Citrus Sinensis ID: 017680

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------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-------350-------360-------37

MEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

cccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHcccccccccHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccEEEEcccccHHHHHHHHHHccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHccHHHHHHHHHHHHHHHHcccEEEcEEEEEEEEEEEEEEEcccccEEEEEEEEEEEEEEEcccccEEccccccEEEEEEEEEEEEEcccccccccccccEEEEEEEcccccccc

ccHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHccHHHccccccccccHHHHHHHHccccccHHHHHHHHHHHHHccccccccHHccccccccHHHHHccccccccEEEccccccccEEEccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcHHHHHHHHHHHHHHHHcccccccEEEEEccEEEEEEEEcccccEEEEEEEEEEEEEEEcccccEEEcccHHEEEEEEEEEEEEccccccccccccccHHHHHHHHcccHHcc

MEAESTVKKVSASMKEKISAATEEVkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssDTAETFYGKlkssisspKFTLAFQKLKEAKVVDLAKKGYDivkdelsgspskrkhleytpspswtgekstrtdlvvtpskKSMWSKLKEKmqgypvfkritgisepvvtkgQEIAEDVRERwetsdnpivhKIQDMNETIFQETDAAASIKEirrrdpsfslpdfVSEVQEAIRPVLSAYMKGDVEtlkkycspeviERCKAEHTAYqshgiffdnrilhvSEVEVRetkmmgssPIIIVAFQTQQiycvrdkhgtiteggkdTIQTVYYAWAMQQVDAeelgedvlypIWKLREMQQLGVQALI

meaestvkkvsasMKEKisaateevkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssdtaETFYGklkssisspKFTLAFQKLKEAKVVDLAKKGYDIVkdelsgspskrkhleytpspswtgekstrtdlvvtpskksmwskLKEKMQGYPVfkritgisepvvtkgqeIAEDVrerwetsdnpivHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYqshgiffdnriLHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

********************************************************************************KFTLAFQKLKEAKVVDLAKKGYDIV************************************************MQGYPVFKRITGISEPVVTKGQEIAEDVRERWET*DNPIVHKIQDMNETIFQ******************SLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQL******

****************************************************************************************************************************************************************K*************************TSDNPIVHKIQDMNE**FQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLG*QALI

******************SAATEEVKGTFRTGSTDTSAKHDDDVRDGF****************TAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

****************KISAATEEVKGTFRTGSTDTSAKH*****************************************FTLAFQKLKEAKVVDLAKKGYDIVK****************************TDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGV****

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		368	2.2.26 [Sep-21-2011]
Q5XF06		469	Mitochondrial import inne	yes	no	0.975	0.765	0.663	1e-144
Q1PF33		474	Mitochondrial import inne	no	no	0.983	0.763	0.625	1e-135
O35857		452	Mitochondrial import inne	yes	no	0.478	0.389	0.276	1e-18
O43615		452	Mitochondrial import inne	yes	no	0.478	0.389	0.276	3e-18
O35094		453	Mitochondrial import inne	yes	no	0.478	0.388	0.271	4e-18
O60084		427	Mitochondrial import inne	yes	no	0.448	0.386	0.295	6e-16
Q01852		431	Mitochondrial import inne	yes	no	0.480	0.410	0.295	6e-15
O02161		425	Probable mitochondrial im	yes	no	0.480	0.416	0.251	8e-11

>sp\|Q5XF06\|TI442_ARATH Mitochondrial import inner membrane translocase subunit TIM44-2 OS=Arabidopsis thaliana GN=TIM44-2 PE=1 SV=1	Back alignment and function desciption

 Score =  511 bits (1317), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 246/371 (66%), Positives = 303/371 (81%), Gaps = 12/371 (3%)

Query: 2   EAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTV 61
           EAES  KKVS+S+K+K SAATEEVK +F+ G  +++         G   + GE++Q+Q+ 
Sbjct: 107 EAESVAKKVSSSVKDKFSAATEEVKESFKLGKEESAESA---SSSGTGTTEGEKQQQQSG 163

