Psyllid ID: psy10709

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------35
Protein Sequence
MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRKEAQEKADRIIEQADSGSSHTNKK
Secondary Structure (PSIPRED)
ccccccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEEccccccEEEEEccccHHHHHHHHEEEEcEEccEEEEEEEEEcccHHHHHHHHHHccccccccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHccccccEEEEEEcccccccccccccccccccccEcccccEcccccccccccccccHHHHHHHHHHEEEccccccccHHHHHHHHHHHHHHHcHHHcHHHHHHHHccccHHcccccccccccccccccccccccccccccEEEEEcccccccEEEcccHHHHHHHHHHHHHHHHccccccccEEcccccccccccHcccccHHHHHHccccEEEEEEcccccccccccccccccccccEcccccEcccccccccccccccHHHHHHHHHHEEEccccccccHHHHHHHHHHHHHHHcHHHcHHHHcccHHHHHHHHHcccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MSTCQREGKDFIIFAtkedhaipssvelpppepqpglilpdgsinwncpclggmatgpcgvqfreafscfhystdepkgdlrstksRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIhnfkppvpmyytgagvpidllkfnpaqtrailrCPASFFIKLQTSLttcgyynnhparfithrtspCLLNLLSRLTLTMSTCQREGKDFIIFAtkedhaipssvelpppepqpglilpdgsinwncpclggmatgpcgvqfreafscfhystdepkgvncFEAFKTMQDCMAqyptlykqnddddedldddvkdVSIRKEAQEKADRIIeqadsgsshtnkk
Flexible Loop (DISEMBL)
MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHystdepkgdlrstksRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIrkeaqekadriieqadsgsshtnkk
Low Complexity Region (SEG)
MSTCQREGKDFIIFATKEDHAipssvelpppepqpglilpDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRtspcllnllsrltltmstCQREGKDFIIFATKEDHAipssvelpppepqpglilpDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNddddedldddvkdVSIRKEAQEKADRIIEQADSGSSHTNKK
Disordered region (IsUnstruct)
**********FIIFAT********************LILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYST*************ATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKE******************LILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLY********************************************
Disordered Region (DISOPRED)
*******GKDFIIF**************************DGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETF********************************YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPC****************REGKDFIIFA**************************GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYP***********************************************
Disordered Region (DISEMBL)
MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRKEAQEKADRII*************
Disordered Region (DISPRO)
*STC*REGKDFIIFATKE****************PGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLS*******************************GVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKE****************PGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDD*************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWLSNIYRKSIQTTNQHMTVIHNFKPPVPMYYTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIRKEAQEKADRIIEQADSGSSHTNKK
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	348	2.2.26 [Sep-21-2011]
Q6DEI8	146	Mitochondrial intermembra	yes	N/A	0.307	0.732	0.625	6e-36
Q8N4Q1	142	Mitochondrial intermembra	yes	N/A	0.293	0.718	0.635	6e-35
Q63ZK1	139	Mitochondrial intermembra	N/A	N/A	0.293	0.733	0.626	1e-34
Q8VEA4	139	Mitochondrial intermembra	yes	N/A	0.295	0.741	0.620	1e-34
Q5BJN5	139	Mitochondrial intermembra	yes	N/A	0.295	0.741	0.620	1e-34
Q6PBC3	139	Mitochondrial intermembra	yes	N/A	0.293	0.733	0.616	5e-34
Q6NU12	139	Mitochondrial intermembra	N/A	N/A	0.287	0.719	0.628	1e-33
Q2KHZ4	137	Mitochondrial intermembra	yes	N/A	0.293	0.744	0.598	4e-33
P0CM68	242	Mitochondrial intermembra	yes	N/A	0.272	0.392	0.520	1e-22
P0CM69	242	Mitochondrial intermembra	N/A	N/A	0.272	0.392	0.520	2e-22

>sp|Q6DEI8|MIA40_DANRE Mitochondrial intermembrane space import and assembly protein 40 OS=Danio rerio GN=chchd4 PE=2 SV=1

 Score =  151 bits (382), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 70/112 (62%), Positives = 84/112 (75%), Gaps = 5/112 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQP-----GLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PS+ EL   +P       GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCKQEGKDCIIFVTKEDHEAPSNAELVEDDPNDPYEDHGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDD 311
           +GPCG QF++AFSCFHYS +E KG +C E F+ MQ+CM +YP LY Q DD+D
Sbjct: 61  SGPCGQQFKDAFSCFHYSKEEIKGSDCVENFRGMQECMQKYPELYPQEDDND 112

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.
Danio rerio (taxid: 7955)

>sp|Q8N4Q1|MIA40_HUMAN Mitochondrial intermembrane space import and assembly protein 40 OS=Homo sapiens GN=CHCHD4 PE=1 SV=1

 Score =  148 bits (373), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 68/107 (63%), Positives = 82/107 (76%), Gaps = 5/107 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G+INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           +GPCG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 61  SGPCGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 107

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Homo sapiens (taxid: 9606)

>sp|Q63ZK1|MI40B_XENLA Mitochondrial intermembrane space import and assembly protein 40-B OS=Xenopus laevis GN=chchd4-b PE=2 SV=1

 Score =  147 bits (372), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 67/107 (62%), Positives = 80/107 (74%), Gaps = 5/107 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDKIIFVTKEDHETPSSAELIADDPNDPFEEQGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           +GPCG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 61  SGPCGEQFKSAFSCFHYSQEEIKGSDCLDQFRAMQECMQKYPELYPQ 107

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Xenopus laevis (taxid: 8355)

>sp|Q8VEA4|MIA40_MOUSE Mitochondrial intermembrane space import and assembly protein 40 OS=Mus musculus GN=Chchd4 PE=1 SV=1

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 67/108 (62%), Positives = 82/108 (75%), Gaps = 5/108 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
           +GPCG QF+ AFSCFHYST++ KG +C + F+ MQ+CM +YP LY Q+
Sbjct: 61  SGPCGEQFKSAFSCFHYSTEDIKGSDCIDQFRAMQECMQKYPDLYPQD 108

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Mus musculus (taxid: 10090)

>sp|Q5BJN5|MIA40_RAT Mitochondrial intermembrane space import and assembly protein 40 OS=Rattus norvegicus GN=Chchd4 PE=2 SV=1

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 67/108 (62%), Positives = 82/108 (75%), Gaps = 5/108 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
           +GPCG QF+ AFSCFHYST++ KG +C + F+ MQ+CM +YP LY Q+
Sbjct: 61  SGPCGEQFKSAFSCFHYSTEDIKGSDCIDQFRAMQECMQKYPDLYPQD 108

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Rattus norvegicus (taxid: 10116)

>sp|Q6PBC3|MIA40_XENTR Mitochondrial intermembrane space import and assembly protein 40 OS=Xenopus tropicalis GN=chchd4 PE=2 SV=1

 Score =  145 bits (365), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 66/107 (61%), Positives = 79/107 (73%), Gaps = 5/107 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQP-----GLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P       GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDKIIFVTKEDHETPSSAELIADDPNDPYEDHGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           +GPCG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP +Y Q
Sbjct: 61  SGPCGEQFKSAFSCFHYSQEEIKGSDCLDQFRAMQECMQKYPDIYPQ 107

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Xenopus tropicalis (taxid: 8364)

>sp|Q6NU12|MI40A_XENLA Mitochondrial intermembrane space import and assembly protein 40-A OS=Xenopus laevis GN=chchd4-a PE=2 SV=1

 Score =  144 bits (362), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 66/105 (62%), Positives = 78/105 (74%), Gaps = 5/105 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQ-----PGLILPDGSINWNCPCLGGMA 259
           MS C++EGKD IIF TKEDH  PSS EL   +P       GLILP+G INWNCPCLGGMA
Sbjct: 1   MSYCRQEGKDKIIFVTKEDHETPSSAELIADDPNDPYEDQGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLY 304
           +GPCG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP LY
Sbjct: 61  SGPCGEQFKSAFSCFHYSQEEIKGSDCLDQFRGMQECMQKYPDLY 105

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Xenopus laevis (taxid: 8355)

>sp|Q2KHZ4|MIA40_BOVIN Mitochondrial intermembrane space import and assembly protein 40 OS=Bos taurus GN=CHCHD4 PE=2 SV=1

 Score =  142 bits (358), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 64/107 (59%), Positives = 80/107 (74%), Gaps = 5/107 (4%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 259
           M+ C++EGKD IIF TKEDH  PS+ EL   +P     + GLILP+G INWNCPCLGGMA
Sbjct: 1   MAYCRQEGKDRIIFVTKEDHETPSNAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMA 60

Query: 260 TGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           +GPCG QF+ AFSCFHYS ++ KG +C + F+ MQ+CM +YP LY Q
Sbjct: 61  SGPCGEQFKAAFSCFHYSKEDVKGSDCVDQFRAMQECMQKYPDLYPQ 107

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Probably acts by forming a redox cycle with GFER/ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Bos taurus (taxid: 9913)

>sp|P0CM68|MIA40_CRYNJ Mitochondrial intermembrane space import and assembly protein 40 OS=Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) GN=MIA40 PE=3 SV=1

 Score =  107 bits (267), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/96 (52%), Positives = 60/96 (62%), Gaps = 1/96 (1%)

