             +TI  R +S + K + ++   V TLQ     +  G   KQAE     +   +ND + ++ 
Sbjct:    19 STINSRSLSGITKFDTRK--FVQTLQ-----DKGGFSEKQAEVAVNVVNAAINDGIYSIT 71

Query:    90 HTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEI 149
             +  V K  +      Q+ N +K K E+Q+  +  F+ L++E EKLR+D+  +++ L+ EI
Sbjct:    72 NNLVKKESLSSIAYQQKVNFAKLKGELQTMDKSEFTSLKKEQEKLRTDLTNLKNRLKEEI 131

Query:   150 DKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG 209
              K  A  RLDLNLE+GRIR+E +       +  +++D E+  ++  ++  K  V+++ +G
Sbjct:   132 TKNQASVRLDLNLEKGRIREESSQHELRIEDTYSRIDEEVSNMKMQIKTVKTQVLQWLMG 191

Query:   210 TLVSISAVGLAIVR 223
                   A+ L  VR
Sbjct:   192 VSTGTLALLLTFVR 205

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

SGD|S000001848 FMP32 "Putative protein of unknown function" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 44/157 (28%), Positives = 92/157 (58%)

Query:    69 QAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQ 128
             QA  I   +T+ +   + +V+     + ++ +    Q  + +K + ++ S+    F  +Q
Sbjct:    50 QATTIVEIMTDAIRGGVNHVSQDLAKREKLTQLSYQQRVDFAKLRDQLLSADRSEFHNIQ 109

Query:   129 RETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDRE 188
              E E +++D+EK+R++LR EI K  AG +LDL+LE+GRIR+E ++ + +   +  K+++E
Sbjct:   110 NEYESVKNDLEKLRNKLREEITKTNAGFKLDLSLEKGRIREESSHHDLQIKEIDTKIEQE 169

Query:   189 IHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225
             +  ++  +++ K  V+++ IG      A+ LA +R+L
Sbjct:   170 VTNMKMQIDSVKTQVMQWLIGVCTGTFALVLAYMRLL 206

GO:0005739 "mitochondrion" evidence=IEA;IDA

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

POMBASE|SPAC2C4.09 SPAC2C4.09 "DUF1640 family protein" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 217 (81.4 bits), Expect = 7.5e-18, P = 7.5e-18
 Identities = 46/175 (26%), Positives = 97/175 (55%)

Query:    52 DTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK 111
             ++L+ VR L+  G+  K++E +   I+ V +D  E ++   V+K +  +    Q+ + + 
Sbjct:    42 NSLRFVRVLQEAGIDDKKSETLMRLISNVYSDMHEKISDFSVTKEQQDRVMYQQKVDFAH 101

Query:   112 FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDEL 171
              +SE+QS +      L  + E+L SD+E++++  R +++  T+  RL LN++R    DE 
Sbjct:   102 LRSELQSIERQEMVALHSQVEQLFSDVERLKTSFRDQLNNSTSEARLQLNIDRLNHYDET 161

Query:   172 ANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
             A+Q+ +   L+ ++D E+   R  + + K   +++  G +    A+ LA VR+++
Sbjct:   162 ASQDLKLRELSAEIDTEMSNFRTQLASFKTQTLQWVFGIVTGSGALLLAYVRLII 216

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISO;IDA

GO:0008150 "biological_process" evidence=ND

GO:0016021 "integral to membrane" evidence=IEA

UNIPROTKB|Q9GZT6 CCDC90B "Coiled-coil domain-containing protein 90B, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 194 (73.4 bits), Expect = 2.0e-15, P = 2.0e-15
 Identities = 43/150 (28%), Positives = 81/150 (54%)

Query:    46 KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
             +R    DT  LV+ LE  G    QAE I +A+T + N SL+ +    V++ + + T    
Sbjct:    56 QRKLTFDTHALVQDLETHGFDKTQAETIVSALTALSNVSLDTIYKEMVTQAQQEITVQQL 115

Query:   106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
              A+L   + ++   ++  F+ L+ E EK++ ++++++ +L +E  ++ A  +LD+NLER 
Sbjct:   116 MAHLDAIRKDMVILEKSEFANLRAENEKMKIELDQVKQQLMHETSRIRADNKLDINLERS 175

Query:   166 RIRDELANQNA---ETTNLTNKLDREIHAL 192
             R+ D   +Q     ETT    K D +  ++
Sbjct:   176 RVTDMFTDQEKQLMETTTEFTKKDTQTKSI 205

GO:0016021 "integral to membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|F1NVU8 CCDC90B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 193 (73.0 bits), Expect = 2.6e-15, P = 2.6e-15
 Identities = 42/143 (29%), Positives = 77/143 (53%)

Query:    46 KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105
             +R    DT  LVR LE  G   +QAE I +A+  + N SLE V    V++ + + T    
Sbjct:    54 QRKVTFDTHALVRDLETHGFAKEQAETIVSALITLSNVSLETVYKDMVTQAQQEITLQQI 113

Query:   106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165
              A+L   + ++   ++  F+ L+ E EK++ ++++++ +L  E  K+ A  +LD+NLER 
Sbjct:   114 MAHLDSIRKDMVILEKSEFANLRAENEKMKIELDQVKQQLMNETSKIQADSKLDINLERS 173

Query:   166 RIRDELANQNAETTNLTNKLDRE 188
             R+ D   +Q  +    T +  ++
Sbjct:   174 RVTDMFTDQERKLMEATTEFHKK 196

GO:0005739 "mitochondrion" 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: estExt_fgenesh4_pg.C_LG_IX0416 hypothetical protein (231 aa) (Populus trichocarpa)

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	226
pfam07798	177	pfam07798, DUF1640, Protein of unknown function (D	4e-77

>gnl|CDD|191851 pfam07798, DUF1640, Protein of unknown function (DUF1640)

 Score =  229 bits (586), Expect = 4e-77
 Identities = 85/177 (48%), Positives = 119/177 (67%)

Query: 50  LVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANL 109
             DTL LV+ LE  G   +QAEAI +A+T+V+NDS+ENV+   V+K + +KTE  Q+ + 
Sbjct: 1   HFDTLALVQSLEENGFTEEQAEAIVSALTDVINDSIENVSKDMVTKEQQEKTEYQQKVDF 60

Query: 110 SKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRD 169
           +K KSE+QS ++  F+ LQ E EKL++D+EK+++ LR EI KVTAG RLDLNLE+GRIR+
Sbjct: 61  AKLKSELQSLEKSEFANLQAENEKLKNDLEKLKNRLRDEITKVTAGVRLDLNLEKGRIRE 120

Query: 170 ELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226
           E A Q  +      K+D EI  L+  +E+ K D IKY IG +    A+ LA  R+ M
Sbjct: 121 ESAEQELKIKETDTKIDTEIAGLKTQLESVKLDTIKYLIGVVTGCLALALAFYRLWM 177

This family consists of sequences derived from hypothetical eukaryotic proteins. A region approximately 100 residues in length is featured. Length = 177

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	226
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	100.0
KOG3156	220	consensus Uncharacterized membrane protein [Functi	100.0
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	97.99
PRK10884	206	SH3 domain-containing protein; Provisional	96.96
COG3937	108	Uncharacterized conserved protein [Function unknow	95.15
KOG3156	220	consensus Uncharacterized membrane protein [Functi	94.82
TIGR01837	118	PHA_granule_1 poly(hydroxyalkanoate) granule-assoc	94.78
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	94.32
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	94.06
PF00038	312	Filament: Intermediate filament protein; InterPro:	94.01
PF10779	71	XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly	93.4
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	93.39
COG3524	372	KpsE Capsule polysaccharide export protein [Cell e	92.37
PF00957	89	Synaptobrevin: Synaptobrevin; InterPro: IPR001388	92.31
cd04766	91	HTH_HspR Helix-Turn-Helix DNA binding domain of th	92.29
KOG0860	116	consensus Synaptobrevin/VAMP-like protein [Intrace	92.21
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	91.83
PRK10884	206	SH3 domain-containing protein; Provisional	91.7
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	91.49
cd04776	118	HTH_GnyR Helix-Turn-Helix DNA binding domain of th	90.62
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	90.49
PF05957	94	DUF883: Bacterial protein of unknown function (DUF	90.2
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	89.76
COG2433	652	Uncharacterized conserved protein [Function unknow	89.73
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	89.03
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	88.64
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	88.61
TIGR02054	120	MerD mercuric resistence transcriptional repressor	88.44
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	88.3
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	88.28
PRK13182	175	racA polar chromosome segregation protein; Reviewe	87.89
PF08581	79	Tup_N: Tup N-terminal; InterPro: IPR013890 The N-t	87.53
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	87.49
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	87.31
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	86.75
TIGR01010	362	BexC_CtrB_KpsE polysaccharide export inner-membran	86.58
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	86.57
PF09731	582	Mitofilin: Mitochondrial inner membrane protein; I	86.51
cd04786	131	HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding dom	86.36
PRK11637	428	AmiB activator; Provisional	86.2
PF07439	112	DUF1515: Protein of unknown function (DUF1515); In	86.1
cd01109	113	HTH_YyaN Helix-Turn-Helix DNA binding domain of th	85.1
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	84.44
PF11166	98	DUF2951: Protein of unknown function (DUF2951); In	84.4
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	84.37
PRK11546	143	zraP zinc resistance protein; Provisional	84.07
cd04779	134	HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding dom	83.99
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	83.82
PRK11637	428	AmiB activator; Provisional	83.51
PRK10227	135	DNA-binding transcriptional regulator CueR; Provis	83.31
PF04420	161	CHD5: CHD5-like protein; InterPro: IPR007514 Membe	83.18
KOG4253	175	consensus Tryptophan-rich basic nuclear protein [G	83.1
PF00038	312	Filament: Intermediate filament protein; InterPro:	83.0
PF10779	71	XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemoly	82.59
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	82.38
COG3206	458	GumC Uncharacterized protein involved in exopolysa	82.24
cd01279	98	HTH_HspR-like Helix-Turn-Helix DNA binding domain	82.1
PF09753	251	Use1: Membrane fusion protein Use1; InterPro: IPR0	82.08
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	82.06
PRK13454	181	F0F1 ATP synthase subunit B'; Provisional	82.05
PRK00409	782	recombination and DNA strand exchange inhibitor pr	81.78
cd01106	103	HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain	81.47
PF11657	144	Activator-TraM: Transcriptional activator TraM	81.07
cd04787	133	HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain	80.75
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	80.56
cd01282	112	HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding dom	80.38
cd04785	126	HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding do	80.2
PF03449	74	GreA_GreB_N: Transcription elongation factor, N-te	80.17

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=100.00  E-value=1.4e-54  Score=365.16  Aligned_cols=177  Identities=45%  Similarity=0.694  Sum_probs=176.2