Query: 62  SSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEY 121
           S++  +TF+GK KSSISSPK + AF K      +D AKKG DIVKDEL G+PSKRKHLEY
Sbjct: 164 STEEQDTFFGKFKSSISSPKLSEAFHK-----PLDFAKKGLDIVKDELRGNPSKRKHLEY 218

Query: 122 TPSPSWTGEKSTRTDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEPVVTKGQEI 177
           TP P +TGE+STRT++V+ P+K+S W K    L+EKMQGYPVFKR++G+SEPVV K QEI
Sbjct: 219 TPPPPFTGERSTRTEMVIMPTKQSKWQKKWESLREKMQGYPVFKRLSGMSEPVVNKSQEI 278

Query: 178 AEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIR 237
           AEDVRE+WETSDNPIVHKIQDMNE IF+ET +A++ KEIRRRDPSFSLPDFVSE+QEAIR
Sbjct: 279 AEDVREKWETSDNPIVHKIQDMNERIFEETGSASTYKEIRRRDPSFSLPDFVSEIQEAIR 338

Query: 238 PVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGS 297
           PVL+AY KGD +TLKKYCS E+IERC AEH A+ S G FFD+++LHVSEV+++ETKMMG+
Sbjct: 339 PVLNAYSKGDAKTLKKYCSKELIERCTAEHRAFTSQGYFFDHKLLHVSEVDIQETKMMGT 398

Query: 298 SPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLR 357
           +P+IIV FQTQ+I+CVRD+ G I EGG+DTI TVYY WAMQQVDA ELGED +YPIW+LR
Sbjct: 399 TPVIIVRFQTQEIFCVRDQDGKIKEGGQDTIHTVYYDWAMQQVDAAELGEDAIYPIWRLR 458

Query: 358 EMQQLGVQALI 368
           EM + GVQALI
Sbjct: 459 EMLRAGVQALI 469

Essential component of the PAM complex, a complex required for the translocation of transit peptide-containing proteins from the inner membrane into the mitochondrial matrix in an ATP-dependent manner. Recruits mitochondrial HSP70 to drive protein translocation into the matrix using ATP as an energy source.
Arabidopsis thaliana (taxid: 3702)

>sp\|Q1PF33\|TI441_ARATH Mitochondrial import inner membrane translocase subunit TIM44-1 OS=Arabidopsis thaliana GN=TIM44-1 PE=2 SV=1	Back alignment and function description

>sp\|O35857\|TIM44_MOUSE Mitochondrial import inner membrane translocase subunit TIM44 OS=Mus musculus GN=Timm44 PE=2 SV=2	Back alignment and function description

>sp\|O43615\|TIM44_HUMAN Mitochondrial import inner membrane translocase subunit TIM44 OS=Homo sapiens GN=TIMM44 PE=1 SV=2	Back alignment and function description

>sp\|O35094\|TIM44_RAT Mitochondrial import inner membrane translocase subunit TIM44 OS=Rattus norvegicus GN=Timm44 PE=2 SV=1	Back alignment and function description

>sp\|O60084\|TIM44_SCHPO Mitochondrial import inner membrane translocase subunit tim44 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=tim44 PE=3 SV=1	Back alignment and function description

>sp\|Q01852\|TIM44_YEAST Mitochondrial import inner membrane translocase subunit TIM44 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TIM44 PE=1 SV=1	Back alignment and function description

>sp\|O02161\|TIM44_CAEEL Probable mitochondrial import inner membrane translocase subunit tim-44 OS=Caenorhabditis elegans GN=tim-44 PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		368
225438141		485	PREDICTED: mitochondrial import inner me	0.994	0.754	0.736	1e-159
255567254		486	mitochondrial import inner membrane tran	0.997	0.755	0.737	1e-158
297744147		484	unnamed protein product [Vitis vinifera]	0.991	0.754	0.728	1e-155
224062145		484	predicted protein [Populus trichocarpa]	0.997	0.758	0.699	1e-154
224085633		485	predicted protein [Populus trichocarpa]	0.997	0.756	0.684	1e-146
42569661		469	translocase inner membrane subunit 44-2	0.975	0.765	0.663	1e-142
449526090		484	PREDICTED: uncharacterized protein LOC10	0.997	0.758	0.666	1e-140
356508140		473	PREDICTED: uncharacterized protein LOC10	0.970	0.754	0.663	1e-137
297827085		469	attim44-2 [Arabidopsis lyrata subsp. lyr	0.975	0.765	0.660	1e-137
297836804		477	mitochondrial import inner membrane tran	0.989	0.763	0.642	1e-136