Query: 214 DFIIFATKEDHAIPSSVELPPPEPQPGLILPD-GSINWNCPCLGGMATGPCGVQFREAFS 272
           D +  A  +   I    E    EP  G   P+ G INW+CPCLGGMATGPCG QF+ AFS
Sbjct: 105 DSVEKAADDAAQILEEKEAEASEPSQGAYNPETGEINWDCPCLGGMATGPCGEQFKAAFS 164

Query: 273 CFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQND 308
           CF YS  EPKGV+C E FK MQDC  ++P +Y + D
Sbjct: 165 CFVYSEAEPKGVDCVELFKVMQDCFREHPEIYGEVD 200

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Forms a redox cycle with ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Cryptococcus neoformans var. neoformans serotype D (strain JEC21 / ATCC MYA-565) (taxid: 214684)

>sp|P0CM69|MIA40_CRYNB Mitochondrial intermembrane space import and assembly protein 40 OS=Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) GN=MIA40 PE=3 SV=1

 Score =  107 bits (266), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 50/96 (52%), Positives = 60/96 (62%), Gaps = 1/96 (1%)

Query: 214 DFIIFATKEDHAIPSSVELPPPEPQPGLILPD-GSINWNCPCLGGMATGPCGVQFREAFS 272
           D +  A  +   I    E    EP  G   P+ G INW+CPCLGGMATGPCG QF+ AFS
Sbjct: 105 DSVEKAADDAAQILEEKEAEASEPSQGAYNPETGEINWDCPCLGGMATGPCGEQFKAAFS 164

Query: 273 CFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQND 308
           CF YS  EPKGV+C E FK MQDC  ++P +Y + D
Sbjct: 165 CFVYSEAEPKGVDCVELFKVMQDCFREHPEIYGEVD 200

Required for the import and folding of small cysteine-containing proteins (small Tim) in the mitochondrial intermembrane space (IMS). Forms a redox cycle with ERV1 that involves a disulfide relay system. Precursor proteins to be imported into the IMS are translocated in their reduced form into the mitochondria. The oxidized form of MIA40 forms a transient intermolecular disulfide bridge with the reduced precursor protein, resulting in oxidation of the precursor protein that now contains an intramolecular disulfide bond and is able to undergo folding in the IMS.

Cryptococcus neoformans var. neoformans serotype D (strain B-3501A) (taxid: 283643)

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	348
270006852	232	hypothetical protein TcasGA2_TC013240 [T	0.459	0.689	0.588	9e-55
157114223	156	hypothetical protein AaeL_AAEL001085 [Ae	0.405	0.903	0.609	1e-43
332023563	144	Mitochondrial intermembrane space import	0.402	0.972	0.597	2e-43
383863873	158	PREDICTED: mitochondrial intermembrane s	0.373	0.822	0.6	1e-41
195037393	241	GH19177 [Drosophila grimshawi] gi|193894	0.402	0.580	0.485	1e-41
340714017	157	PREDICTED: mitochondrial intermembrane s	0.321	0.713	0.696	2e-41
350421189	156	PREDICTED: mitochondrial intermembrane s	0.321	0.717	0.696	3e-41
322793574	160	hypothetical protein SINV_11196 [Solenop	0.321	0.7	0.669	5e-41
312384254	464	hypothetical protein AND_02365 [Anophele	0.318	0.239	0.666	3e-40
242022669	164	mitochondrial intermembrane space import	0.413	0.878	0.6	4e-40

>gi|270006852|gb|EFA03300.1| hypothetical protein TcasGA2_TC013240 [Tribolium castaneum]

 Score =  220 bits (560), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 100/170 (58%), Positives = 126/170 (74%), Gaps = 10/170 (5%)

Query: 138 TGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNL 197
           + A V ID+L++N A  R ILR P+ +++K+++SLT CG YNN    +  H+TSP LLNL
Sbjct: 42  SAACVDIDVLRYNLAIKRGILRVPSEYYVKIRSSLTLCGSYNNISCSYKIHKTSPILLNL 101

Query: 198 LSRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGG 257
                        +GKD +IFAT EDH +PS+V LP P+PQPGLILP+G INWNCPCLGG
Sbjct: 102 QGP----------QGKDIVIFATPEDHKVPSTVTLPEPDPQPGLILPNGDINWNCPCLGG 151

Query: 258 MATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
           MATGPCGV+FR AFSCFHYS  EPKG +C+E FKTMQ+CM +YPTLY ++
Sbjct: 152 MATGPCGVEFRNAFSCFHYSEAEPKGSDCYELFKTMQNCMQKYPTLYNKD 201

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157114223|ref|XP_001657994.1| hypothetical protein AaeL_AAEL001085 [Aedes aegypti] gi|108883600|gb|EAT47825.1| AAEL001085-PA [Aedes aegypti]

 Score =  182 bits (463), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 86/141 (60%), Positives = 104/141 (73%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           MS C+  GKD +IFAT EDHA PS+VELP PE  PGLIL +G INWNCPCLGGMATGPCG
Sbjct: 1   MSLCKSFGKDKVIFATAEDHATPSTVELPEPEASPGLILDNGDINWNCPCLGGMATGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIR 324
           V+FREAFSCFHYS  +PKG +C++AFKTMQDCMA YP +YKQN  D+E+   D+  V   
Sbjct: 61  VEFREAFSCFHYSEAQPKGSDCYDAFKTMQDCMANYPGVYKQNLQDEEEGGMDLGAVLDE 120

Query: 325 KEAQEKADRIIEQADSGSSHT 345
            E       + ++A S +SH+
Sbjct: 121 DEEDPDKQTLKQEATSQASHS 141

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332023563|gb|EGI63799.1| Mitochondrial intermembrane space import and assembly protein 40 [Acromyrmex echinatior]

 Score =  182 bits (461), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 86/144 (59%), Positives = 109/144 (75%), Gaps = 4/144 (2%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           M   ++EGKD IIFA+KEDHAIPS + LP PEP PGL+LP+G INWNCPCLGGMATGPCG
Sbjct: 1   MPLIRKEGKDTIIFASKEDHAIPSKISLPEPEPSPGLLLPNGEINWNCPCLGGMATGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDD--VKDVS 322
           ++FREAFSCFHYST +PKG +C  AF+TMQ CM+QYP LY+      +DL+DD   ++V 
Sbjct: 61  LEFREAFSCFHYSTADPKGSDCRVAFETMQSCMSQYPALYESKGMSTDDLEDDGIGEEVE 120

Query: 323 IRKEAQEKAD--RIIEQADSGSSH 344
            +K+ QE +D  R +  A  G++H
Sbjct: 121 QKKQPQEGSDDKRKVVVASQGAAH 144

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383863873|ref|XP_003707404.1| PREDICTED: mitochondrial intermembrane space import and assembly protein 40-like [Megachile rotundata]

 Score =  176 bits (446), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 78/130 (60%), Positives = 98/130 (75%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           M   ++EGKD IIFA+KEDHA PS ++LP PEP PGL+L +G INWNCPCLGGMATGPCG
Sbjct: 1   MPLIRKEGKDTIIFASKEDHATPSKIDLPEPEPSPGLLLANGEINWNCPCLGGMATGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIR 324
           ++FREAFSCFHYST +PKG +C+EAFKTMQ CM QYP LY+      +DLD++   +   
Sbjct: 61  LEFREAFSCFHYSTADPKGSDCYEAFKTMQSCMVQYPALYRSKGAVLDDLDEEGDPMEEH 120

Query: 325 KEAQEKADRI 334
            +  E  D++
Sbjct: 121 HKNLESGDKV 130

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195037393|ref|XP_001990145.1| GH19177 [Drosophila grimshawi] gi|193894341|gb|EDV93207.1| GH19177 [Drosophila grimshawi]

 Score =  176 bits (446), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 82/169 (48%), Positives = 103/169 (60%), Gaps = 29/169 (17%)

Query: 139 GAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLL 198
           G    +D+++F+  Q R + R P  F  +  T++T  G+Y                    
Sbjct: 42  GGKTSLDIIRFSKEQRRVVFRVPEEFAERTHTAITLIGHYQ------------------- 82

Query: 199 SRLTLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGM 258
                     +  GKD +IFATKEDHA+PS++ELP PEP  GLI  DG INW CPCLGGM
Sbjct: 83  ----------EVFGKDKVIFATKEDHAVPSTIELPAPEPPQGLITKDGDINWGCPCLGGM 132

Query: 259 ATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
           ATGPCGV FREAFSCFHYS  EPKG +C+EAF+ MQDC  QYPT+Y ++
Sbjct: 133 ATGPCGVDFREAFSCFHYSEAEPKGSDCYEAFRKMQDCFQQYPTVYNKS 181

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340714017|ref|XP_003395529.1| PREDICTED: mitochondrial intermembrane space import and assembly protein 40-B-like [Bombus terrestris]

 Score =  176 bits (445), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 78/112 (69%), Positives = 90/112 (80%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           M   ++EGKD IIFA+KEDHA PS +ELP PEP PGL+L  G INWNCPCLGGMATGPCG
Sbjct: 2   MPFIRKEGKDTIIFASKEDHATPSKIELPEPEPSPGLLLSGGEINWNCPCLGGMATGPCG 61

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDD 316
           ++FREAFSCFHYST EPKG +C++AFKTMQ CM QYP LY +     EDL+D
Sbjct: 62  LEFREAFSCFHYSTAEPKGSDCYDAFKTMQTCMVQYPALYGKKGGSLEDLED 113

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350421189|ref|XP_003492764.1| PREDICTED: mitochondrial intermembrane space import and assembly protein 40-B-like [Bombus impatiens]