Q ss_pred             eccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHH
Q 027204           50 LVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQR  129 (226)
Q Consensus        50 ~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~  129 (226)
                      |||||+||++|+++|||++|||+|+.+++++++++++.++.++|||+|+++..|+|+++|++||+|++.+++++|+.+|+
T Consensus         1 hFDT~~~v~~Le~~Gft~~QAe~i~~~l~~~l~~~~~~~~~~~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~   80 (177)
T PF07798_consen    1 HFDTHKFVKRLEAAGFTEEQAEAIMKALREVLNDSLEKVAQDLVTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRS   80 (177)
T ss_pred             CCcHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 027204          130 ETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG  209 (226)
Q Consensus       130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG  209 (226)
                      ++++|++|+++|+++|++||+++++++|+|||+||+++|++.+.++.+|+++++||+++|++||++||++||+++||++|
T Consensus        81 ~~e~L~~eie~l~~~L~~ei~~l~a~~klD~n~eK~~~r~e~~~~~~ki~e~~~ki~~ei~~lr~~iE~~K~~~lr~~~g  160 (177)
T PF07798_consen   81 ENEKLQREIEKLRQELREEINKLRAEVKLDLNLEKGRIREEQAKQELKIQELNNKIDTEIANLRTEIESLKWDTLRWLVG  160 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhC
Q 027204          210 TLVSISAVGLAIVRILM  226 (226)
Q Consensus       210 ~v~~~~al~la~~rl~~  226 (226)
                      ++++|+|+++|+|||||
T Consensus       161 ~i~~~~a~~la~~r~~~  177 (177)
T PF07798_consen  161 VIFGCVALVLAILRLWM  177 (177)
T ss_pred             HHHHHHHHHHHHHHHHC
Confidence            99999999999999998

>KOG3156 consensus Uncharacterized membrane protein [Function unknown]

Probab=100.00  E-value=8.4e-52  Score=353.06  Aligned_cols=194  Identities=45%  Similarity=0.647  Sum_probs=188.9

Q ss_pred             cCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 027204           32 IGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK  111 (226)
Q Consensus        32 ~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~ise  111 (226)
                      -.||++|+.... +...++||||++|+.||.+||+..|||+|+.++.+++++++++++.++|||++++...|||+++|+.
T Consensus        27 ~hrr~~~~~~~~-~~r~~~~dt~alvr~LE~~Gf~~kQAETIt~aiT~v~ndsl~~vsk~~vtkaqq~~v~~QQ~~~f~k  105 (220)
T KOG3156|consen   27 FHRRQSSQLSGF-GRRKFPFDTHALVRSLEAAGFDSKQAETITSAITTVLNDSLETVSKELVTKAQQEKVSYQQKVDFAK  105 (220)
T ss_pred             cceehhhhcCcc-cccccchhHHHHHHHHHHcCCChhhHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567777777766 6788999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHH
Q 027204          112 FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHA  191 (226)
Q Consensus       112 LR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~  191 (226)
                      +|+||.+++++||+++|+|+|+|++|+|++++.|++||.+..+|+|||+|+||++++++...++.+|.|+.+||++||++
T Consensus       106 iRsel~S~e~sEF~~lr~e~EklkndlEk~ks~lr~ei~~~~a~~rLdLNLEkgr~~d~~~~~~l~~~e~s~kId~Ev~~  185 (220)
T KOG3156|consen  106 IRSELVSIERSEFANLRAENEKLKNDLEKLKSSLRHEISKTTAEFRLDLNLEKGRIKDESSSHDLQIKEISTKIDQEVTN  185 (220)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhceeecchhhccccchhhhcchhHhHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 027204          192 LRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM  226 (226)
Q Consensus       192 LRteIEs~K~d~lrwliG~v~~~~al~la~~rl~~  226 (226)
                      ||++||++|.++++|++|+|++++|++|||+|+||
T Consensus       186 lk~qi~s~K~qt~qw~~g~v~~~~Al~La~~r~~~  220 (220)
T KOG3156|consen  186 LKTQIESVKTQTIQWLIGVVTGTSALVLAYLRLLT  220 (220)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999999997

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=97.99  E-value=0.0023  Score=53.92  Aligned_cols=29  Identities=24%  Similarity=0.443  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 027204          134 LRSDIEKMRSELRYEIDKVTAGQRLDLNL  162 (226)
Q Consensus       134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNl  162 (226)
                      |+.|+++++.+++-|++.-+++++.+...
T Consensus        96 L~~ei~~l~a~~klD~n~eK~~~r~e~~~  124 (177)
T PF07798_consen   96 LREEINKLRAEVKLDLNLEKGRIREEQAK  124 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            44455555555555555555544444433

>PRK10884 SH3 domain-containing protein; Provisional

Probab=96.96  E-value=0.024  Score=49.33  Aligned_cols=36  Identities=11%  Similarity=0.273  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHhHHH-HHHH-HHHHHHHHHHHHHHHH
Q 027204          187 REIHALRAHMEAAKYD-VIKY-CIGTLVSISAVGLAIV  222 (226)
Q Consensus       187 ~eIa~LRteIEs~K~d-~lrw-liG~v~~~~al~la~~  222 (226)
                      .++..++.+++..+-+ .++| +.|-.+.+++++||++
T Consensus       153 ~~~~~l~~~~~~~~~~~~~~wf~~Gg~v~~~GlllGli  190 (206)
T PRK10884        153 KKVDAANLQLDDKQRTIIMQWFMYGGGVAGIGLLLGLL  190 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence            3444556666666644 4577 4566666677777775

>COG3937 Uncharacterized conserved protein [Function unknown]

Probab=95.15  E-value=0.28  Score=38.67  Aligned_cols=79  Identities=14%  Similarity=0.333  Sum_probs=55.6

Q ss_pred             HHHHHHhhCC-CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHH
Q 027204           55 QLVRGLEAQG-VPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEK  133 (226)
Q Consensus        55 ~fvk~Le~aG-ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~  133 (226)
                      ++++.|-+.| +++++|..++.-+..-...          .+.   .........+..+=+++...+++++..++.+.+.
T Consensus        28 klvDelVkkGeln~eEak~~vddl~~q~k~----------~~~---e~e~K~~r~i~~ml~~~~~~r~~~~~~l~~rvd~   94 (108)
T COG3937          28 KLVDELVKKGELNAEEAKRFVDDLLRQAKE----------AQG---ELEEKIPRKIEEMLSDLEVARQSEMDELTERVDA   94 (108)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHH----------Hhh---hHHHhhhHHHHHHHhhccccccchHHHHHHHHHH
Confidence            6788888888 9999998887654433221          011   1222345666666677777888999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 027204          134 LRSDIEKMRSELR  146 (226)
Q Consensus       134 Lk~Eie~L~~~Lk  146 (226)
                      |++++..|+++++
T Consensus        95 Lerqv~~Lenk~k  107 (108)
T COG3937          95 LERQVADLENKLK  107 (108)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999988887764

>KOG3156 consensus Uncharacterized membrane protein [Function unknown]

Probab=94.82  E-value=1.6  Score=38.43  Aligned_cols=107  Identities=16%  Similarity=0.245  Sum_probs=65.5

Q ss_pred             HHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHH-----HHH
Q 027204          111 KFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLT-----NKL  185 (226)
Q Consensus       111 eLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~-----~Ki  185 (226)
                      ..+.++..+++.=-+..++|...|++|.|+|+    -||.++++.++-+++.-.++.|-++.-=+.++.+.-     +.+
T Consensus        98 QQ~~~f~kiRsel~S~e~sEF~~lr~e~Eklk----ndlEk~ks~lr~ei~~~~a~~rLdLNLEkgr~~d~~~~~~l~~~  173 (220)
T KOG3156|consen   98 QQKVDFAKIRSELVSIERSEFANLRAENEKLK----NDLEKLKSSLRHEISKTTAEFRLDLNLEKGRIKDESSSHDLQIK  173 (220)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhcchhceeecchhhccccchhhhcchhHh
Confidence            45666666666666667777777888877765    458899998888887666666655532222222221     222


Q ss_pred             HHHHHHHHHHHHHhHHHH--HHH-HHHHHHHHHHHHHHHH
Q 027204          186 DREIHALRAHMEAAKYDV--IKY-CIGTLVSISAVGLAIV  222 (226)
Q Consensus       186 ~~eIa~LRteIEs~K~d~--lrw-liG~v~~~~al~la~~  222 (226)
                      +++ +.+-.||..+|.++  .|+ .+--++|.++...|++
T Consensus       174 e~s-~kId~Ev~~lk~qi~s~K~qt~qw~~g~v~~~~Al~  212 (220)
T KOG3156|consen  174 EIS-TKIDQEVTNLKTQIESVKTQTIQWLIGVVTGTSALV  212 (220)
T ss_pred             HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            222 46778888899876  455 4444455555555554

>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein

Probab=94.78  E-value=0.57  Score=37.20  Aligned_cols=89  Identities=11%  Similarity=0.196  Sum_probs=61.6

Q ss_pred             HHHHHHHhhCC-CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhH--HHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHH
Q 027204           54 LQLVRGLEAQG-VPSKQAEAITAAITEVLNDSLENVAHTFVSKGE--MQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRE  130 (226)
Q Consensus        54 ~~fvk~Le~aG-ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~d--le~~~y~~ka~iseLR~El~~~~k~e~~~lr~e  130 (226)
                      -+|++.|-+.| .+++++..+++-+.+-+.+.+.+...+...+++  .++.+..+...+..+=..+-...+.|+..|+..
T Consensus        25 ~k~~~~LVkkGe~~~ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~le~~~~~~v~~~L~~lg~~tk~ev~~L~~R  104 (118)
T TIGR01837        25 SKFFNRLVKEGELAEKRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKLEKAFDERVEQALNRLNIPSREEIEALSAK  104 (118)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            37889998889 999999999888877777666555555544332  234445566666676667767777888777777


Q ss_pred             HHHHHHHHHHHH
Q 027204          131 TEKLRSDIEKMR  142 (226)
Q Consensus       131 ~e~Lk~Eie~L~  142 (226)
                      .+.|...++.|+
T Consensus       105 I~~Le~~l~~l~  116 (118)
T TIGR01837       105 IEQLAVQVEELR  116 (118)
T ss_pred             HHHHHHHHHHHh
Confidence            666666666654

This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=94.32  E-value=2.4  Score=34.45  Aligned_cols=120  Identities=11%  Similarity=0.224  Sum_probs=72.7

Q ss_pred             ChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204           66 PSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL  145 (226)
Q Consensus        66 t~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L  145 (226)
                      ++.-...++.++-+++..    ...++-.++++........+++..|...+..+. .+.+.+..+....+.+...+...+
T Consensus        29 ~~~~~~~vin~i~~Ll~~----~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~-~~~~~~ere~~~~~~~~~~l~~~~  103 (151)
T PF11559_consen   29 SEDNDVRVINCIYDLLQQ----RDRDMEQREDLSDKLRRLRSDIERLQNDVERLK-EQLEELERELASAEEKERQLQKQL  103 (151)
T ss_pred             ccccHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455667777666543    345677777776666666777777766665443 445555555555555555555555