>gi\|225438141\|ref\|XP_002278528.1\| PREDICTED: mitochondrial import inner membrane translocase subunit tim44-like [Vitis vinifera]	Back alignment and taxonomy information

 Score =  566 bits (1460), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 279/379 (73%), Positives = 321/379 (84%), Gaps = 13/379 (3%)

Query: 2   EAESTVKKVSASMKEKISAATEEVKGTFRTG------STDTSAKHDDDVRDGFKASSGEE 55
           EAE+T KKVSA++KEKISAATE+VK TF  G      S  TSAK + DV  G  +SSGEE
Sbjct: 108 EAEATAKKVSANVKEKISAATEDVKETFGKGKQEFSESAGTSAKSEADVNKG-SSSSGEE 166

Query: 56  KQKQTVSSDTAETFYGKLKSSIS--SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSP 113
           K  ++  SDTAET +GK KSS+S  SPK +LAF+KLKEAKV+DLAKKGY IVKDELS +P
Sbjct: 167 KHHKSGPSDTAETLFGKFKSSVSTVSPKVSLAFEKLKEAKVLDLAKKGYGIVKDELSSNP 226

Query: 114 SKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEP 169
           SKRK ++   S +  GE+ST+TD+V+ PSK+S WSK    LK+KMQG+PVFKRI+G+SEP
Sbjct: 227 SKRKQMQRAASSASPGERSTKTDIVIVPSKQSRWSKKWEALKDKMQGHPVFKRISGLSEP 286

Query: 170 VVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFV 229
           VVTKGQE+AEDVRERWETSDNP+VHKIQD+NE++F ET AA S KEIRRRDPSFSLPDFV
Sbjct: 287 VVTKGQELAEDVRERWETSDNPVVHKIQDLNESVFGETAAAMSFKEIRRRDPSFSLPDFV 346

Query: 230 SEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEV 289
           SEVQE IRPVL+AY+KGD ETLKKYCSPEVIERCKAEH AYQ+ GI FDN+ILH+S+VEV
Sbjct: 347 SEVQEVIRPVLNAYIKGDAETLKKYCSPEVIERCKAEHGAYQTMGIIFDNKILHISDVEV 406

Query: 290 RETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDV 349
           RETKMMG+SPIIIVAFQTQQ+YCVR   G+I EGGKDTI TVYYAWAMQQVDAEELGE  
Sbjct: 407 RETKMMGTSPIIIVAFQTQQVYCVRSADGSIKEGGKDTIHTVYYAWAMQQVDAEELGEGA 466

Query: 350 LYPIWKLREMQQLGVQALI 368
           +YPIW+LREMQQLGVQALI
Sbjct: 467 IYPIWRLREMQQLGVQALI 485

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255567254\|ref\|XP_002524608.1\| mitochondrial import inner membrane translocase subunit tim44, putative [Ricinus communis] gi\|223536161\|gb\|EEF37816.1\| mitochondrial import inner membrane translocase subunit tim44, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|297744147\|emb\|CBI37117.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224062145\|ref\|XP_002300777.1\| predicted protein [Populus trichocarpa] gi\|222842503\|gb\|EEE80050.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224085633\|ref\|XP_002307643.1\| predicted protein [Populus trichocarpa] gi\|222857092\|gb\|EEE94639.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|42569661\|ref\|NP_181151.3\| translocase inner membrane subunit 44-2 [Arabidopsis thaliana] gi\|75110963\|sp\|Q5XF06.1\|TI442_ARATH RecName: Full=Mitochondrial import inner membrane translocase subunit TIM44-2; Flags: Precursor gi\|53828527\|gb\|AAU94373.1\| At2g36070 [Arabidopsis thaliana] gi\|330254108\|gb\|AEC09202.1\| translocase inner membrane subunit 44-2 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|449526090\|ref\|XP_004170047.1\| PREDICTED: uncharacterized protein LOC101231997 [Cucumis sativus]	Back alignment and taxonomy information