 Score =  175 bits (443), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 78/112 (69%), Positives = 88/112 (78%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           M    +EGKD IIFATKEDHA PS +ELP PEP PGL+L  G INWNCPCLGGMATGPCG
Sbjct: 1   MPFIHKEGKDTIIFATKEDHATPSKIELPEPEPSPGLLLSSGEINWNCPCLGGMATGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDD 316
           ++FREAFSCFHYST EPKG +C+ AFKTMQ CM +YP LY +     EDL+D
Sbjct: 61  LEFREAFSCFHYSTAEPKGSDCYNAFKTMQTCMVEYPALYGKRGGSLEDLED 112

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322793574|gb|EFZ17056.1| hypothetical protein SINV_11196 [Solenopsis invicta]

 Score =  174 bits (441), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 75/112 (66%), Positives = 91/112 (81%)

Query: 203 LTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGP 262
           +TM   ++EGKD IIFA+KEDHA+PS + LP PEP PGL+LP+G INWNCPCLGGMATGP
Sbjct: 12  ITMPLIRKEGKDTIIFASKEDHAVPSKISLPEPEPSPGLLLPNGEINWNCPCLGGMATGP 71

Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDL 314
           CG++FREAFSCFHYST +PKG +C  AF+TMQ CM+QYP LY+      +DL
Sbjct: 72  CGLEFREAFSCFHYSTADPKGSDCRTAFETMQSCMSQYPALYESKGMSTDDL 123

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312384254|gb|EFR29022.1| hypothetical protein AND_02365 [Anopheles darlingi]

 Score =  171 bits (434), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 74/111 (66%), Positives = 89/111 (80%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           MS C+  GKD +IFATKEDH  PS+V+LP  EP+ GLIL +G INWNCPCLGGMA GPCG
Sbjct: 1   MSLCKSYGKDKVIFATKEDHETPSTVQLPESEPRQGLILENGDINWNCPCLGGMAIGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLD 315
           V+FREAFSCFHYS  +PKG +C+EAF TM +CM  YP +YKQN +++ED D
Sbjct: 61  VEFREAFSCFHYSQAQPKGSDCYEAFSTMNECMRNYPGVYKQNLNEEEDED 111

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242022669|ref|XP_002431761.1| mitochondrial intermembrane space import and assembly protein 40-B, putative [Pediculus humanus corporis] gi|212517086|gb|EEB19023.1| mitochondrial intermembrane space import and assembly protein 40-B, putative [Pediculus humanus corporis]

 Score =  171 bits (434), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 87/145 (60%), Positives = 106/145 (73%), Gaps = 1/145 (0%)

Query: 205 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEPQPGLILPDGSINWNCPCLGGMATGPCG 264
           MST ++EGKD IIFAT EDH  PSSV LP PEPQPGLILP+G INWNCPCLGGMATGPCG
Sbjct: 1   MSTYRKEGKDVIIFATPEDHKEPSSVVLPEPEPQPGLILPNGEINWNCPCLGGMATGPCG 60

Query: 265 VQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDDDVKDVSIR 324
           V+FREAFSCFH S  EPKG +C++AFK M  CMA+YP LY + DDDD++L+ +   V   
Sbjct: 61  VEFREAFSCFHNSEAEPKGSDCYDAFKEMHLCMAEYPQLYSKYDDDDDELNLEADKVLAN 120

Query: 325 KEAQEKAD-RIIEQADSGSSHTNKK 348
           +    K + +I  Q    +  T+K+
Sbjct: 121 ESTMPKEEPKITTQTKMETDKTDKR 145

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

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	348
FB|FBgn0260468	158	CG7950 [Drosophila melanogaste	0.287	0.632	0.54	1e-27
UNIPROTKB|Q8N4Q1	142	CHCHD4 "Mitochondrial intermem	0.284	0.697	0.528	7.3e-27
MGI|MGI:1919420	139	Chchd4 "coiled-coil-helix-coil	0.287	0.719	0.514	1.2e-26
RGD|1310746	139	Chchd4 "coiled-coil-helix-coil	0.287	0.719	0.514	1.2e-26
ZFIN|ZDB-GENE-040801-46	146	chchd4 "coiled-coil-helix-coil	0.284	0.678	0.538	2.5e-26
UNIPROTKB|Q63ZK1	139	chchd4-b "Mitochondrial interm	0.284	0.712	0.519	3.2e-26
UNIPROTKB|Q6NU12	139	chchd4-a "Mitochondrial interm	0.284	0.712	0.519	5.2e-26
UNIPROTKB|Q6PBC3	139	chchd4 "Mitochondrial intermem	0.284	0.712	0.509	5.2e-26
UNIPROTKB|Q2KHZ4	137	CHCHD4 "Mitochondrial intermem	0.284	0.722	0.519	8.4e-26
UNIPROTKB|G4NI50	309	MGG_09348 "Mitochondrial inter	0.169	0.190	0.661	8e-21

FB|FBgn0260468 CG7950 [Drosophila melanogaster (taxid:7227)]

 Score = 310 (114.2 bits), Expect = 1.0e-27, P = 1.0e-27
 Identities = 54/100 (54%), Positives = 66/100 (66%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGPCGVQF 267
             C+  GKD +IF TKEDHA                   DG INW+CPCLGGMATGPCGV F
Sbjct:     6 CKEYGKDKVIFVTKEDHATPSTIELPPPEKPEGVITKDGKINWSCPCLGGMATGPCGVDF 65

Query:   268 REAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
             REAFSCF  ST +PKG +C++AF  M+DC  +YPT+Y ++
Sbjct:    66 REAFSCFQNSTADPKGSDCYDAFTKMRDCFQKYPTVYNKS 105

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q8N4Q1 CHCHD4 "Mitochondrial intermembrane space import and assembly protein 40" [Homo sapiens (taxid:9606)]

 Score = 302 (111.4 bits), Expect = 7.3e-27, P = 7.3e-27
 Identities = 55/104 (52%), Positives = 67/104 (64%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G+INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct:    64 CGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 107

GO:0051084 "'de novo' posttranslational protein folding" evidence=IMP

GO:0022417 "protein maturation by protein folding" evidence=IMP

GO:0015035 "protein disulfide oxidoreductase activity" evidence=IMP

GO:0005758 "mitochondrial intermembrane space" evidence=IDA

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=IMP

GO:0006626 "protein targeting to mitochondrion" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

MGI|MGI:1919420 Chchd4 "coiled-coil-helix-coiled-coil-helix domain containing 4" [Mus musculus (taxid:10090)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 54/105 (51%), Positives = 67/105 (63%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
             CG QF+ AFSCFHYST++ KG +C + F+ MQ+CM +YP LY Q+
Sbjct:    64 CGEQFKSAFSCFHYSTEDIKGSDCIDQFRAMQECMQKYPDLYPQD 108

GO:0005739 "mitochondrion" evidence=IDA

GO:0005758 "mitochondrial intermembrane space" evidence=ISO

GO:0006810 "transport" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISO

GO:0022417 "protein maturation by protein folding" evidence=ISO

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISO

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISO

RGD|1310746 Chchd4 "coiled-coil-helix-coiled-coil-helix domain containing 4" [Rattus norvegicus (taxid:10116)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 54/105 (51%), Positives = 67/105 (63%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQN 307
             CG QF+ AFSCFHYST++ KG +C + F+ MQ+CM +YP LY Q+
Sbjct:    64 CGEQFKSAFSCFHYSTEDIKGSDCIDQFRAMQECMQKYPDLYPQD 108

GO:0005739 "mitochondrion" evidence=ISO

GO:0005758 "mitochondrial intermembrane space" evidence=ISO;ISS

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISO;ISS

GO:0022417 "protein maturation by protein folding" evidence=ISO;ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISO;ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISO;ISS

ZFIN|ZDB-GENE-040801-46 chchd4 "coiled-coil-helix-coiled-coil-helix domain containing 4" [Danio rerio (taxid:7955)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 56/104 (53%), Positives = 67/104 (64%)

Query:   208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH     A                   +G INWNCPCLGGMA+GP
Sbjct:     4 CKQEGKDCIIFVTKEDHEAPSNAELVEDDPNDPYEDHGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF++AFSCFHYS +E KG +C E F+ MQ+CM +YP LY Q
Sbjct:    64 CGQQFKDAFSCFHYSKEEIKGSDCVENFRGMQECMQKYPELYPQ 107

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISS

GO:0022417 "protein maturation by protein folding" evidence=ISS

GO:0005758 "mitochondrial intermembrane space" evidence=ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISS

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

UNIPROTKB|Q63ZK1 chchd4-b "Mitochondrial intermembrane space import and assembly protein 40-B" [Xenopus laevis (taxid:8355)]

 Score = 296 (109.3 bits), Expect = 3.2e-26, P = 3.2e-26
 Identities = 54/104 (51%), Positives = 65/104 (62%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDKIIFVTKEDHETPSSAELIADDPNDPFEEQGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP LY Q
Sbjct:    64 CGEQFKSAFSCFHYSQEEIKGSDCLDQFRAMQECMQKYPELYPQ 107

GO:0005758 "mitochondrial intermembrane space" evidence=ISS

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISS

GO:0022417 "protein maturation by protein folding" evidence=ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISS

UNIPROTKB|Q6NU12 chchd4-a "Mitochondrial intermembrane space import and assembly protein 40-A" [Xenopus laevis (taxid:8355)]