Q ss_pred             HHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 027204          146 RYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYD  202 (226)
Q Consensus       146 keeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d  202 (226)
                      +.....++.            .+++.+.+...++...++...|+----.||+.+|-.
T Consensus       104 ~~~~~~~k~------------~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~r  148 (151)
T PF11559_consen  104 KSLEAKLKQ------------EKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKER  148 (151)
T ss_pred             HHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555544            356666666677777777666666555666666644

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=94.06  E-value=2.7  Score=38.59  Aligned_cols=26  Identities=19%  Similarity=0.408  Sum_probs=14.7

Q ss_pred             hhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204          119 SQEHHFSMLQRETEKLRSDIEKMRSE  144 (226)
Q Consensus       119 ~~k~e~~~lr~e~e~Lk~Eie~L~~~  144 (226)
                      ..+.++..+|.+...+..+|+..+.+
T Consensus       206 ~D~~eL~~lr~eL~~~~~~i~~~k~~  231 (325)
T PF08317_consen  206 CDQEELEALRQELAEQKEEIEAKKKE  231 (325)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666654443

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=94.01  E-value=4.4  Score=36.36  Aligned_cols=22  Identities=18%  Similarity=0.374  Sum_probs=8.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 027204          127 LQRETEKLRSDIEKMRSELRYE  148 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~~Lkee  148 (226)
                      ++..+..|...|..++..+..+
T Consensus       235 l~~~~~~Le~~l~~le~~~~~~  256 (312)
T PF00038_consen  235 LRAKNASLERQLRELEQRLDEE  256 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhHHHHHHHHHHH
Confidence            3333333333333333333333

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes []

Probab=93.40  E-value=1.3  Score=31.87  Aligned_cols=35  Identities=17%  Similarity=0.309  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204          184 KLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGL  219 (226)
Q Consensus       184 Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~l  219 (226)
                      ..+..|.++..+|++.+ +.++|+.|+++|.+..++
T Consensus        31 ~~e~~i~~~~~~l~~I~-~n~kW~~r~iiGaiI~~i   65 (71)
T PF10779_consen   31 ANEKDIKNLNKQLEKIK-SNTKWIWRTIIGAIITAI   65 (71)
T ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            33444556666666664 457899998877665443

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=93.39  E-value=1.6  Score=42.06  Aligned_cols=38  Identities=24%  Similarity=0.217  Sum_probs=27.8

Q ss_pred             eeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHH
Q 027204           49 FLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLE   86 (226)
Q Consensus        49 ~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~   86 (226)
                      +.||+..=+-.|+-.+|+|+.|..|.+++-..-+..++
T Consensus       196 V~~D~~sGIi~l~V~AF~PedA~~ia~aLL~~sE~~VN  233 (434)
T PRK15178        196 VAVDIQQGMLRLNVKARSAKQAEFFAQRILSFAEQHVN  233 (434)
T ss_pred             EeecCCCCeEEEEEEecCHHHHHHHHHHHHHHHHHHHH
Confidence            45666666667888899999999999988766444433

>COG3524 KpsE Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]

Probab=92.37  E-value=4  Score=37.99  Aligned_cols=33  Identities=18%  Similarity=0.237  Sum_probs=28.2

Q ss_pred             ceeccHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q 027204           48 AFLVDTLQLVRGLEAQGVPSKQAEAITAAITEV   80 (226)
Q Consensus        48 ~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~   80 (226)
                      .++||+-.-.-.+.=.||+|.+|-.|..++.+-
T Consensus       132 kVnfD~vSgI~~v~V~aF~p~eaq~Iaqailkq  164 (372)
T COG3524         132 KVNFDSVSGISTVNVTAFDPKEAQKIAQAILKQ  164 (372)
T ss_pred             eeecccccceeEEEEeecChhhHHHHHHHHHHH
Confidence            488999888888888899999999998887653

>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis

Probab=92.31  E-value=3.5  Score=30.45  Aligned_cols=25  Identities=24%  Similarity=0.520  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204          130 ETEKLRSDIEKMRSELRYEIDKVTA  154 (226)
Q Consensus       130 e~e~Lk~Eie~L~~~LkeeI~kl~a  154 (226)
                      ...+++.+++.++..+.+-|.++-.
T Consensus         4 kl~~i~~~v~~v~~im~~Ni~~ll~   28 (89)
T PF00957_consen    4 KLEQIQEQVEEVKNIMRENIDKLLE   28 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567888999999999999888843

Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....

>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator

Probab=92.29  E-value=0.51  Score=35.20  Aligned_cols=45  Identities=20%  Similarity=0.177  Sum_probs=34.4

Q ss_pred             cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHH
Q 027204           22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITA   75 (226)
Q Consensus        22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~   75 (226)
                      .|+--|.+...|||.|+         .-.+..+.+++.|.. .|||.+....++.
T Consensus        24 ~Gli~p~r~~~g~R~y~---------~~dv~~l~~i~~L~~d~g~~l~~i~~~l~   69 (91)
T cd04766          24 LGLLSPSRTDGGTRRYS---------ERDIERLRRIQRLTQELGVNLAGVKRILE   69 (91)
T ss_pred             CCCcCCCcCCCCCeeEC---------HHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            45555555556777776         345788999999998 9999999887776

Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.

>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.21  E-value=5.1  Score=32.07  Aligned_cols=79  Identities=16%  Similarity=0.241  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 027204          130 ETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG  209 (226)
Q Consensus       130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG  209 (226)
                      ...++|+++|.+..=|++-++|+-.         +++-=+++.+.-..+++....+.+.-..||.++   =|.-+||.++
T Consensus        30 k~~~tq~QvdeVv~IMr~NV~KVlE---------R~ekL~~L~drad~L~~~as~F~~~A~klkrk~---wWkn~Km~~i   97 (116)
T KOG0860|consen   30 KLQQTQAQVDEVVDIMRENVEKVLE---------RGEKLDELDDRADQLQAGASQFEKTAVKLKRKM---WWKNCKMRII   97 (116)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHH---------hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence            4567899999999999999999844         333333444444556666677777777777543   3777787665


Q ss_pred             HHHHHHHHHHH
Q 027204          210 TLVSISAVGLA  220 (226)
Q Consensus       210 ~v~~~~al~la  220 (226)
                      +.+.++.+++.
T Consensus        98 l~~v~~i~l~i  108 (116)
T KOG0860|consen   98 LGLVIIILLVV  108 (116)
T ss_pred             HHHHHHHHHHH
Confidence            55554444443

>smart00787 Spc7 Spc7 kinetochore protein

Probab=91.83  E-value=11  Score=34.93  Aligned_cols=22  Identities=14%  Similarity=0.111  Sum_probs=10.2

Q ss_pred             hhHHHhHHHHHHHHHHHHHHHH
Q 027204          122 HHFSMLQRETEKLRSDIEKMRS  143 (226)
Q Consensus       122 ~e~~~lr~e~e~Lk~Eie~L~~  143 (226)
                      ++...+|.+...+..++...++
T Consensus       204 ~eL~~lk~~l~~~~~ei~~~~~  225 (312)
T smart00787      204 TELDRAKEKLKKLLQEIMIKVK  225 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444443

This domain is found in cell division proteins which are required for kinetochore-spindle association.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=91.70  E-value=5  Score=34.92  Aligned_cols=22  Identities=5%  Similarity=-0.043  Sum_probs=10.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 027204          199 AKYDVIKYCIGTLVSISAVGLA  220 (226)
Q Consensus       199 ~K~d~lrwliG~v~~~~al~la  220 (226)
                      .+|=+.=-++.+++.+++++|-
T Consensus       171 ~~wf~~Gg~v~~~GlllGlilp  192 (206)
T PRK10884        171 MQWFMYGGGVAGIGLLLGLLLP  192 (206)
T ss_pred             HHHHHHchHHHHHHHHHHHHhc
Confidence            4455544444444444444443

>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology

Probab=91.49  E-value=19  Score=37.22  Aligned_cols=24  Identities=17%  Similarity=0.454  Sum_probs=18.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Q 027204          199 AKYDVIKYCIGTLVSISAVGLAIV  222 (226)
Q Consensus       199 ~K~d~lrwliG~v~~~~al~la~~  222 (226)
                      -|++..||.+|+++.++.+.+.+.
T Consensus       407 ~~y~~yR~~~~lil~~~llLIv~~  430 (806)
T PF05478_consen  407 EKYDSYRWIVGLILCCVLLLIVLC  430 (806)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578999999999988876655443

Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane

>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR

Probab=90.62  E-value=4.2  Score=31.94  Aligned_cols=45  Identities=13%  Similarity=0.003  Sum_probs=34.3

Q ss_pred             cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204           22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus        22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      .|.=-|.+. .|||-++         .-.++.+.+++.|...|||-++...++..
T Consensus        23 ~GLl~p~r~-~gyR~Y~---------~~~l~~l~~I~~lr~~G~~L~~I~~~l~~   67 (118)
T cd04776          23 KGLLSPERR-GQTRVYS---------RRDRARLKLILRGKRLGFSLEEIRELLDL   67 (118)
T ss_pred             CCCCCCcCC-CCccccC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence            455445443 4898887         34689999999999999999888777654

Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=90.49  E-value=20  Score=38.66  Aligned_cols=32  Identities=19%  Similarity=0.490  Sum_probs=15.8

Q ss_pred             hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027204          122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVT  153 (226)
Q Consensus       122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~  153 (226)
                      .+++.+..+...++.+++...+.++++...++
T Consensus       685 ~~l~~l~~~l~~~~~e~~~~~~~~~~~~~e~~  716 (1201)
T PF12128_consen  685 EQLNELEEELKQLKQELEELLEELKEQLKELR  716 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555555555555555544444

>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD

Probab=90.20  E-value=6.3  Score=29.51  Aligned_cols=13  Identities=0%  Similarity=0.041  Sum_probs=5.2

Q ss_pred             HHHHHHHHhHHHH
Q 027204          191 ALRAHMEAAKYDV  203 (226)
Q Consensus       191 ~LRteIEs~K~d~  203 (226)
                      .....|...=|..
T Consensus        64 ~~~~~V~e~P~~s   76 (94)
T PF05957_consen   64 QTEDYVRENPWQS   76 (94)
T ss_pred             HHHHHHHHChHHH
Confidence            3333344444444

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=89.76  E-value=7.4  Score=33.28  Aligned_cols=138  Identities=20%  Similarity=0.324  Sum_probs=69.9