>gi\|356508140\|ref\|XP_003522818.1\| PREDICTED: uncharacterized protein LOC100784560 [Glycine max]	Back alignment and taxonomy information

>gi\|297827085\|ref\|XP_002881425.1\| attim44-2 [Arabidopsis lyrata subsp. lyrata] gi\|297327264\|gb\|EFH57684.1\| attim44-2 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|297836804\|ref\|XP_002886284.1\| mitochondrial import inner membrane translocase subunit TIM44 [Arabidopsis lyrata subsp. lyrata] gi\|297332124\|gb\|EFH62543.1\| mitochondrial import inner membrane translocase subunit TIM44 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		368
TAIR\|locus:2039195		469	TIM44-2 "AT2G36070" [Arabidops	0.975	0.765	0.663	1.3e-130
TAIR\|locus:2054759		474	TIM44-1 "translocase inner mem	0.983	0.763	0.630	1.5e-122
FB\|FBgn0038683		459	CG11779 [Drosophila melanogast	0.861	0.690	0.250	1e-22
UNIPROTKB\|F1NU71		447	TIMM44 "Uncharacterized protei	0.896	0.738	0.243	1.6e-19
MGI\|MGI:1343262		452	Timm44 "translocase of inner m	0.915	0.745	0.257	1e-18
UNIPROTKB\|F1PSC7		454	TIMM44 "Uncharacterized protei	0.921	0.746	0.237	1e-18
UNIPROTKB\|O43615		452	TIMM44 "Mitochondrial import i	0.913	0.743	0.237	1.8e-18
UNIPROTKB\|E1B844		454	TIMM44 "Uncharacterized protei	0.915	0.742	0.235	6e-18
CGD\|CAL0005261		424	TIM44 [Candida albicans (taxid	0.491	0.426	0.321	1.1e-17
UNIPROTKB\|Q5A7M2		424	TIM44 "Putative uncharacterize	0.491	0.426	0.321	1.1e-17

TAIR\|locus:2039195 TIM44-2 "AT2G36070" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1281 (456.0 bits), Expect = 1.3e-130, P = 1.3e-130
 Identities = 246/371 (66%), Positives = 303/371 (81%)

Query:     2 EAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTV 61
             EAES  KKVS+S+K+K SAATEEVK +F+ G  +++         G   + GE++Q+Q+ 
Sbjct:   107 EAESVAKKVSSSVKDKFSAATEEVKESFKLGKEESAESASSS---GTGTTEGEKQQQQSG 163

Query:    62 SSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEY 121
             S++  +TF+GK KSSISSPK + AF K      +D AKKG DIVKDEL G+PSKRKHLEY
Sbjct:   164 STEEQDTFFGKFKSSISSPKLSEAFHK-----PLDFAKKGLDIVKDELRGNPSKRKHLEY 218

Query:   122 TPSPSWTGEKSTRTDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEPVVTKGQEI 177
             TP P +TGE+STRT++V+ P+K+S W K    L+EKMQGYPVFKR++G+SEPVV K QEI
Sbjct:   219 TPPPPFTGERSTRTEMVIMPTKQSKWQKKWESLREKMQGYPVFKRLSGMSEPVVNKSQEI 278

Query:   178 AEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIR 237
             AEDVRE+WETSDNPIVHKIQDMNE IF+ET +A++ KEIRRRDPSFSLPDFVSE+QEAIR
Sbjct:   279 AEDVREKWETSDNPIVHKIQDMNERIFEETGSASTYKEIRRRDPSFSLPDFVSEIQEAIR 338

Query:   238 PVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGS 297
             PVL+AY KGD +TLKKYCS E+IERC AEH A+ S G FFD+++LHVSEV+++ETKMMG+
Sbjct:   339 PVLNAYSKGDAKTLKKYCSKELIERCTAEHRAFTSQGYFFDHKLLHVSEVDIQETKMMGT 398