 Score = 294 (108.6 bits), Expect = 5.2e-26, P = 5.2e-26
 Identities = 54/104 (51%), Positives = 65/104 (62%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDKIIFVTKEDHETPSSAELIADDPNDPYEDQGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP LY Q
Sbjct:    64 CGEQFKSAFSCFHYSQEEIKGSDCLDQFRGMQECMQKYPDLYPQ 107

GO:0005758 "mitochondrial intermembrane space" evidence=ISS

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISS

GO:0022417 "protein maturation by protein folding" evidence=ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISS

UNIPROTKB|Q6PBC3 chchd4 "Mitochondrial intermembrane space import and assembly protein 40" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 294 (108.6 bits), Expect = 5.2e-26, P = 5.2e-26
 Identities = 53/104 (50%), Positives = 65/104 (62%)

Query:   208 CQREGKDFIIFATKEDHAXXXXXXXXXXX-----XXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH                         +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDKIIFVTKEDHETPSSAELIADDPNDPYEDHGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF+ AFSCFHYS +E KG +C + F+ MQ+CM +YP +Y Q
Sbjct:    64 CGEQFKSAFSCFHYSQEEIKGSDCLDQFRAMQECMQKYPDIYPQ 107

GO:0005758 "mitochondrial intermembrane space" evidence=ISS

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISS

GO:0022417 "protein maturation by protein folding" evidence=ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISS

UNIPROTKB|Q2KHZ4 CHCHD4 "Mitochondrial intermembrane space import and assembly protein 40" [Bos taurus (taxid:9913)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 54/104 (51%), Positives = 66/104 (63%)

Query:   208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
             C++EGKD IIF TKEDH     A                   +G INWNCPCLGGMA+GP
Sbjct:     4 CRQEGKDRIIFVTKEDHETPSNAELVADDPNDPYEEHGLILPNGDINWNCPCLGGMASGP 63

Query:   263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
             CG QF+ AFSCFHYS ++ KG +C + F+ MQ+CM +YP LY Q
Sbjct:    64 CGEQFKAAFSCFHYSKEDVKGSDCVDQFRAMQECMQKYPDLYPQ 107

GO:0005758 "mitochondrial intermembrane space" evidence=ISS

GO:0015035 "protein disulfide oxidoreductase activity" evidence=ISS

GO:0051084 "'de novo' posttranslational protein folding" evidence=ISS

GO:0045041 "protein import into mitochondrial intermembrane space" evidence=ISS

GO:0022417 "protein maturation by protein folding" evidence=ISS

UNIPROTKB|G4NI50 MGG_09348 "Mitochondrial intermembrane space import and assembly protein 40" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 245 (91.3 bits), Expect = 8.0e-21, P = 8.0e-21
 Identities = 39/59 (66%), Positives = 48/59 (81%)

Query:   246 GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLY 304
             G INW+CPCLGGMA GPCG +F+ AFSCF YST+EPKG++C E F+ MQDC  +YP +Y
Sbjct:   160 GEINWDCPCLGGMADGPCGEEFKAAFSCFVYSTEEPKGMDCIEKFQGMQDCFKKYPEVY 218

GO:0003674 "molecular_function" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q6DEI8	MIA40_DANRE	No assigned EC number	0.625	0.3074	0.7328	yes	N/A
Q5BJN5	MIA40_RAT	No assigned EC number	0.6203	0.2959	0.7410	yes	N/A
Q2KHZ4	MIA40_BOVIN	No assigned EC number	0.5981	0.2931	0.7445	yes	N/A
Q8N4Q1	MIA40_HUMAN	No assigned EC number	0.6355	0.2931	0.7183	yes	N/A
Q8VEA4	MIA40_MOUSE	No assigned EC number	0.6203	0.2959	0.7410	yes	N/A
Q6PBC3	MIA40_XENTR	No assigned EC number	0.6168	0.2931	0.7338	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	348
pfam06747	35	pfam06747, CHCH, CHCH domain	4e-04
pfam01900	103	pfam01900, RNase_P_Rpp14, Rpp14/Pop5 family	0.002

>gnl|CDD|148383 pfam06747, CHCH, CHCH domain

 Score = 37.2 bits (87), Expect = 4e-04
 Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQ 299
           CG +F+    C   ++DE     C + F   + C+ +
Sbjct: 1   CGEEFKAFLKCLKENSDE--LSKCRKEFDAFRQCVKK 35

we have identified a conserved motif in the LOC118487 protein that we have called the CHCH motif. Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterized proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11-kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit. The CHCH domain was previously called DUF657. Length = 35

>gnl|CDD|216773 pfam01900, RNase_P_Rpp14, Rpp14/Pop5 family

 Score = 36.7 bits (86), Expect = 0.002
 Identities = 13/63 (20%), Positives = 19/63 (30%), Gaps = 11/63 (17%)

Query: 149 FNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTC 208
           FNP     ILRC   +   +  +LT        P        S            T+  C
Sbjct: 49  FNPKTGTGILRCRRGYVRLVWAALTLITSIGGKPVIIRVLGVSG-----------TIKKC 97

Query: 209 QRE 211
           + +
Sbjct: 98  EEK 100

tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule associated with at least eight protein subunits, hPop1, Rpp14, Rpp20, Rpp25, Rpp29, Rpp30, Rpp38, and Rpp40. This protein is known as Pop5 in eukaryotes. Length = 103

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	348
KOG4149|consensus	129		100.0
KOG4149|consensus	129		100.0
PF01900	107	RNase_P_Rpp14: Rpp14/Pop5 family; InterPro: IPR002	99.39
PRK03717	120	ribonuclease P protein component 2; Provisional	98.92
KOG4639|consensus	154		98.59
COG1369	124	POP5 RNase P/RNase MRP subunit POP5 [Translation,	98.15
PF07802	76	GCK: GCK domain; InterPro: IPR012891 This domain i	97.69
PF06747	35	CHCH: CHCH domain; InterPro: IPR010625 A conserved	95.9
PF07802	76	GCK: GCK domain; InterPro: IPR012891 This domain i	95.26
PF06747	35	CHCH: CHCH domain; InterPro: IPR010625 A conserved	94.63

>KOG4149|consensus

Probab=100.00  E-value=7.5e-39  Score=274.10  Aligned_cols=105  Identities=47%  Similarity=0.940  Sum_probs=93.8

Q ss_pred             hccCCceEEEeccccccCCCCCcCCCCC---------CCCCCCCCCCceeecCCccCCCCCCCchHHHHHhhhccccCCC
Q psy10709        209 QREGKDFIIFATKEDHAIPSSVELPPPE---------PQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTD  279 (348)
Q Consensus       209 ~~egKD~vifvTkEd~~~ps~~el~~~d---------p~~G~~~P~GeINwdCPClggMa~GPCG~~FreAFsCF~~S~~  279 (348)
                      ++.+||.|++++++|+..|++.+++...         ..+|+++|||+|||+|||||||++||||++||+|||||+||++
T Consensus         7 ~~~skDe~~~~~k~E~~~~iK~e~~~~~~n~e~~~~~~~~g~~~PDG~INwdCpClg~m~a~pCG~eFreA~sCf~~s~~   86 (129)
T KOG4149|consen    7 KEMSKDEILKMGKEEFEEPIKDEYVPQLENTEPNEESNEPGPTNPDGTINWDCPCLGGLVAGPCGEEFREAFSCFKYSDT   86 (129)
T ss_pred             hhhcchHHHhhhHHHhhcchhHHHHHHhcccCCCcccCCCCCcCCCCceeecCccccccccCccHHHHHHHHhhccccCC
Confidence            4789999999999999999988765543         2689999999999999999999999999999999999999999


Q ss_pred             CCCcCchHHHHHHHHHHHHhChhhhCCCCCCCCC
Q psy10709        280 EPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDED  313 (348)
Q Consensus       280 e~kg~dC~e~F~~mq~Cm~~~P~~Y~~~~~~~~~  313 (348)
                      ++||+||+++|++||+||++||..|......-.|
T Consensus        87 e~kg~dC~~qf~a~~~C~qk~p~~~~eq~~~T~d  120 (129)
T KOG4149|consen   87 EPKGGDCVKQFVAMQECMQKYPREEEEQCAKTND  120 (129)
T ss_pred             CcCccchHHHHHHHHHHHHhCchHHHHHhcccCC
Confidence            9999999999999999999999777655543333

>KOG4149|consensus

Probab=100.00  E-value=1.4e-35  Score=253.99  Aligned_cols=93  Identities=44%  Similarity=0.768  Sum_probs=84.8