Q ss_pred             ceeccHHHHHHHHh-h-CCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 027204           48 AFLVDTLQLVRGLE-A-QGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFS  125 (226)
Q Consensus        48 ~~~FDT~~fvk~Le-~-aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~  125 (226)
                      .+.|-|++=+.++- + .|+++.+-.-++..+.   .+       ++|.-.-.=...|     +=.+.++-....+....
T Consensus         8 ~~~~y~lKELEK~~pK~~gI~~~~VKdvlq~Lv---DD-------glV~~EKiGssn~-----YWsFps~~~~~~~~~~~   72 (188)
T PF03962_consen    8 SKDFYTLKELEKLAPKEKGIVSMSVKDVLQSLV---DD-------GLVHVEKIGSSNY-----YWSFPSQAKQKRQNKLE   72 (188)
T ss_pred             cCCcccHHHHHHHcccccCCchhhHHHHHHHHh---cc-------ccchhhhccCeeE-----EEecChHHHHHHHHHHH
Confidence            34566776555553 3 6998877655554443   33       2332111100000     00122222223334445


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHH-------HHHHHHHHHHHH
Q 027204          126 MLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLD-------REIHALRAHMEA  198 (226)
Q Consensus       126 ~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~-------~eIa~LRteIEs  198 (226)
                      .+..+.+.++..++.++.++... ..-+.+    - .++...-++...++.++.++..++.       ..|..++.++..
T Consensus        73 ~l~~~~~~~~~~i~~l~~~i~~~-~~~r~~----~-~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~  146 (188)
T PF03962_consen   73 KLQKEIEELEKKIEELEEKIEEA-KKGREE----S-EEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKI  146 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-Hhcccc----c-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            55555555666666655554444 111111    1 3444445555666666666666666       446778888887


Q ss_pred             hHHHHHHH
Q 027204          199 AKYDVIKY  206 (226)
Q Consensus       199 ~K~d~lrw  206 (226)
                      .|-.+-||
T Consensus       147 ~~~~anrw  154 (188)
T PF03962_consen  147 AKEAANRW  154 (188)
T ss_pred             HHHHHHHH
Confidence            77777777

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=89.73  E-value=8  Score=38.94  Aligned_cols=71  Identities=30%  Similarity=0.397  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHH
Q 027204          106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKL  185 (226)
Q Consensus       106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki  185 (226)
                      ...+.+++.-++.+ +.+...|+.+++.++++|++|+.+|..=...+..+++         ..-++..++.+|..++.++
T Consensus       421 ~~~i~~~~~~ve~l-~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~---------~~rei~~~~~~I~~L~~~L  490 (652)
T COG2433         421 EKRIKKLEETVERL-EEENSELKRELEELKREIEKLESELERFRREVRDKVR---------KDREIRARDRRIERLEKEL  490 (652)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHH
Confidence            33344444433322 3456667777777777777777665544444433322         2334444555555554444


Q ss_pred             H
Q 027204          186 D  186 (226)
Q Consensus       186 ~  186 (226)
                      .
T Consensus       491 ~  491 (652)
T COG2433         491 E  491 (652)
T ss_pred             H
Confidence            3

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=89.03  E-value=15  Score=32.24  Aligned_cols=74  Identities=27%  Similarity=0.395  Sum_probs=40.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHH-------HHHHHHHHHh
Q 027204          127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREI-------HALRAHMEAA  199 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eI-------a~LRteIEs~  199 (226)
                      +..+......+++.+...|..++..+...+.-+-+.+..+-..-+..++-....++.+|+.|.       +.|+.+++.+
T Consensus       108 i~ee~~~r~~~ie~~~~~l~~~l~~l~~~~~~Er~~R~erE~~i~krl~e~~~~l~~~i~~Ek~~Re~~~~~l~~~le~~  187 (247)
T PF06705_consen  108 IQEEKEERPQDIEELNQELVRELNELQEAFENERNEREEREENILKRLEEEENRLQEKIEKEKNTRESKLSELRSELEEV  187 (247)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444566667777777777777776654444444433333333344444444444444443       4677777765


Q ss_pred             H
Q 027204          200 K  200 (226)
Q Consensus       200 K  200 (226)
                      +
T Consensus       188 ~  188 (247)
T PF06705_consen  188 K  188 (247)
T ss_pred             H
Confidence            5

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=88.64  E-value=17  Score=32.44  Aligned_cols=99  Identities=14%  Similarity=0.280  Sum_probs=57.4

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhhh--------hhhHHHhHHHHHHHHHHHHHHHHHH---HHHHHhhhhhhhh
Q 027204           90 HTFVSKGEMQKTEMIQEANLSKFKSEVQSSQ--------EHHFSMLQRETEKLRSDIEKMRSEL---RYEIDKVTAGQRL  158 (226)
Q Consensus        90 ~~lvTK~dle~~~y~~ka~iseLR~El~~~~--------k~e~~~lr~e~e~Lk~Eie~L~~~L---keeI~kl~ae~kl  158 (226)
                      .--....|+++...+...++.++|.-+...+        -.++.+|..+...++.++..|+.+|   .+++.++...   
T Consensus        49 ~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~---  125 (239)
T COG1579          49 ALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKE---  125 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence            3444567788887788888888877765433        3455666666666666666655443   2233333332   


Q ss_pred             hhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 027204          159 DLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHM  196 (226)
Q Consensus       159 DlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteI  196 (226)
                           ....++....++..+.+...+++.+++.++-+.
T Consensus       126 -----i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~  158 (239)
T COG1579         126 -----IEDLKERLERLEKNLAEAEARLEEEVAEIREEG  158 (239)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 222345555666666666666666666555433

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=88.61  E-value=16  Score=37.60  Aligned_cols=69  Identities=19%  Similarity=0.242  Sum_probs=40.0

Q ss_pred             HHHHHHHhhhhhhhhhhhhh-hhhhHHHHHhhHHHHHH------HHHHHHHHHH---------------HHHHHHHHhHH
Q 027204          144 ELRYEIDKVTAGQRLDLNLE-RGRIRDELANQNAETTN------LTNKLDREIH---------------ALRAHMEAAKY  201 (226)
Q Consensus       144 ~LkeeI~kl~ae~klDlNle-K~r~ree~~~~~~kI~e------~~~Ki~~eIa---------------~LRteIEs~K~  201 (226)
                      +|++-+.-|++.++.-...+ ++..-+.-+.++.+|.+      +..|++.+.+               +|+.+|+++|.
T Consensus       532 ~lk~Kle~Lk~~~~~~~~s~g~~~a~~Lk~ei~kki~e~~~~~~~kek~ea~~aev~~~g~s~~~~~~~~lkeki~~~~~  611 (762)
T PLN03229        532 SLKYKLDMLNEFSRAKALSEKKSKAEKLKAEINKKFKEVMDRPEIKEKMEALKAEVASSGASSGDELDDDLKEKVEKMKK  611 (762)
T ss_pred             HHHHHHHHHHHHHHhhhhcccchhhhhhhHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCccccCCCCHHHHHHHHHHHH
Confidence            34455555555554222111 22233334555666766      7777777766               67788888888


Q ss_pred             HHHHHHHHHHH
Q 027204          202 DVIKYCIGTLV  212 (226)
Q Consensus       202 d~lrwliG~v~  212 (226)
                      ++-.-+.+++=
T Consensus       612 Ei~~eie~v~~  622 (762)
T PLN03229        612 EIELELAGVLK  622 (762)
T ss_pred             HHHHHHHHHHh
Confidence            87766666553

>TIGR02054 MerD mercuric resistence transcriptional repressor protein MerD

Probab=88.44  E-value=1.9  Score=34.31  Aligned_cols=61  Identities=23%  Similarity=0.317  Sum_probs=42.0

Q ss_pred             HHhhhccccccc-----cccccccCC-CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204            8 VKLVADSGVRVT-----KSQGFNLNY-SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI   77 (226)
Q Consensus         8 ~~~~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al   77 (226)
                      +.+..-.|+.+.     -..|+=-|. +..+|||.++         ....+.++|++.|...|||-++...++.+.
T Consensus         7 ~elA~~~gvs~~tlR~Ye~~GLL~p~~r~~~gyR~Y~---------~~~l~rL~~I~~lr~~G~~L~eI~~ll~~~   73 (120)
T TIGR02054         7 SRLAEDAGVSVHVVRDYLLRGLLHPVRRTTSGYGIFD---------DASLQRLRFVRAAFEAGIGLGELARLCRAL   73 (120)
T ss_pred             HHHHHHHCcCHHHHHHHHHCCCCCCCccCCCCCeeCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHhh
Confidence            344444555443     223543333 3458999988         346899999999999999999988777654

This model represents a transcriptional repressor protein of the MerR family (pfam00376) whose expression is regulated by the mercury-sensitive transcriptional activator, MerR. MerD has been shown to repress the transcription of the mer operon.

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=88.30  E-value=41  Score=36.37  Aligned_cols=10  Identities=30%  Similarity=0.554  Sum_probs=4.0

Q ss_pred             HHHHHHHHHH
Q 027204          107 ANLSKFKSEV  116 (226)
Q Consensus       107 a~iseLR~El  116 (226)
                      .++..++.+.
T Consensus       656 ~~~~~l~~~~  665 (1201)
T PF12128_consen  656 QDLQRLKNER  665 (1201)
T ss_pred             HHHHHHHHHH
Confidence            3344444443

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=88.28  E-value=9.6  Score=30.51  Aligned_cols=34  Identities=21%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             HHHHHhhHHHHHHHHHHHHHHH----------HHHHHHHHHhHH
Q 027204          168 RDELANQNAETTNLTNKLDREI----------HALRAHMEAAKY  201 (226)
Q Consensus       168 ree~~~~~~kI~e~~~Ki~~eI----------a~LRteIEs~K~  201 (226)
                      ..+...++.++++++.|-++-+          ..||.+|+.+|+
T Consensus        67 ~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~  110 (120)
T PF12325_consen   67 KKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKE  110 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Confidence            3445566666667776666543          466666666663

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=87.89  E-value=5.6  Score=33.78  Aligned_cols=36  Identities=14%  Similarity=0.130  Sum_probs=28.0

Q ss_pred             CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHH
Q 027204           28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEA   72 (226)
Q Consensus        28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAea   72 (226)
                      .+...|+|.|+         .-.++-++|++.|..+|||-++-..
T Consensus        29 ~R~~~G~R~y~---------~~dl~~L~~I~~l~~~Gm~i~~i~~   64 (175)
T PRK13182         29 EKNEYGHYIFT---------EEDLQLLEYVKSQIEEGQNMQDTQK   64 (175)
T ss_pred             CcCCCCCEEEC---------HHHHHHHHHHHHHHHcCCCHHHHHH
Confidence            44567888887         2235899999999999999887644

>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []

Probab=87.53  E-value=9.8  Score=28.31  Aligned_cols=64  Identities=17%  Similarity=0.385  Sum_probs=37.1

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204          124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAA  199 (226)
Q Consensus       124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~  199 (226)
                      |..+-.+....+..-+.+..++...|..+.            .+|.-.-.++..-..+..+-+.||+.||.++|+.
T Consensus        13 f~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~------------~ir~~v~eLE~~h~kmK~~YEeEI~rLr~eLe~r   76 (79)
T PF08581_consen   13 FENLSQEANSYKHQKDEYEHKINSQIQEMQ------------QIRQKVYELEQAHRKMKQQYEEEIARLRRELEQR   76 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            344444444444444444444444444442            2555566666666667777788888888888763

; PDB: 3VP9_B 3VP8_B.