Q ss_pred             cccCCceEEEeccCCCCCCCCCCCC----C-----CCCCCCCCCCCCcccccCCccCCCCCCCchHhhhhhhcccccCCC
Q psy10709          5 QREGKDFIIFATKEDHAIPSSVELP----P-----PEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTD   75 (348)
Q Consensus         5 ~~e~KD~iif~tkE~~~~p~~~el~----~-----~~~~~g~~~p~G~inw~CpClg~m~~gpCG~~Fr~AfsCf~~s~~   75 (348)
                      ++.+||.|++++++++.+|++.++.    +     ++.++|+++|||+|||+|||||||++||||++||+|||||+||++
T Consensus         7 ~~~skDe~~~~~k~E~~~~iK~e~~~~~~n~e~~~~~~~~g~~~PDG~INwdCpClg~m~a~pCG~eFreA~sCf~~s~~   86 (129)
T KOG4149|consen    7 KEMSKDEILKMGKEEFEEPIKDEYVPQLENTEPNEESNEPGPTNPDGTINWDCPCLGGLVAGPCGEEFREAFSCFKYSDT   86 (129)
T ss_pred             hhhcchHHHhhhHHHhhcchhHHHHHHhcccCCCcccCCCCCcCCCCceeecCccccccccCccHHHHHHHHhhccccCC
Confidence            5679999999999999999999852    1     124799999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHHHhhh
Q psy10709         76 EPKGDLRSTKSRATTILMCDGV   97 (348)
Q Consensus        76 e~kg~~c~~~f~~~~~~m~~~~   97 (348)
                      |+||++|++||+||.+||++.-
T Consensus        87 e~kg~dC~~qf~a~~~C~qk~p  108 (129)
T KOG4149|consen   87 EPKGGDCVKQFVAMQECMQKYP  108 (129)
T ss_pred             CcCccchHHHHHHHHHHHHhCc
Confidence            9999999999999999988544

>PF01900 RNase_P_Rpp14: Rpp14/Pop5 family; InterPro: IPR002759 This family contains proteins found in some eukaryotes and archaebacteria that are related to yeast ribonuclease P

Probab=99.39  E-value=1.7e-13  Score=110.56  Aligned_cols=66  Identities=21%  Similarity=0.286  Sum_probs=57.0

Q ss_pred             ccccccccc---ceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        135 MYYTGAGVP---IDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       135 ~~~VGaal~---vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      .+++|++..   ++|++|++.|.++||||+++.+++||+|||+++++++.||.|+|++|||||++....
T Consensus        35 ~G~~G~~~~~~~l~v~~~~~~t~~~IiR~~r~~~~~v~~aL~~i~~i~~~~~~~~vl~vSGTir~~~k~  103 (107)
T PF01900_consen   35 FGDFGAAAISPSLQVKYFNPKTGIGIIRCRREYYKKVWSALTLITSINGRPCSIRVLHVSGTIRSCQKF  103 (107)
T ss_dssp             CHHHHHHHH--EEE--EEETTTTEEEEEEEGGGHHHHHHHHHT--EETTEEEEEEEEEEESSHHHHHHH
T ss_pred             cChhhhhhcccccceeeEcCCCCEEEEEEcchhhhHHHHHHHHHhccCCceEEEEEEEEChhHHHHHHH
Confidence            477787655   899999999999999999999999999999999999999999999999999987653

This enzyme is essential for tRNA processing generating 5'-termini of mature tRNA molecules []. tRNA processing enzyme ribonuclease P (RNase P) consists of an RNA molecule associated with at least eight protein subunits, hPop1, Rpp14, Rpp20, Rpp25, Rpp29, Rpp30, Rpp38, and Rpp40 [].; GO: 0004540 ribonuclease activity, 0008033 tRNA processing; PDB: 2CZV_D 2AV5_B.

>PRK03717 ribonuclease P protein component 2; Provisional

Probab=98.92  E-value=2.7e-09  Score=90.95  Aligned_cols=65  Identities=22%  Similarity=0.204  Sum_probs=57.9

Q ss_pred             cccccc-ccceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        136 YYTGAG-VPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       136 ~~VGaa-l~vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      +.+|++ ...-|++|++.|.++||||.++.++.+|+||+++.++.+.||.|+|+.||+|+++....
T Consensus        47 Gd~G~~~~~~~li~f~~~t~~gIlRc~R~~~~~v~aAL~li~~i~~~~v~ir~l~vSGTIk~~~~k  112 (120)
T PRK03717         47 GELGTARAKPWFIKFDEKTQTGIVRCDRKHVEELRFALTLVTEINGSKAIIRTLGVSGTIKRLKRK  112 (120)
T ss_pred             ChhhhccccceEEEEeCCCCEEEEEcCchhHHHHHHHHHHHHhCCCeeEEEEEeeccHHHHHHHHH
Confidence            566664 33567899999999999999999999999999999999999999999999999987653

>KOG4639|consensus

Probab=98.59  E-value=4.5e-08  Score=87.35  Aligned_cols=68  Identities=16%  Similarity=0.101  Sum_probs=60.9

Q ss_pred             ceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhcccccccchhhhccCCc
Q psy10709        144 IDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSRLTLTMSTCQREGKD  214 (348)
Q Consensus       144 vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~l~~~ms~~~~egKD  214 (348)
                      +.|.||++.|+.+||||.+.+++.+|+||.+++...++||.|+++.||++++.-..-   +|.|-|++--+
T Consensus        53 l~VkYl~~~T~v~ilRc~~~~~k~v~~aLplI~~i~d~~~~~~tl~Vggtik~cekf---iik~nr~el~~  120 (154)
T KOG4639|consen   53 LSVKYLNENTSVAILRCAREGCKLVWAALPLITKIGDVPCIFRTLFVGGTIKKCEKF---IIKYNRSELHR  120 (154)
T ss_pred             eEEEEeCCCCcEEEEEEccccchhHHHHHhHHHhhcCcceEEEEEEEhhhHHHHHHH---HHHHhHHHHHH
Confidence            589999999999999999999999999999999999999999999999999998774   66666555433

>COG1369 POP5 RNase P/RNase MRP subunit POP5 [Translation, ribosomal structure and biogenesis]

Probab=98.15  E-value=3e-06  Score=73.73  Aligned_cols=66  Identities=14%  Similarity=0.179  Sum_probs=58.9

Q ss_pred             ccccccccc-ceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        135 MYYTGAGVP-IDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       135 ~~~VGaal~-vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      ++.+|.+.- .-|++|+..|.++||||.+..+..+|+||+|+.++.+.+-.+.|+.||+|+.+....
T Consensus        46 lG~~gta~~~~~lv~~~~~t~~GIvrc~R~~~~~v~aAL~l~~~~~g~rv~I~~lgvSGTIKka~~~  112 (124)
T COG1369          46 LGDVGTAKANPRLVKYYFSTGTGIVRCRREYVDLVRAALMLAREVNGKRVIIVVLGVSGTIKKAKRK  112 (124)
T ss_pred             cCcccccccceeEEEEeccCCceEEEEechhHHHHHHHHHHHHHhCCceEEEEEeeccccHHHHHHH
Confidence            355565544 788999999999999999999999999999999999999999999999999988764

>PF07802 GCK: GCK domain; InterPro: IPR012891 This domain is found in proteins carrying other domains known to be involved in intracellular signalling pathways (such as IPR001806 from INTERPRO) indicating that it might also be involved in these pathways

Probab=97.69  E-value=3.2e-05  Score=62.28  Aligned_cols=53  Identities=25%  Similarity=0.393  Sum_probs=44.2

Q ss_pred             CCCCCCchHHHHHhhhccccC---CCCCCcCchHHHHHHHHHHHHhChhhhCCCCC
Q psy10709        257 GMATGPCGVQFREAFSCFHYS---TDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDD  309 (348)
Q Consensus       257 gMa~GPCG~~FreAFsCF~~S---~~e~kg~dC~e~F~~mq~Cm~~~P~~Y~~~~~  309 (348)
                      =|..|||++.|.+-..|.-..   .+......|.+.|.+|..||..|||+|...+.
T Consensus         8 FMkgG~Cke~F~awe~C~~ea~~~~~~d~v~kC~e~~~~L~kCM~ahsdYY~P~La   63 (76)
T PF07802_consen    8 FMKGGGCKESFTAWEDCVDEAEKNKEEDFVEKCFEATAALRKCMEAHSDYYEPILA   63 (76)
T ss_pred             HhcCCChhHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhchhHHHHHHH
Confidence            489999999999999999433   22245679999999999999999999986653

It has 4 highly conserved cysteine residues, suggesting that it can bind zinc ions. Moreover, it is found repeated in some members of this family (such as Q9LMF3 from SWISSPROT); this may indicate that these domains are able to interact with one another, raising the possibility that this domain mediates heterodimerisation.

>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif

Probab=95.90  E-value=0.0061  Score=40.92  Aligned_cols=35  Identities=17%  Similarity=0.560  Sum_probs=31.3

Q ss_pred             chHHHHHhhhccccCCCCCCcCchHHHHHHHHHHHHh
Q psy10709        263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQ  299 (348)
Q Consensus       263 CG~~FreAFsCF~~S~~e~kg~dC~e~F~~mq~Cm~~  299 (348)
                      |+.+|+..+.|+..+..+  .+.|.+.+.++++|+++
T Consensus         1 C~~e~~~~~~Cl~~n~~~--~~~C~~~~~~~~~C~~~   35 (35)
T PF06747_consen    1 CAEEMKAYLACLKENNFD--WSKCRKEFKAYKECRMK   35 (35)
T ss_dssp             THHHHHHHHHHHHCH-SS--TCCCHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHHCCCc--HHhhHHHHHHHHHHhhC
Confidence            899999999999998875  89999999999999863

Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.

>PF07802 GCK: GCK domain; InterPro: IPR012891 This domain is found in proteins carrying other domains known to be involved in intracellular signalling pathways (such as IPR001806 from INTERPRO) indicating that it might also be involved in these pathways

Probab=95.26  E-value=0.03  Score=45.36  Aligned_cols=44  Identities=18%  Similarity=0.103  Sum_probs=35.9

Q ss_pred             CCCCCCchHhhhhhhccccc---CCCCCCcchhhHHHHHHHHHHHhh
Q psy10709         53 GMATGPCGVQFREAFSCFHY---STDEPKGDLRSTKSRATTILMCDG   96 (348)
Q Consensus        53 ~m~~gpCG~~Fr~AfsCf~~---s~~e~kg~~c~~~f~~~~~~m~~~   96 (348)
                      =|..|||++.|..-..|.--   +.++-...+|.+.|.+|..||-.|
T Consensus         8 FMkgG~Cke~F~awe~C~~ea~~~~~~d~v~kC~e~~~~L~kCM~ah   54 (76)
T PF07802_consen    8 FMKGGGCKESFTAWEDCVDEAEKNKEEDFVEKCFEATAALRKCMEAH   54 (76)
T ss_pred             HhcCCChhHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhc
Confidence            48999999999999999942   333345579999999999999754

It has 4 highly conserved cysteine residues, suggesting that it can bind zinc ions. Moreover, it is found repeated in some members of this family (such as Q9LMF3 from SWISSPROT); this may indicate that these domains are able to interact with one another, raising the possibility that this domain mediates heterodimerisation.

>PF06747 CHCH: CHCH domain; InterPro: IPR010625 A conserved motif was identified in the LOC118487 protein was called the CHCH motif

Probab=94.63  E-value=0.02  Score=38.41  Aligned_cols=34  Identities=9%  Similarity=0.149  Sum_probs=31.0

Q ss_pred             chHhhhhhhcccccCCCCCCcchhhHHHHHHHHHHH
Q psy10709         59 CGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMC   94 (348)
Q Consensus        59 CG~~Fr~AfsCf~~s~~e~kg~~c~~~f~~~~~~m~   94 (348)
                      |+.+|+..+.|+..+..+  .+.|.+.+.++.+|+.
T Consensus         1 C~~e~~~~~~Cl~~n~~~--~~~C~~~~~~~~~C~~   34 (35)
T PF06747_consen    1 CAEEMKAYLACLKENNFD--WSKCRKEFKAYKECRM   34 (35)
T ss_dssp             THHHHHHHHHHHHCH-SS--TCCCHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHCCCc--HHhhHHHHHHHHHHhh
Confidence            899999999999999886  8999999999999985

Alignment of this protein with related members showed the presence of three subgroups of proteins, which are called the S (Small), N (N-terminal extended) and C (C-terminal extended) subgroups. All three sub-groups of proteins have in common that they contain a predicted conserved [coiled coil 1]-[helix 1]-[coiled coil 2]-[helix 2] domain (CHCH domain). Within each helix of the CHCH domain, there are two cysteines present in a C-X9-C motif. The N-group contains an additional double helix domain, and each helix contains the C-X9-C motif. This family contains a number of characterised proteins: Cox19 protein - a nuclear gene of Saccharomyces cerevisiae, codes for an 11 kDa protein (Cox19p) required for expression of cytochrome oxidase. Because cox19 mutants are able to synthesise the mitochondrial and nuclear gene products of cytochrome oxidase, Cox19p probably functions post-translationally during assembly of the enzyme. Cox19p is present in the cytoplasm and mitochondria, where it exists as a soluble intermembrane protein. This dual location is similar to what was previously reported for Cox17p, a low molecular weight copper protein thought to be required for maturation of the CuA centre of subunit 2 of cytochrome oxidase. Cox19p have four conserved potential metal ligands, these are three cysteines and one histidine. Mrp10 - belongs to the class of yeast mitochondrial ribosomal proteins that are essential for translation []. Eukaryotic NADH-ubiquinone oxidoreductase 19 kDa (NDUFA8) subunit []. The CHCH domain was previously called DUF657 []. ; PDB: 2ZXT_A 3A3C_A 2L0Y_A 2K3J_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	348
2k3j_A	146	The Solution Structure Of Human Mia40 Length = 146		2e-27
2l0y_A	146	Complex Hmia40-Hcox17 Length = 146		2e-26
2zxt_A	465	Crystal Structure Of Tim40MIA40, A DISULFIDE RELAY		7e-20
3a3c_A	451	Crystal Structure Of Tim40MIA40 FUSING MBP, C296S A		4e-18

>pdb|2K3J|A Chain A, The Solution Structure Of Human Mia40 Length = 146

Iteration: 1
 Score =  119 bits (298), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 56/104 (53%), Positives = 68/104 (65%), Gaps = 5/104 (4%)
Query: 208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
           C++EGKD IIF TKEDH     A                   +G+INWNCPCLGGMA+GP
Sbjct: 8   CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMASGP 67
Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           CG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 68  CGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 111

>pdb|2L0Y|A Chain A, Complex Hmia40-Hcox17 Length = 146

Iteration: 1
 Score =  116 bits (290), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/104 (52%), Positives = 67/104 (64%), Gaps = 5/104 (4%)
Query: 208 CQREGKDFIIFATKEDH-----AXXXXXXXXXXXXXXXXXXXDGSINWNCPCLGGMATGP 262
           C++EGKD IIF TKEDH     A                   +G+INWN PCLGGMA+GP
Sbjct: 8   CRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNSPCLGGMASGP 67
Query: 263 CGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQ 306
           CG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q
Sbjct: 68  CGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQ 111

>pdb|2ZXT|A Chain A, Crystal Structure Of Tim40MIA40, A DISULFIDE RELAY SYSTEM IN Mitochondria, Solved As Mbp Fusion Protein Length = 465

Iteration: 1
 Score = 94.7 bits (234), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 38/61 (62%), Positives = 46/61 (75%)
Query: 246 GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK 305
           G INW+CPCLGGMA GPCG +F+ AFSCF YS  EPKG++C E F+ MQDC  +YP  Y 
Sbjct: 390 GEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFRKYPEHYA 449
Query: 306 Q 306
           +
Sbjct: 450 E 450

>pdb|3A3C|A Chain A, Crystal Structure Of Tim40MIA40 FUSING MBP, C296S AND C298S Mutant Length = 451

Iteration: 1
 Score = 88.6 bits (218), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 36/61 (59%), Positives = 44/61 (72%)
Query: 246 GSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYK 305
           G INW+ P LGGMA GPCG +F+ AFSCF YS  EPKG++C E F+ MQDC  +YP  Y 
Sbjct: 388 GEINWDSPSLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFRKYPEHYA 447
Query: 306 Q 306
           +
Sbjct: 448 E 448

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	348
2k3j_A	146	Mitochondrial intermembrane space import and assem	6e-52
2k3j_A	146	Mitochondrial intermembrane space import and assem	2e-34
2zxt_A	465	Maltose-binding periplasmic protein, linker, MITO	1e-27
2zxt_A	465	Maltose-binding periplasmic protein, linker, MITO	3e-16
2av5_A	120	Ribonuclease P protein component 2; hydrolase; 3.1	1e-05
2czv_C	120	Ribonuclease P protein component 2; RNA binding pr	4e-05

>2k3j_A Mitochondrial intermembrane space import and assembly protein 40; alpha-hairpin fold, coiled coil-helix-coiled coil-helix domain; NMR {Homo sapiens} PDB: 2l0y_A Length = 146

 Score =  168 bits (425), Expect = 6e-52
 Identities = 76/144 (52%), Positives = 98/144 (68%), Gaps = 5/144 (3%)

Query: 202 TLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLG 256
           + TMS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G+INWNCPCLG
Sbjct: 2   SFTMSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLG 61

Query: 257 GMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLDD 316
           GMA+GPCG QF+ AFSCFHYST+E KG +C + F+ MQ+CM +YP LY Q D+D+E+  +
Sbjct: 62  GMASGPCGEQFKSAFSCFHYSTEEIKGSDCVDQFRAMQECMQKYPDLYPQEDEDEEEERE 121

Query: 317 DVKDVSIRKEAQEKADRIIEQADS 340
                   + A  +A    E+  S
Sbjct: 122 KKPAEQAEETAPIEATATKEEEGS 145

>2k3j_A Mitochondrial intermembrane space import and assembly protein 40; alpha-hairpin fold, coiled coil-helix-coiled coil-helix domain; NMR {Homo sapiens} PDB: 2l0y_A Length = 146

 Score =  123 bits (308), Expect = 2e-34
 Identities = 57/84 (67%), Positives = 66/84 (78%), Gaps = 5/84 (5%)

Query: 1  MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMA 55
          MS C++EGKD IIF TKEDH  PSS EL   +P     + GLILP+G+INWNCPCLGGMA
Sbjct: 5  MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMA 64

Query: 56 TGPCGVQFREAFSCFHYSTDEPKG 79
          +GPCG QF+ AFSCFHYST+E KG
Sbjct: 65 SGPCGEQFKSAFSCFHYSTEEIKG 88

>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane space import AND...; disulfide bond, alpha helix, fusion, sugar transport; HET: MAL; 3.00A {Escherichia coli} Length = 465

 Score =  111 bits (280), Expect = 1e-27
 Identities = 44/86 (51%), Positives = 54/86 (62%), Gaps = 3/86 (3%)

Query: 236 EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQD 295
            P+       G INW+CPCLGGMA GPCG +F+ AFSCF YS  EPKG++C E F+ MQD
Sbjct: 380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQD 439

Query: 296 CMAQYPTLYKQ---NDDDDEDLDDDV 318
           C  +YP  Y +      DDE+  D V
Sbjct: 440 CFRKYPEHYAEQLKETSDDEEPQDKV 465