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=87.49  E-value=31  Score=34.43  Aligned_cols=28  Identities=25%  Similarity=0.476  Sum_probs=18.6

Q ss_pred             hhHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027204          122 HHFSMLQRETEKLRSDIEKMRSELRYEI  149 (226)
Q Consensus       122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI  149 (226)
                      .|...|+.++.+|..+|..++..+-+|+
T Consensus       169 ~e~~~Lk~en~rl~~~l~~~r~~ld~Et  196 (546)
T KOG0977|consen  169 DELKRLKAENSRLREELARARKQLDDET  196 (546)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            5556677777777777777776555553

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=87.31  E-value=2.3  Score=28.30  Aligned_cols=38  Identities=24%  Similarity=0.538  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204          106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE  144 (226)
Q Consensus       106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~  144 (226)
                      +.|+..||+.-..+ ++++.+|..|++.|+.++..|+..
T Consensus         4 E~Dy~~LK~~yd~L-k~~~~~L~~E~~~L~aev~~L~~k   41 (45)
T PF02183_consen    4 ERDYDALKASYDSL-KAEYDSLKKENEKLRAEVQELKEK   41 (45)
T ss_pred             HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34555554443211 233445555555555555555444

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=86.75  E-value=23  Score=32.56  Aligned_cols=7  Identities=29%  Similarity=0.339  Sum_probs=2.8

Q ss_pred             HHHHHHH
Q 027204          191 ALRAHME  197 (226)
Q Consensus       191 ~LRteIE  197 (226)
                      .+..+|+
T Consensus       255 ~l~~eI~  261 (325)
T PF08317_consen  255 ELLAEIA  261 (325)
T ss_pred             HHHHHHH
Confidence            3444443

>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family

Probab=86.58  E-value=24  Score=32.54  Aligned_cols=24  Identities=8%  Similarity=0.140  Sum_probs=17.4

Q ss_pred             CCCChHHHHHHHHHHHHHHHhhHH
Q 027204           63 QGVPSKQAEAITAAITEVLNDSLE   86 (226)
Q Consensus        63 aGft~~QAeai~~al~~~l~~~l~   86 (226)
                      .+++|+.|..|+.++.+..+..++
T Consensus       138 ~~~dP~~A~~ian~l~~~~~~~i~  161 (362)
T TIGR01010       138 TAFDAEEAQKINQRLLKEGERLIN  161 (362)
T ss_pred             EecCHHHHHHHHHHHHHHHHHHHH
Confidence            467899999999999664444443

This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=86.57  E-value=12  Score=29.11  Aligned_cols=57  Identities=16%  Similarity=0.342  Sum_probs=31.0

Q ss_pred             HHhhhhhhhHHHHHHHHH---HHHHHHHHHHHHhhh-hhhHHHhHHHHHHHHHHHHHHHHH
Q 027204           88 VAHTFVSKGEMQKTEMIQ---EANLSKFKSEVQSSQ-EHHFSMLQRETEKLRSDIEKMRSE  144 (226)
Q Consensus        88 ~~~~lvTK~dle~~~y~~---ka~iseLR~El~~~~-k~e~~~lr~e~e~Lk~Eie~L~~~  144 (226)
                      +....++|+|++...-..   ...++.+-+++..+. +.|++.|+-+.+.++.++..++.+
T Consensus        27 l~~~~a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~   87 (106)
T PF10805_consen   27 LRRTYAKREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSAR   87 (106)
T ss_pred             HHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            345678888877654322   333445555554442 455555555555555555555444

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology

Probab=86.51  E-value=29  Score=34.13  Aligned_cols=17  Identities=6%  Similarity=0.163  Sum_probs=6.9

Q ss_pred             HHHHHHHHHHHHHHHhh
Q 027204          103 MIQEANLSKFKSEVQSS  119 (226)
Q Consensus       103 y~~ka~iseLR~El~~~  119 (226)
                      .....++..|..++..+
T Consensus       254 ~~a~~~i~~L~~~l~~l  270 (582)
T PF09731_consen  254 AHAKERIDALQKELAEL  270 (582)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33344444444444333

Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane

>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily

Probab=86.36  E-value=6.6  Score=31.52  Aligned_cols=60  Identities=18%  Similarity=0.294  Sum_probs=40.4

Q ss_pred             HHhhhccccccc-----cccccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204            8 VKLVADSGVRVT-----KSQGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus         8 ~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      +.+..-+|+.+.     -..|.=-| .+..+|||.++         .-.++.+.|++.|...|||-++...++..
T Consensus         4 ge~a~~~gvs~~tLRyYE~~GLl~p~~r~~~gyR~Y~---------~~~v~~l~~I~~lr~~GfsL~eI~~ll~~   69 (131)
T cd04786           4 GELAKRSGMAASRIRFYEAEGLLSSVERSANGYRDYP---------PETVWVLEIISSAQQAGFSLDEIRQLLPA   69 (131)
T ss_pred             HHHHHHHCcCHHHHHHHHHCCCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence            344444555443     22333223 44567999887         33588999999999999999988877653

Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su

>PRK11637 AmiB activator; Provisional

Probab=86.20  E-value=13  Score=35.28  Aligned_cols=18  Identities=17%  Similarity=0.276  Sum_probs=7.3

Q ss_pred             hHHHHHHHHHHHHHHHHH
Q 027204          127 LQRETEKLRSDIEKMRSE  144 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~~  144 (226)
                      ++++...+..+++.+..+
T Consensus        66 ~~~~~~~~~~~l~~l~~q   83 (428)
T PRK11637         66 QQQQRASLLAQLKKQEEA   83 (428)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            333333344444444333

>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length

Probab=86.10  E-value=15  Score=29.08  Aligned_cols=65  Identities=23%  Similarity=0.460  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHH---HHHHHHHHHHHHHHhH---
Q 027204          127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNK---LDREIHALRAHMEAAK---  200 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~K---i~~eIa~LRteIEs~K---  200 (226)
                      +......|.+|+++++.++++--.      |-|-+      |   .....++-|+-.+   ++..+..|+.+|+.+|   
T Consensus         6 ~~~q~~~l~~~v~~lRed~r~SEd------rsa~S------R---a~mhrRlDElV~Rv~~lEs~~~~lk~dVsemKpVT   70 (112)
T PF07439_consen    6 LHQQLGTLNAEVKELREDIRRSED------RSAAS------R---ASMHRRLDELVERVTTLESSVSTLKADVSEMKPVT   70 (112)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH------Hhhhh------h---HHHHHhHHHHHHHHHHHHHHHHHHHhhHHhccchH
Confidence            445566678888888877773222      22211      1   1222233333332   2345567777777766   


Q ss_pred             HHHHHH
Q 027204          201 YDVIKY  206 (226)
Q Consensus       201 ~d~lrw  206 (226)
                      -|+.||
T Consensus        71 ~dV~rw   76 (112)
T PF07439_consen   71 DDVKRW   76 (112)
T ss_pred             HHHHHH
Confidence            567788

Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.

>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB

Probab=85.10  E-value=7  Score=30.14  Aligned_cols=40  Identities=15%  Similarity=0.249  Sum_probs=32.0

Q ss_pred             CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204           28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus        28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      .+...|||.++         .-.++.+.++..|.+.|||-++...++..
T Consensus        30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~   69 (113)
T cd01109          30 KRDENGIRDFT---------EEDLEWLEFIKCLRNTGMSIKDIKEYAEL   69 (113)
T ss_pred             CcCCCCCccCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            34557888877         34588999999999999999988777654

Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.

>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional

Probab=84.44  E-value=30  Score=35.80  Aligned_cols=31  Identities=23%  Similarity=0.490  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHHHHHHH------HHHHHHHHhHHHHHH
Q 027204          175 NAETTNLTNKLDREIH------ALRAHMEAAKYDVIK  205 (226)
Q Consensus       175 ~~kI~e~~~Ki~~eIa------~LRteIEs~K~d~lr  205 (226)
                      ..+|..++..|..+|.      +|+..||.+|.++-+
T Consensus       648 k~KIe~L~~eIkkkIe~av~ss~LK~k~E~Lk~Evak  684 (762)
T PLN03229        648 QEKIESLNEEINKKIERVIRSSDLKSKIELLKLEVAK  684 (762)
T ss_pred             HHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHh
Confidence            5577777777777764      788888888887743

>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function

Probab=84.40  E-value=17  Score=28.15  Aligned_cols=25  Identities=20%  Similarity=0.437  Sum_probs=18.3

Q ss_pred             HHHHHHHHHHHHHHH-HHHHHHHHhC
Q 027204          202 DVIKYCIGTLVSISA-VGLAIVRILM  226 (226)
Q Consensus       202 d~lrwliG~v~~~~a-l~la~~rl~~  226 (226)
                      ++=.|+.|.+.++++ +++|++|.++
T Consensus        71 ~~KmwilGlvgTi~gsliia~lr~~f   96 (98)
T PF11166_consen   71 DIKMWILGLVGTIFGSLIIALLRTIF   96 (98)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345688888877665 7789998764

It has a highly conserved sequence.

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=84.37  E-value=20  Score=28.97  Aligned_cols=19  Identities=21%  Similarity=0.359  Sum_probs=9.1

Q ss_pred             hHHHHHhhHHHHHHHHHHH
Q 027204          167 IRDELANQNAETTNLTNKL  185 (226)
Q Consensus       167 ~ree~~~~~~kI~e~~~Ki  185 (226)
                      ++.+......-+..++.||
T Consensus       101 i~~dv~~v~~~V~~Le~ki  119 (126)
T PF07889_consen  101 IGDDVDSVQQMVEGLEGKI  119 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444

The region featured in this family is approximately 100 amino acids long.