>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane space import AND...; disulfide bond, alpha helix, fusion, sugar transport; HET: MAL; 3.00A {Escherichia coli} Length = 465

 Score = 78.7 bits (194), Expect = 3e-16
 Identities = 29/48 (60%), Positives = 33/48 (68%)

Query: 32  EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKG 79
            P+       G INW+CPCLGGMA GPCG +F+ AFSCF YS  EPKG
Sbjct: 380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKG 427

>2av5_A Ribonuclease P protein component 2; hydrolase; 3.15A {Pyrococcus furiosus} SCOP: d.58.59.1 Length = 120

 Score = 43.2 bits (102), Expect = 1e-05
 Identities = 12/55 (21%), Positives = 18/55 (32%)

Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTS 191
              A     L+KF+      I+R   +    +  SLT     N + A       S
Sbjct: 49  LGTAKAKPWLIKFDETTQTGIIRSDRNHVYDVIFSLTLVSDINGNKAIIKVLGVS 103

>2czv_C Ribonuclease P protein component 2; RNA binding protein, RNA recognition motif, protein-protein complex, hydrolase; HET: BOG; 2.00A {Pyrococcus horikoshii} SCOP: d.58.59.1 Length = 120

 Score = 41.6 bits (98), Expect = 4e-05
 Identities = 13/55 (23%), Positives = 20/55 (36%)

Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTS 191
              A V   L+KF+P     I+R    +   L+ +L     +N       T   S
Sbjct: 49  TGTAIVKPWLIKFDPNTKTGIVRSDREYVEYLRFALMLVSEFNGKRLIIRTLGVS 103

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	348
2k3j_A	146	Mitochondrial intermembrane space import and assem	100.0
2k3j_A	146	Mitochondrial intermembrane space import and assem	100.0
2zxt_A	465	Maltose-binding periplasmic protein, linker, MITO	99.96
2zxt_A	465	Maltose-binding periplasmic protein, linker, MITO	99.91
2czv_C	120	Ribonuclease P protein component 2; RNA binding pr	99.48
2av5_A	120	Ribonuclease P protein component 2; hydrolase; 3.1	99.46

>2k3j_A Mitochondrial intermembrane space import and assembly protein 40; alpha-hairpin fold, coiled coil-helix-coiled coil-helix domain; NMR {Homo sapiens} PDB: 2l0y_A

Probab=100.00  E-value=7.9e-51  Score=353.44  Aligned_cols=114  Identities=63%  Similarity=1.245  Sum_probs=64.9

Q ss_pred             cccchhhhccCCceEEEeccccccCCCCCcCCCCCC-----CCCCCCCCCceeecCCccCCCCCCCchHHHHHhhhcccc
Q psy10709        202 TLTMSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHY  276 (348)
Q Consensus       202 ~~~ms~~~~egKD~vifvTkEd~~~ps~~el~~~dp-----~~G~~~P~GeINwdCPClggMa~GPCG~~FreAFsCF~~  276 (348)
                      .|+|||||++|||+|||+|||||++|++++|++++|     ++|+++|||+|||+|||||||++||||++||+||+||+|
T Consensus         2 ~~~msy~r~~gKD~Vif~TkEe~~~ps~~el~~~d~~~~~~~~g~~~p~GeINwdCPClggma~GPCG~eFreAfsCF~~   81 (146)
T 2k3j_A            2 SFTMSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMASGPCGEQFKSAFSCFHY   81 (146)
T ss_dssp             -------------------------------------------CCBCTTSSBCTTSHHHHHHTSSSTHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhcCceEEEeCHHHhcCcccccccCCCCCcccccCCccCCCCceeecCCcccccCCCCcHHHHHHHHHhhcc
Confidence            379999999999999999999999999999988775     579999999999999999999999999999999999999


Q ss_pred             CCCCCCcCchHHHHHHHHHHHHhChhhhCCCCCCCCCCC
Q psy10709        277 STDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDLD  315 (348)
Q Consensus       277 S~~e~kg~dC~e~F~~mq~Cm~~~P~~Y~~~~~~~~~~~  315 (348)
                      |++++||+||+++|++||+||++||++|++++++++...
T Consensus        82 S~~e~Kg~dC~e~F~~mq~Cm~~~P~~y~~~~~~~~~~~  120 (146)
T 2k3j_A           82 STEEIKGSDCVDQFRAMQECMQKYPDLYPQEDEDEEEER  120 (146)
T ss_dssp             HCCSSTTTTTHHHHHHHHHHHHHCSSCC-----------
T ss_pred             CccccccchHHHHHHHHHHHHHHChHhhccccccccccc
Confidence            999999999999999999999999999999777655543

>2k3j_A Mitochondrial intermembrane space import and assembly protein 40; alpha-hairpin fold, coiled coil-helix-coiled coil-helix domain; NMR {Homo sapiens} PDB: 2l0y_A

Probab=100.00  E-value=8.3e-45  Score=315.72  Aligned_cols=105  Identities=57%  Similarity=0.991  Sum_probs=62.1

Q ss_pred             CccccccCCceEEEeccCCCCCCCCCCCCCCCC-----CCCCCCCCCcccccCCccCCCCCCCchHhhhhhhcccccCCC
Q psy10709          1 MSTCQREGKDFIIFATKEDHAIPSSVELPPPEP-----QPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTD   75 (348)
Q Consensus         1 m~~~~~e~KD~iif~tkE~~~~p~~~el~~~~~-----~~g~~~p~G~inw~CpClg~m~~gpCG~~Fr~AfsCf~~s~~   75 (348)
                      |||||++|||+|||+|||||++|++++|+++++     ++|+++|||+|||+|||||||++||||++||+||+||+||++
T Consensus         5 msy~r~~gKD~Vif~TkEe~~~ps~~el~~~d~~~~~~~~g~~~p~GeINwdCPClggma~GPCG~eFreAfsCF~~S~~   84 (146)
T 2k3j_A            5 MSYCRQEGKDRIIFVTKEDHETPSSAELVADDPNDPYEEHGLILPNGNINWNCPCLGGMASGPCGEQFKSAFSCFHYSTE   84 (146)
T ss_dssp             ----------------------------------------CCBCTTSSBCTTSHHHHHHTSSSTHHHHHHHHHHHHHHCC
T ss_pred             hhhhhhhcCceEEEeCHHHhcCcccccccCCCCCcccccCCccCCCCceeecCCcccccCCCCcHHHHHHHHHhhccCcc
Confidence            899999999999999999999999999976554     579999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHHHhhhcccchhhhhhhH
Q psy10709         76 EPKGDLRSTKSRATTILMCDGVLKSNETFKDWLS  109 (348)
Q Consensus        76 e~kg~~c~~~f~~~~~~m~~~~~~~~e~~~d~~~  109 (348)
                      ++||+||+++|++|+.||++    ||+.|.+++.
T Consensus        85 e~Kg~dC~e~F~~mq~Cm~~----~P~~y~~~~~  114 (146)
T 2k3j_A           85 EIKGSDCVDQFRAMQECMQK----YPDLYPQEDE  114 (146)
T ss_dssp             SSTTTTTHHHHHHHHHHHHH----CSSCC-----
T ss_pred             ccccchHHHHHHHHHHHHHH----ChHhhccccc
Confidence            99999999999999988864    6777766543

>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane space import AND...; disulfide bond, alpha helix, fusion, sugar transport; HET: MAL; 3.00A {Escherichia coli}

Probab=99.96  E-value=1.1e-30  Score=250.21  Aligned_cols=80  Identities=50%  Similarity=1.091  Sum_probs=72.1

Q ss_pred             CCCCCCCCCCCCceeecCCccCCCCCCCchHHHHHhhhccccCCCCCCcCchHHHHHHHHHHHHhChhhhCCCCCCCCCC
Q psy10709        235 PEPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGVNCFEAFKTMQDCMAQYPTLYKQNDDDDEDL  314 (348)
Q Consensus       235 ~dp~~G~~~P~GeINwdCPClggMa~GPCG~~FreAFsCF~~S~~e~kg~dC~e~F~~mq~Cm~~~P~~Y~~~~~~~~~~  314 (348)
                      ..++.|+++|||+|||+|||+++|++||||++||+||+||++|++++||+||+++|++||+||++||++|++++.+++|+
T Consensus       379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~  458 (465)
T 2zxt_A          379 GRPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFRKYPEHYAEQLKETSDD  458 (465)
T ss_dssp             TTGGGGEETTTTEECTTCGGGTTTTSSTTHHHHHHHHHHHHHCCSSSTTGGGHHHHHHHHHHHTTCTTTCCCCCC-----
T ss_pred             cccccCCCCCCCeeeecCCccccCCCCCchHHHHHHHHhhhcCccccccchHHHHHHHHHHHHHHCHHHHHHhhhhhhhc
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999988766554

>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane space import AND...; disulfide bond, alpha helix, fusion, sugar transport; HET: MAL; 3.00A {Escherichia coli}

Probab=99.91  E-value=4.4e-26  Score=218.30  Aligned_cols=73  Identities=45%  Similarity=0.833  Sum_probs=67.0