>PRK11546 zraP zinc resistance protein; Provisional

Probab=84.07  E-value=14  Score=30.53  Aligned_cols=31  Identities=16%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204          121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDK  151 (226)
Q Consensus       121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~k  151 (226)
                      ...+.+|..|+..|+..+...+..+..++.+
T Consensus        88 ~~kI~aL~kEI~~Lr~kL~e~r~~~~~~~~k  118 (143)
T PRK11546         88 SSKINAVAKEMENLRQSLDELRVKRDIAMAE  118 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3346666666666666666666665555554

>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily

Probab=83.99  E-value=11  Score=30.55  Aligned_cols=40  Identities=20%  Similarity=0.233  Sum_probs=30.8

Q ss_pred             CCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204           27 NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA   75 (226)
Q Consensus        27 ~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~   75 (226)
                      |.+...|||.++         ...++.+.+++.|.+.|||-++...+..
T Consensus        28 p~r~~~g~R~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~   67 (134)
T cd04779          28 PERSDSNYRYYD---------ETALDRLQLIEHLKGQRLSLAEIKDQLE   67 (134)
T ss_pred             CccCCCCCeeEC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence            444556888877         3468899999999999999887666554

Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=83.82  E-value=24  Score=29.48  Aligned_cols=17  Identities=18%  Similarity=0.331  Sum_probs=6.6

Q ss_pred             HHHHHHHHHHHHHhhhh
Q 027204          138 IEKMRSELRYEIDKVTA  154 (226)
Q Consensus       138 ie~L~~~LkeeI~kl~a  154 (226)
                      .+++.++.-.+...+.+
T Consensus        86 ~~~~~a~~~~~~~~~ea  102 (155)
T PRK06569         86 IDSLESEFLIKKKNLEQ  102 (155)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33444333333333333

>PRK11637 AmiB activator; Provisional

Probab=83.51  E-value=25  Score=33.28  Aligned_cols=16  Identities=19%  Similarity=0.212  Sum_probs=6.9

Q ss_pred             hHHHHHHHHHHHHHHH
Q 027204          127 LQRETEKLRSDIEKMR  142 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~  142 (226)
                      +..+.+.+..+|+.+.
T Consensus        73 ~~~~l~~l~~qi~~~~   88 (428)
T PRK11637         73 LLAQLKKQEEAISQAS   88 (428)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3344444444444443

>PRK10227 DNA-binding transcriptional regulator CueR; Provisional

Probab=83.31  E-value=7.4  Score=31.38  Aligned_cols=40  Identities=18%  Similarity=0.301  Sum_probs=32.7

Q ss_pred             CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204           28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus        28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      .+..+|||-++         .-.+..+.|++.|...|||-++...+...
T Consensus        30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sl~eI~~~l~~   69 (135)
T PRK10227         30 MRSENGYRTYT---------QQHLNELTLLRQARQVGFNLEESGELVNL   69 (135)
T ss_pred             ccCCCCcccCC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence            44578999988         34688999999999999999987776654

>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein

Probab=83.18  E-value=7.2  Score=32.39  Aligned_cols=35  Identities=20%  Similarity=0.375  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHHHHHh-hhhhhHHHhHHHHHHHHHHHHHHH
Q 027204          104 IQEANLSKFKSEVQS-SQEHHFSMLQRETEKLRSDIEKMR  142 (226)
Q Consensus       104 ~~ka~iseLR~El~~-~~k~e~~~lr~e~e~Lk~Eie~L~  142 (226)
                      +.+.++.++|.|+.. +..+||+.    ..+++|.++++.
T Consensus        44 ~l~~Ei~~l~~E~~~iS~qDeFAk----waKl~Rk~~kl~   79 (161)
T PF04420_consen   44 QLRKEILQLKRELNAISAQDEFAK----WAKLNRKLDKLE   79 (161)
T ss_dssp             HHHHHHHHHHHHHTTS-TTTSHHH----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHH----HHHHHHHHHHHH
Confidence            445556666666543 23445542    344555555443

The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.

>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]

Probab=83.10  E-value=15  Score=31.08  Aligned_cols=46  Identities=13%  Similarity=0.177  Sum_probs=26.6

Q ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204          172 ANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIV  222 (226)
Q Consensus       172 ~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~  222 (226)
                      +.++.+|..+.+++++...+-..+     .++.+|++.+.+-.+..+.+.+
T Consensus        73 aRlnRKi~kl~~ele~qs~n~~~q-----~~~~K~vlSv~f~vl~~~~~~~  118 (175)
T KOG4253|consen   73 ARLNRKINKLDKELETQSKNKTAQ-----AHLHKWVLSVAFYVLKIMYGKT  118 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhhc
Confidence            344555555555554443333332     4577888888777776666653

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=83.00  E-value=34  Score=30.57  Aligned_cols=42  Identities=17%  Similarity=0.427  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHHHHHHh------hhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204          103 MIQEANLSKFKSEVQS------SQEHHFSMLQRETEKLRSDIEKMRSE  144 (226)
Q Consensus       103 y~~ka~iseLR~El~~------~~k~e~~~lr~e~e~Lk~Eie~L~~~  144 (226)
                      -.++..+.+++.....      .-+.|+..+|.....|+.+++.|+..
T Consensus       191 ~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~  238 (312)
T PF00038_consen  191 EWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAK  238 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccc
Confidence            3445556665544321      22455556666666666666655543

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes []

Probab=82.59  E-value=15  Score=26.26  Aligned_cols=36  Identities=17%  Similarity=0.402  Sum_probs=20.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHH
Q 027204          174 QNAETTNLTNKLDREIHALRAHME-AAKYDVIKYCIGTLVSISAVG  218 (226)
Q Consensus       174 ~~~kI~e~~~Ki~~eIa~LRteIE-s~K~d~lrwliG~v~~~~al~  218 (226)
                      .+.+|..++.+|.        +|+ ..|| +++-++|.+++++..+
T Consensus        32 ~e~~i~~~~~~l~--------~I~~n~kW-~~r~iiGaiI~~i~~~   68 (71)
T PF10779_consen   32 NEKDIKNLNKQLE--------KIKSNTKW-IWRTIIGAIITAIIYL   68 (71)
T ss_pred             HHHHHHHHHHHHH--------HHHHHHHH-HHHHHHHHHHHHHHHH
Confidence            3444555555543        233 4444 6677888777765433

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=82.38  E-value=10  Score=37.03  Aligned_cols=17  Identities=29%  Similarity=0.542  Sum_probs=8.0

Q ss_pred             hHHHHHHHHHHHHHHHH
Q 027204          127 LQRETEKLRSDIEKMRS  143 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~  143 (226)
                      +.++++.|+.|-+.|++
T Consensus        78 l~~~N~~l~~eN~~L~~   94 (472)
T TIGR03752        78 LISENEALKAENERLQK   94 (472)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444445555444443

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]

Probab=82.24  E-value=47  Score=31.66  Aligned_cols=36  Identities=11%  Similarity=0.254  Sum_probs=24.8

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204          124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD  159 (226)
Q Consensus       124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD  159 (226)
                      +...+-....++.+++.++..+.+|+.++.+..+-|
T Consensus       308 ~~~~~p~~~~~~~q~~~~~~~~~~e~~~~~~~~~~~  343 (458)
T COG3206         308 LGAKHPQLVALEAQLAELRQQIAAELRQILASLPNE  343 (458)
T ss_pred             hcccChHHHhHHHHHHHHHHHHHHHHHHHHHhchhH
Confidence            334445556677778888888888888777766665

>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators

Probab=82.10  E-value=6.6  Score=29.77  Aligned_cols=48  Identities=19%  Similarity=0.135  Sum_probs=35.9

Q ss_pred             cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHHHHH
Q 027204           22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITAAIT   78 (226)
Q Consensus        22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~al~   78 (226)
                      .|+-.|.+...|+|.|+         ...++.++++..|.+ .|||.+....++....
T Consensus        24 ~Gli~p~r~~~g~R~Ys---------~~dv~~l~~I~~L~~~~G~~l~~i~~~l~l~~   72 (98)
T cd01279          24 LGLVSPARTNGGGRRYS---------NNDLELLRQVQRLSQDEGFNLAGIKRIIELYP   72 (98)
T ss_pred             CCCCCCCcCCCCCeeEC---------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHhhh
Confidence            45445544456888776         446889999999998 9999998887776543

Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.

>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport

Probab=82.08  E-value=35  Score=30.05  Aligned_cols=33  Identities=12%  Similarity=0.103  Sum_probs=18.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204          127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD  159 (226)
Q Consensus       127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD  159 (226)
                      -|..-+.|..|+-.|-..||+-......-++-|
T Consensus       161 ~~~~QE~L~~em~~La~~LK~~s~~~~~~l~~D  193 (251)
T PF09753_consen  161 HRNLQEDLTEEMLSLARQLKENSLAFSQILKED  193 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455566666666666666655555444433

They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=82.06  E-value=41  Score=33.60  Aligned_cols=22  Identities=14%  Similarity=0.199  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 027204           97 EMQKTEMIQEANLSKFKSEVQS  118 (226)
Q Consensus        97 dle~~~y~~ka~iseLR~El~~  118 (226)
                      .++...-..++..+.|+.+|..
T Consensus       166 ~le~e~~~Lk~en~rl~~~l~~  187 (546)
T KOG0977|consen  166 ALEDELKRLKAENSRLREELAR  187 (546)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHH
Confidence            3444444445555555555443

>PRK13454 F0F1 ATP synthase subunit B'; Provisional

Probab=82.05  E-value=30  Score=29.18  Aligned_cols=35  Identities=0%  Similarity=-0.000  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 027204          179 TNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVS  213 (226)
Q Consensus       179 ~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~  213 (226)
                      .+.+.+.+..++..+.+|+..|-+.++-+-+.+..
T Consensus       119 ~~A~~e~~~~~aea~~~I~~~k~~a~~~l~~~a~~  153 (181)
T PRK13454        119 AKADAEIAAKAAESEKRIAEIRAGALESVEEVAKD  153 (181)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555566666666666665555544433

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=81.78  E-value=63  Score=33.48  Aligned_cols=57  Identities=21%  Similarity=0.256  Sum_probs=26.9

Q ss_pred             hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHH
Q 027204          122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAET  178 (226)
Q Consensus       122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI  178 (226)
                      .+...++.+.++++++++....+++++-.++....+-+.+.-..+.+.+...+-.++
T Consensus       537 ~~~~~~~~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~~i~~l  593 (782)
T PRK00409        537 EEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKEL  593 (782)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555555555444444444444433334444433333333

>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA

Probab=81.47  E-value=9.7  Score=28.83  Aligned_cols=39  Identities=21%  Similarity=0.238  Sum_probs=30.8

Q ss_pred             CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204           29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus        29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      +...|||.++         ...++.+.++..|...|||-+++..++..
T Consensus        31 ~~~~g~R~y~---------~~di~~l~~i~~lr~~g~~l~~i~~~~~~   69 (103)
T cd01106          31 RTENGYRLYT---------EEDLERLQQILFLKELGFSLKEIKELLKD   69 (103)
T ss_pred             cCCCCceeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHc
Confidence            3456777766         34588999999999999999999887754

Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip

>PF11657 Activator-TraM: Transcriptional activator TraM

Probab=81.07  E-value=30  Score=28.62  Aligned_cols=42  Identities=12%  Similarity=0.196  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204          183 NKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRI  224 (226)
Q Consensus       183 ~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~rl  224 (226)
                      .+|+..++.++..+...|.-.+-=+++.+++++++++++|-+
T Consensus       102 ~~i~~~~~~~~~~~~~~r~~a~~nl~aa~~~~~aa~v~~~~~  143 (144)
T PF11657_consen  102 SEIDNSLAEVNDLVREARKAAILNLVAAVLVLLAACVALWVS  143 (144)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666665444444566666666666665543

>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators

Probab=80.75  E-value=10  Score=30.17  Aligned_cols=45  Identities=20%  Similarity=0.234  Sum_probs=33.4

Q ss_pred             cccccCCCCC-cCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204           22 QGFNLNYSNT-IGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA   75 (226)
Q Consensus        22 ~~~~~~~~~~-~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~   75 (226)
                      .|.=-|.+.. +|||-++         .-.++.+.+++.|++.|||-++-..++.
T Consensus        23 ~GLl~p~r~~~~gyR~Y~---------~~~~~~l~~I~~lr~~G~sL~eI~~~l~   68 (133)
T cd04787          23 IGLLRPTRDPVNGYRLYS---------EKDLSRLRFILSARQLGFSLKDIKEILS   68 (133)
T ss_pred             CCCCCCCcCCCCCeeeCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence            4444454444 8899887         3458899999999999999988666554

Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=80.56  E-value=42  Score=33.64  Aligned_cols=37  Identities=19%  Similarity=0.181  Sum_probs=17.3

Q ss_pred             ccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q 027204           41 VKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVL   81 (226)
Q Consensus        41 ~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l   81 (226)
                      .|+.....+.||--+... |...|=   .++.|.+++..++
T Consensus       143 lp~~~~~~FfFDGE~I~~-la~~~~---~~~~l~~Ai~~Ll  179 (650)
T TIGR03185       143 LPLELADLFFFDGEKIEA-LANPDR---LASLLKEAIEVLL  179 (650)
T ss_pred             CCHhHHHHhcccHHHHHH-Hhcccc---chHHHHHHHHHHh
Confidence            344444455666655443 332222   2234666665554

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily

Probab=80.38  E-value=13  Score=28.76  Aligned_cols=47  Identities=23%  Similarity=0.379  Sum_probs=36.3

Q ss_pred             cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204           22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI   77 (226)
Q Consensus        22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al   77 (226)
                      .|+=-|.+...|||.++         .-.+.++.+++.|.+.|||-++...++...
T Consensus        23 ~GLl~p~r~~~g~R~Y~---------~~~~~~l~~I~~lr~~G~sl~eI~~~l~~~   69 (112)
T cd01282          23 QGLLVPERSANGYRDYD---------EAAVDRVRQIRRLLAAGLTLEEIREFLPCL   69 (112)
T ss_pred             CCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence            35444555667888887         346889999999999999999988877653

Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.

>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators

Probab=80.20  E-value=17  Score=28.64  Aligned_cols=40  Identities=25%  Similarity=0.332  Sum_probs=31.9

Q ss_pred             CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204           28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA   76 (226)
Q Consensus        28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a   76 (226)
                      .+..+|||.++         .-.+..+.+++.|...|||-++...++..
T Consensus        30 ~r~~~g~R~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~   69 (126)
T cd04785          30 ARTAGGYRLYG---------AAHVERLRFIRRARDLGFSLEEIRALLAL   69 (126)
T ss_pred             CcCCCCccccC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence            34567899887         23588999999999999999997776654

Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.

>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites

Probab=80.17  E-value=17  Score=26.51  Aligned_cols=58  Identities=29%  Similarity=0.341  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhh--hhh--hhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204          129 RETEKLRSDIEKMRSELRYEIDKVTAGQR--LDL--NLERGRIRDELANQNAETTNLTNKLD  186 (226)
Q Consensus       129 ~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k--lDl--NleK~r~ree~~~~~~kI~e~~~Ki~  186 (226)
                      ...++|+.|++.|+..-+.++.+--.+.+  .|+  |.+=...++.+..++.+|.+++.+|.
T Consensus         9 ~g~~~L~~EL~~L~~~~rpe~~~~i~~Ar~~GDlsENaeY~aAke~q~~le~rI~~Le~~l~   70 (74)
T PF03449_consen    9 EGYEKLQAELEHLKNVERPEIAEEIAEAREQGDLSENAEYHAAKERQAFLEARIRELEERLA   70 (74)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCcccchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34566777777777644444333333222  244  56666677788888888888777664

Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	226
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	94.14
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	94.0
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	93.15
3gp4_A	142	Transcriptional regulator, MERR family; structural	92.7
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	89.82
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	88.8
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	88.62
3mov_A	95	Lamin-B1; LMNB1, B-type lamins, intermediate filam	88.05
1gk4_A	84	Vimentin; intermediate filament, dimer, parallel c	87.18
3lay_A	175	Zinc resistance-associated protein; salmonella typ	86.66
3hd7_A	91	Vesicle-associated membrane protein 2; membrane pr	86.4
3gpv_A	148	Transcriptional regulator, MERR family; protein st	85.53
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	84.99
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	84.79
1g6u_A	48	Domain swapped dimer; designed three helix bundle,	84.07
1x8y_A	86	Lamin A/C; structural protein, intermediate filame	82.13
3lay_A	175	Zinc resistance-associated protein; salmonella typ	81.3
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	80.64

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=94.14  E-value=0.62  Score=36.12  Aligned_cols=54  Identities=9%  Similarity=0.174  Sum_probs=23.7

Q ss_pred             hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHH
Q 027204          123 HFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAE  177 (226)
Q Consensus       123 e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~k  177 (226)
                      ++..+++....|.+.+..+++....++...++-+ .++..+..++|.+++.+-.+
T Consensus        51 el~~l~~~~~~LE~~l~e~e~~~~~~l~~~q~~i-~~lE~eL~~~r~e~~~ql~E  104 (129)
T 3tnu_B           51 EIDNVKKQCANLQNAIADAEQRGELALKDARNKL-AELEEALQKAKQDMARLLRE  104 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhHHHHHHHHHHHHHH
Confidence            3344444444455555555544444444443322 23333344444444444333

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=94.00  E-value=0.53  Score=36.68  Aligned_cols=53  Identities=13%  Similarity=0.201  Sum_probs=22.5

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHH
Q 027204          124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAE  177 (226)
Q Consensus       124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~k  177 (226)
                      +..+++....|.+.+..+++....++...++-+ .++..+..++|.+++.+-.+
T Consensus        54 l~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i-~~lE~eL~~~r~em~~ql~E  106 (131)
T 3tnu_A           54 LQSQLSMKASLENSLEETKGRYCMQLAQIQEMI-GSVEEQLAQLRCEMEQQNQE  106 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444443322 23333444445554444333

>3iv1_A Tumor susceptibility gene 101 protein; coiled_COIL, tumorigenesis, CELL_cycle regulation, alternative splicing, cell cycle, cell division; HET: MSE; 2.50A {Homo sapiens}

Probab=93.15  E-value=0.53  Score=34.07  Aligned_cols=57  Identities=21%  Similarity=0.405  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 027204          139 EKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAK  200 (226)
Q Consensus       139 e~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K  200 (226)
                      |+|+.++++.+...++++.-     -.++.+++..=..+|.++-++++.|-+.|.+.|+..|
T Consensus        10 DKLRrrl~E~~~q~qaEl~s-----LrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk   66 (78)
T 3iv1_A           10 DKLRWRMKEEMDRAQAELNA-----LKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLK   66 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHH-----HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67777788877777775542     1357788888888999999999999999999998766

>3gp4_A Transcriptional regulator, MERR family; structural genomics, DNA-BI transcription regulator, PSI-2; 1.85A {Listeria monocytogenes str}

Probab=92.70  E-value=2  Score=33.64  Aligned_cols=47  Identities=17%  Similarity=0.138  Sum_probs=36.0

Q ss_pred             cccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204           22 QGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI   77 (226)
Q Consensus        22 ~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al   77 (226)
                      .|.--| .+...|||.++         .-.++.+.+++.|.+.|||-++...++...
T Consensus        25 ~GLl~p~~r~~~g~R~Y~---------~~dl~~l~~I~~lr~~G~sL~eIk~~l~~~   72 (142)
T 3gp4_A           25 IGLIPPIHRNESGVRKFG---------AEDLRWILFTRQMRRAGLSIEALIDYLALF   72 (142)
T ss_dssp             HTSSCCCCBCTTSCBCBC---------HHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             CCCCCCCcCCCCCCeeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            354334 45668999887         345889999999999999999987777654

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=89.82  E-value=11  Score=38.77  Aligned_cols=8  Identities=38%  Similarity=0.630  Sum_probs=3.4

Q ss_pred             HHHHHHHH
Q 027204          109 LSKFKSEV  116 (226)
Q Consensus       109 iseLR~El  116 (226)
                      +++|+.++
T Consensus       962 ~~~L~~~l  969 (1080)
T 2dfs_A          962 TEKLRSDV  969 (1080)
T ss_dssp             HHHHHHTH
T ss_pred             HHHHHHHH
Confidence            44444443

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=88.62  E-value=10  Score=32.14  Aligned_cols=73  Identities=10%  Similarity=0.208  Sum_probs=41.3

Q ss_pred             hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204          121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEA  198 (226)
Q Consensus       121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs  198 (226)
                      .-|+.+|..+.+.++.++..++.++.+-+.++..     +..+...........+..+.+....++..++.++.+++.
T Consensus        89 ~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~-----~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~e~~~e~~~  161 (256)
T 3na7_A           89 ERELRSLNIEEDIAKERSNQANREIENLQNEIKR-----KSEKQEDLKKEMLELEKLALELESLVENEVKNIKETQQI  161 (256)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567777788888887777777766554443321     112222334444555555555555555555555555553

>1gk4_A Vimentin; intermediate filament, dimer, parallel coiled coil, heptad repeat, stutter; 2.3A {Homo sapiens} SCOP: h.1.20.1

Probab=87.18  E-value=6.5  Score=28.15  Aligned_cols=73  Identities=23%  Similarity=0.296  Sum_probs=38.9

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHH---HHHHHHHHHHHHHHHHHH
Q 027204          124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETT---NLTNKLDREIHALRAHME  197 (226)
Q Consensus       124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~---e~~~Ki~~eIa~LRteIE  197 (226)
                      +..+++....|.+.+..+++....++...+..+- ++..+..++|.+++.+-.+.+   ++..+++.||+.-|.-+|
T Consensus         3 l~~l~~~~~sLE~~l~e~e~~~~~~~~~~q~~i~-~lE~eL~~~r~e~~~q~~EYq~LlnvK~~Ld~EIatYRkLLE   78 (84)
T 1gk4_A            3 VDALKGTNESLERQMREMEENFAVEAANYQDTIG-RLQDEIQNMKEEMARHLREYQDLLNVKMALDIEIATYRKLLE   78 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            4455555555666666666655555554443221 233444555666665544433   344566777776665544