Q ss_pred             CCCCCCCCCCCcccccCCccCCCCCCCchHhhhhhhcccccCCCCCCcchhhHHHHHHHHHHHhhhcccchhhhhhh
Q psy10709         32 EPQPGLILPDGSINWNCPCLGGMATGPCGVQFREAFSCFHYSTDEPKGDLRSTKSRATTILMCDGVLKSNETFKDWL  108 (348)
Q Consensus        32 ~~~~g~~~p~G~inw~CpClg~m~~gpCG~~Fr~AfsCf~~s~~e~kg~~c~~~f~~~~~~m~~~~~~~~e~~~d~~  108 (348)
                      .++.|+++|||+|||+|||+++|++||||++||+|||||++|++|+||++|+++|++||.||+    +||++|.+.|
T Consensus       380 ~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~----~~~~~~~~~~  452 (465)
T 2zxt_A          380 RPEFAYNPDTGEINWDCPCLGGMAHGPCGEEFKSAFSCFVYSEAEPKGIDCVEKFQHMQDCFR----KYPEHYAEQL  452 (465)
T ss_dssp             TGGGGEETTTTEECTTCGGGTTTTSSTTHHHHHHHHHHHHHCCSSSTTGGGHHHHHHHHHHHT----TCTTTCCCCC
T ss_pred             ccccCCCCCCCeeeecCCccccCCCCCchHHHHHHHHhhhcCccccccchHHHHHHHHHHHHH----HCHHHHHHhh
Confidence            357799999999999999999999999999999999999999999999999999999998886    5677777763

>2czv_C Ribonuclease P protein component 2; RNA binding protein, RNA recognition motif, protein-protein complex, hydrolase; HET: BOG; 2.00A {Pyrococcus horikoshii} SCOP: d.58.59.1

Probab=99.48  E-value=1.5e-14  Score=120.38  Aligned_cols=65  Identities=22%  Similarity=0.249  Sum_probs=60.4

Q ss_pred             ccccccc-cceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        136 YYTGAGV-PIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       136 ~~VGaal-~vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      +++|++. .++|+||+++|.++||||++++++.+|+||||++++++.||+|+|++||+|+++....
T Consensus        47 Gd~G~~~~~~~v~~f~~~t~~~IiRc~r~~~~~v~aaLtli~~i~~~~~~~~vl~vSGTIr~~~~k  112 (120)
T 2czv_C           47 GETGTAIVKPWLIKFDPNTKTGIVRSDREYVEYLRFALMLVSEFNGKRLIIRTLGVSGTIKRLKRK  112 (120)
T ss_dssp             HHHHHHHHCCEEEEEETTTTEEEEEEEGGGHHHHHHHHHTCCEETTEECEEEEEEEESSHHHHHHH
T ss_pred             CcchhhccCceEEEEcCCCCEEEEEeCchhHHHHHHHHHhHhhCCCEEEEEEEeEEChhHHHHHHH
Confidence            5666665 7899999999999999999999999999999999999999999999999999998854

>2av5_A Ribonuclease P protein component 2; hydrolase; 3.15A {Pyrococcus furiosus} SCOP: d.58.59.1

Probab=99.46  E-value=2.8e-14  Score=118.56  Aligned_cols=65  Identities=20%  Similarity=0.148  Sum_probs=60.0

Q ss_pred             ccccccc-cceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        136 YYTGAGV-PIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       136 ~~VGaal-~vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      +++|++. .++|+||++.|+++||||++++++.+|+||||++++++.||+|+|++||+|+++....
T Consensus        47 Gd~G~~~~~~~v~~f~~~t~~~IiRc~r~~~~~v~aaLtli~~i~~~~~~~~vl~vSGTIr~~~~k  112 (120)
T 2av5_A           47 GELGTAKAKPWLIKFDETTQTGIIRSDRNHVYDVIFSLTLVSDINGNKAIIKVLGVSGTIKRLKRK  112 (120)
T ss_dssp             HHHHHHHHCCEEEEEETTTTEEEEEEEGGGHHHHHHHHHTCCEETTEEEEEEEEEEESSHHHHHHH
T ss_pred             CcccccccCccEEEEcCCCCEEEEEeCchhHHHHHHHHHHHhhCCCEEEEEEEeEEchhHHHHHHH
Confidence            5666665 5899999999999999999999999999999999999999999999999999998854

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	348
d2czvc1	118	d.58.59.1 (C:3-120) RNase P protein component 2, R	1e-08
d2av5a1	106	d.58.59.1 (A:15-120) RNase P protein component 2,	1e-08

>d2czvc1 d.58.59.1 (C:3-120) RNase P protein component 2, Rnp2 {Pyrococcus horikoshii [TaxId: 53953]} Length = 118

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Rnp2-like
family: Rpp14/Pop5-like
domain: RNase P protein component 2, Rnp2
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 50.5 bits (121), Expect = 1e-08
 Identities = 15/75 (20%), Positives = 25/75 (33%), Gaps = 11/75 (14%)

Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLN 196
              A V   L+KF+P     I+R    +   L+ +L     +N       T   S     
Sbjct: 47  TGTAIVKPWLIKFDPNTKTGIVRSDREYVEYLRFALMLVSEFNGKRLIIRTLGVSG---- 102

Query: 197 LLSRLTLTMSTCQRE 211
                  T+   +R+
Sbjct: 103 -------TIKRLKRK 110

>d2av5a1 d.58.59.1 (A:15-120) RNase P protein component 2, Rnp2 {Pyrococcus furiosus [TaxId: 2261]} Length = 106

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Rnp2-like
family: Rpp14/Pop5-like
domain: RNase P protein component 2, Rnp2
species: Pyrococcus furiosus [TaxId: 2261]

 Score = 49.7 bits (119), Expect = 1e-08
 Identities = 14/75 (18%), Positives = 23/75 (30%), Gaps = 11/75 (14%)

Query: 137 YTGAGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLN 196
              A     L+KF+      I+R   +    +  SLT     N + A       S     
Sbjct: 35  LGTAKAKPWLIKFDETTQTGIIRSDRNHVYDVIFSLTLVSDINGNKAIIKVLGVSG---- 90

Query: 197 LLSRLTLTMSTCQRE 211
                  T+   +R+
Sbjct: 91  -------TIKRLKRK 98

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	348
d2av5a1	106	RNase P protein component 2, Rnp2 {Pyrococcus furi	99.38
d2czvc1	118	RNase P protein component 2, Rnp2 {Pyrococcus hori	99.35

>d2av5a1 d.58.59.1 (A:15-120) RNase P protein component 2, Rnp2 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Rnp2-like
family: Rpp14/Pop5-like
domain: RNase P protein component 2, Rnp2
species: Pyrococcus furiosus [TaxId: 2261]

Probab=99.38  E-value=1.1e-13  Score=110.92  Aligned_cols=64  Identities=20%  Similarity=0.137  Sum_probs=59.0

Q ss_pred             ccccc-cccceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhcc
Q psy10709        136 YYTGA-GVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLS  199 (348)
Q Consensus       136 ~~VGa-al~vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~  199 (348)
                      +.+|+ +..++|++|++.|.++||||+++.++.+|+||||++++++.||.|+|+.||+||++...
T Consensus        33 Gd~G~~~~~l~v~y~~~~t~~~IlR~~r~~~~~v~aaL~li~~i~~~~~~~~vl~vSGTik~~~~   97 (106)
T d2av5a1          33 GELGTAKAKPWLIKFDETTQTGIIRSDRNHVYDVIFSLTLVSDINGNKAIIKVLGVSGTIKRLKR   97 (106)
T ss_dssp             HHHHHHHHCCEEEEEETTTTEEEEEEEGGGHHHHHHHHHTCCEETTEEEEEEEEEEESSHHHHHH
T ss_pred             ChhhhccCCceEEEEeCCCCEEEEEeccHhHHHHHHHHHHHHhcCCEEEEEEEEEeeHHHHHHHH
Confidence            55664 35689999999999999999999999999999999999999999999999999998864

>d2czvc1 d.58.59.1 (C:3-120) RNase P protein component 2, Rnp2 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: Rnp2-like
family: Rpp14/Pop5-like
domain: RNase P protein component 2, Rnp2
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.35  E-value=2e-13  Score=111.24  Aligned_cols=65  Identities=25%  Similarity=0.235  Sum_probs=59.4

Q ss_pred             cccc-ccccceeEeeccccceEEEEecCcchhHHHHhhhhcccccCcceEEEEEeecchhhhhccc
Q psy10709        136 YYTG-AGVPIDLLKFNPAQTRAILRCPASFFIKLQTSLTTCGYYNNHPARFITHRTSPCLLNLLSR  200 (348)
Q Consensus       136 ~~VG-aal~vDVLkfs~at~raILRVps~~~vkLWSALTLig~yq~~pC~FrV~qVSptLL~L~~~  200 (348)
                      +++| |+..++|++|++.|.++||||+++.++.+|+|||+++++++.||+|+|+.||+|+++....
T Consensus        45 Gd~G~~~~~~~v~y~~~~t~~~IiR~~r~~~~~v~aaL~li~~i~~~~~~i~vl~vSGTIk~~~~k  110 (118)
T d2czvc1          45 GETGTAIVKPWLIKFDPNTKTGIVRSDREYVEYLRFALMLVSEFNGKRLIIRTLGVSGTIKRLKRK  110 (118)
T ss_dssp             HHHHHHHHCCEEEEEETTTTEEEEEEEGGGHHHHHHHHHTCCEETTEECEEEEEEEESSHHHHHHH
T ss_pred             CccceeeeceeEEEEcCCCCEEEEEecchhHHHHHHHHHHHhhcCCEeEEEEEEEecHHHHHHHHH
Confidence            5556 3467899999999999999999999999999999999999999999999999999988653