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=86.66  E-value=4.5  Score=33.20  Aligned_cols=74  Identities=20%  Similarity=0.188  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHH
Q 027204          100 KTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETT  179 (226)
Q Consensus       100 ~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~  179 (226)
                      +++.+|++.+.+++.+-           +.+...|+.++...+++|+..+..-+    .|        .+.+..+-.+|.
T Consensus        67 nLT~EQq~ql~~I~~e~-----------r~~~~~Lr~ql~akr~EL~aL~~a~~----~D--------eakI~aL~~Ei~  123 (175)
T 3lay_A           67 PLTTEQQATAQKIYDDY-----------YTQTSALRQQLISKRYEYNALLTASS----PD--------TAKINAVAKEME  123 (175)
T ss_dssp             -CCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHTSSS----CC--------HHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHhCCC----CC--------HHHHHHHHHHHH
Confidence            34556677777776664           22233344445554444444443321    12        233344444555


Q ss_pred             HHHHHHHHHHHHHHHHH
Q 027204          180 NLTNKLDREIHALRAHM  196 (226)
Q Consensus       180 e~~~Ki~~eIa~LRteI  196 (226)
                      ++..++..+-.+.+.++
T Consensus       124 ~Lr~qL~~~R~k~~~em  140 (175)
T 3lay_A          124 SLGQKLDEQRVKRDVAM  140 (175)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            55555555444444443

>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, cell juncti cytoplasmic vesicle, membrane, phosphoprotein; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A

Probab=86.40  E-value=7.7  Score=28.22  Aligned_cols=25  Identities=16%  Similarity=0.392  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204          130 ETEKLRSDIEKMRSELRYEIDKVTA  154 (226)
Q Consensus       130 e~e~Lk~Eie~L~~~LkeeI~kl~a  154 (226)
                      ...+++.|++.++.-|.+-|+++..
T Consensus         6 ~l~~vq~ev~evk~iM~~NI~kvL~   30 (91)
T 3hd7_A            6 RLQQTQAQVDEVVDIMRVNVDKVLE   30 (91)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567899999999999999998854

>3gpv_A Transcriptional regulator, MERR family; protein structure initiative II(PSI II), NYSGXRC, structural genomics; 1.90A {Bacillus thuringiensis serovarkonkukian}

Probab=85.53  E-value=3.6  Score=32.27  Aligned_cols=41  Identities=17%  Similarity=0.227  Sum_probs=33.1

Q ss_pred             CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204           28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI   77 (226)
Q Consensus        28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al   77 (226)
                      .+...|||.++         .-.+..+.+++.|.+.|||-++...++...
T Consensus        46 ~r~~~g~R~Y~---------~~dl~~l~~I~~lr~~G~sL~eIk~~l~~~   86 (148)
T 3gpv_A           46 QRNEKGDRIFN---------EEALKYLEMILCLKNTGMPIQKIKQFIDWS   86 (148)
T ss_dssp             EECTTCCEEBC---------HHHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             cCCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHhh
Confidence            44568999887         345889999999999999999988777643

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=84.99  E-value=8.6  Score=36.79  Aligned_cols=18  Identities=22%  Similarity=0.259  Sum_probs=8.1

Q ss_pred             HhhHHHHHHHHHHHHHHH
Q 027204          172 ANQNAETTNLTNKLDREI  189 (226)
Q Consensus       172 ~~~~~kI~e~~~Ki~~eI  189 (226)
                      .+|..+||-++.-|++.|
T Consensus       141 edq~~kIQRLEvDIdiqi  158 (562)
T 3ghg_A          141 RAQLVDMKRLEVDIDIKI  158 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            344444444444444443

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=84.79  E-value=8.7  Score=36.78  Aligned_cols=14  Identities=14%  Similarity=0.143  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHH
Q 027204          104 IQEANLSKFKSEVQ  117 (226)
Q Consensus       104 ~~ka~iseLR~El~  117 (226)
                      .++.-|.+||.++.
T Consensus        61 DltkrINELKnqLE   74 (562)
T 3ghg_A           61 DFTNRINKLKNSLF   74 (562)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHH
Confidence            44566667777664

>1g6u_A Domain swapped dimer; designed three helix bundle, de novo protein; 1.48A {Synthetic} SCOP: k.9.1.1

Probab=84.07  E-value=3.3  Score=26.32  Aligned_cols=37  Identities=27%  Similarity=0.492  Sum_probs=21.7

Q ss_pred             HHHHHHHHHhhhhh-----hHHHhHHHHHHHHHHHHHHHHHH
Q 027204          109 LSKFKSEVQSSQEH-----HFSMLQRETEKLRSDIEKMRSEL  145 (226)
Q Consensus       109 iseLR~El~~~~k~-----e~~~lr~e~e~Lk~Eie~L~~~L  145 (226)
                      ++.|++|+|.+.+.     |.+.+.+|...|...+..|+.+|
T Consensus         2 laalkselqalkkegfspeelaaleselqalekklaalkskl   43 (48)
T 1g6u_A            2 LAALKSELQALKKEGFSPEELAALESELQALEKKLAALKSKL   43 (48)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35567777766654     45566666555555555555544

>1x8y_A Lamin A/C; structural protein, intermediate filament protein; 2.20A {Homo sapiens} SCOP: h.1.20.1 PDB: 3v5b_A 3v4w_A 3v4q_A

Probab=82.13  E-value=6.5  Score=28.37  Aligned_cols=33  Identities=33%  Similarity=0.454  Sum_probs=18.0

Q ss_pred             hhhHHHHHhhHHHH---HHHHHHHHHHHHHHHHHHH
Q 027204          165 GRIRDELANQNAET---TNLTNKLDREIHALRAHME  197 (226)
Q Consensus       165 ~r~ree~~~~~~kI---~e~~~Ki~~eIa~LRteIE  197 (226)
                      .++|.+++.+-.+.   -++..+++.||+.-|.-+|
T Consensus        45 ~~~r~e~~~ql~EYq~LlnvK~~Le~EIatYRkLLE   80 (86)
T 1x8y_A           45 AEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLE   80 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence            33445554443333   3344567777777666555

>3lay_A Zinc resistance-associated protein; salmonella typhimurium L structural genomics, center for structural genomics of INFE diseases; 2.70A {Salmonella enterica subsp}

Probab=81.30  E-value=15  Score=29.99  Aligned_cols=75  Identities=8%  Similarity=0.155  Sum_probs=36.7

Q ss_pred             CCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH--hhhhhhHHHhHHHHHHHHHHHHHH
Q 027204           64 GVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQ--SSQEHHFSMLQRETEKLRSDIEKM  141 (226)
Q Consensus        64 Gft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~--~~~k~e~~~lr~e~e~Lk~Eie~L  141 (226)
                      .+|++|-..+-++..+...+.              ..+.-+..+.-.+|+..+.  ..+.+.+.++..+...|+.++...
T Consensus        67 nLT~EQq~ql~~I~~e~r~~~--------------~~Lr~ql~akr~EL~aL~~a~~~DeakI~aL~~Ei~~Lr~qL~~~  132 (175)
T 3lay_A           67 PLTTEQQATAQKIYDDYYTQT--------------SALRQQLISKRYEYNALLTASSPDTAKINAVAKEMESLGQKLDEQ  132 (175)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            588999777766655543221              1111111222223333332  123455666666666666666666


Q ss_pred             HHHHHHHHHhh
Q 027204          142 RSELRYEIDKV  152 (226)
Q Consensus       142 ~~~LkeeI~kl  152 (226)
                      +.+++.++.+-
T Consensus       133 R~k~~~em~Ke  143 (175)
T 3lay_A          133 RVKRDVAMAQA  143 (175)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            66655555443

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=80.64  E-value=12  Score=25.94  Aligned_cols=54  Identities=9%  Similarity=0.235  Sum_probs=29.9

Q ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHh------hhhhhHHHhHHHHHHHHHHHHHHH
Q 027204           88 VAHTFVSKGEMQKTEMIQEANLSKFKSEVQS------SQEHHFSMLQRETEKLRSDIEKMR  142 (226)
Q Consensus        88 ~~~~lvTK~dle~~~y~~ka~iseLR~El~~------~~k~e~~~lr~e~e~Lk~Eie~L~  142 (226)
                      .|..++.|.- ++++.-++..+.+|......      ..+.|+..+|.....|+.||+.++
T Consensus        17 QYE~ia~knr-~EaE~~y~~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~slk   76 (77)
T 3trt_A           17 QYESVAAKNL-QEAEEWYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDALK   76 (77)
T ss_dssp             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhH-HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            4566666653 33445566667777666432      124555555555555555555543

---

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	226
d1r8da_	109	Multidrug transporter activator MtaN {Bacillus sub	85.28
d1r8ea1	118	Transcription activator BmrR {Bacillus subtilis [T	82.54

>d1r8da_ a.6.1.3 (A:) Multidrug transporter activator MtaN {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: Putative DNA-binding domain
superfamily: Putative DNA-binding domain
family: DNA-binding N-terminal domain of transcription activators
domain: Multidrug transporter activator MtaN
species: Bacillus subtilis [TaxId: 1423]

Probab=85.28  E-value=0.84  Score=31.99  Aligned_cols=45  Identities=16%  Similarity=0.115  Sum_probs=33.9

Q ss_pred             ccccccCC-CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHH
Q 027204           21 SQGFNLNY-SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAIT   74 (226)
Q Consensus        21 ~~~~~~~~-~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~   74 (226)
                      ..|.=-|. +..+|||.++         .-.++.+.+++.|.+.|||-++...++
T Consensus        24 ~~GLl~p~~r~~~gyR~Y~---------~~~~~~l~~I~~lr~~G~sl~eI~~~l   69 (109)
T d1r8da_          24 NIELLNPSALTDAGYRLYS---------DADLERLQQILFFKEIGFRLDEIKEML   69 (109)
T ss_dssp             HTTSSCCSEECTTCCEEBC---------HHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HcCCcCCcccCCccccccc---------HHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            34553433 4458999998         456899999999999999998876554

>d1r8ea1 a.6.1.3 (A:3-120) Transcription activator BmrR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: Putative DNA-binding domain
superfamily: Putative DNA-binding domain
family: DNA-binding N-terminal domain of transcription activators
domain: Transcription activator BmrR
species: Bacillus subtilis [TaxId: 1423]

Probab=82.54  E-value=3.3  Score=29.03  Aligned_cols=42  Identities=17%  Similarity=0.218  Sum_probs=31.1

Q ss_pred             cccccCC--CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHH
Q 027204           22 QGFNLNY--SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEA   72 (226)
Q Consensus        22 ~~~~~~~--~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAea   72 (226)
                      .|.=-|.  +..+|||.++         ......+.+++.|.+.|||-++...
T Consensus        26 ~GLl~P~~~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~g~sl~eIk~   69 (118)
T d1r8ea1          26 IDLFKPAYVDPDTSYRYYT---------DSQLIHLDLIKSLKYIGTPLEEMKK   69 (118)
T ss_dssp             TTSSCCSEECTTTCCEEEE---------TGGGGHHHHHHHHHHTTCCHHHHHH
T ss_pred             cCCcccccccCCCCccccc---------HHHHHHHHHHHHHHHcCCCHHHHHH
Confidence            4544453  3468999887         3458899999999999999876443