Query:   298 SPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLR 357
             +P+IIV FQTQ+I+CVRD+ G I EGG+DTI TVYY WAMQQVDA ELGED +YPIW+LR
Sbjct:   399 TPVIIVRFQTQEIFCVRDQDGKIKEGGQDTIHTVYYDWAMQQVDAAELGEDAIYPIWRLR 458

Query:   358 EMQQLGVQALI 368
             EM + GVQALI
Sbjct:   459 EMLRAGVQALI 469

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0015450 "P-P-bond-hydrolysis-driven protein transmembrane transporter activity" evidence=IEA

GO:0005744 "mitochondrial inner membrane presequence translocase complex" evidence=TAS

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

GO:0015462 "protein-transmembrane transporting ATPase activity" evidence=TAS

GO:0005743 "mitochondrial inner membrane" evidence=IDA

TAIR\|locus:2054759 TIM44-1 "translocase inner membrane subunit 44-1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

FB\|FBgn0038683 CG11779 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NU71 TIMM44 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

MGI\|MGI:1343262 Timm44 "translocase of inner mitochondrial membrane 44" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1PSC7 TIMM44 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|O43615 TIMM44 "Mitochondrial import inner membrane translocase subunit TIM44" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|E1B844 TIMM44 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

CGD\|CAL0005261 TIM44 [Candida albicans (taxid:5476)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5A7M2 TIM44 "Putative uncharacterized protein TIM44" [Candida albicans SC5314 (taxid:237561)]	Back alignment and assigned GO terms

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)
Q5XF06	TI442_ARATH	No assigned EC number	0.6630	0.9755	0.7654	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pm.C_LG_II0183	hypothetical protein (484 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	Alignment Graph	Length	Definition	E-value
Query		368
pfam04280		146	pfam04280, Tim44, Tim44-like domain	1e-45
smart00978		147	smart00978, Tim44, Tim44 is an essential component	8e-36
TIGR00984		378	TIGR00984, 3a0801s03tim44, mitochondrial import in	4e-24
COG4395		281	COG4395, COG4395, Uncharacterized protein conserve	2e-12

>gnl\|CDD\|202957 pfam04280, Tim44, Tim44-like domain	Back alignment and domain information

 Score =  152 bits (387), Expect = 1e-45
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 6/152 (3%)

Query: 210 AASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTA 269
           AA+++ I+  DPSF + +F+   +EA   +  A+ +GD+ETL++  +PEV E   A    
Sbjct: 1   AAALRAIKAADPSFDVEEFLEGAREAYEMIQEAWARGDLETLRELLTPEVYEEFAAAIAE 60

Query: 270 YQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQ 329
            ++ G+  D+ I+ + + E+ E KM G   ++ V F  Q I    D  G + EG  D   
Sbjct: 61  REAQGLTNDSTIVGIRDAELLEAKMEGDEAVVTVRFVAQLISVTDDASGEVVEGDPDEPV 120

Query: 330 TVYYAWAMQQVDAEELGEDVLYPIWKLREMQQ 361
            V   W  ++            P W+L  +QQ
Sbjct: 121 EVTEVWTFERDLGSP------DPNWRLVGIQQ 146

Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region. This family includes the C-terminal region of Tim44 that has been shown to form a stable proteolytic fragment in yeast. This region is also found in a set of smaller bacterial proteins. The molecular function of the bacterial members of this family is unknown but transport seems likely. The crystal structure of the C terminal of Tim44 has revealed a large hydrophobic pocket which might play an important role in interacting with the acyl chains of lipid molecules in the mitochondrial membrane. Length = 146

>gnl\|CDD\|214950 smart00978, Tim44, Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane	Back alignment and domain information

>gnl\|CDD\|130057 TIGR00984, 3a0801s03tim44, mitochondrial import inner membrane, translocase subunit	Back alignment and domain information

>gnl\|CDD\|226830 COG4395, COG4395, Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		368
KOG2580		459	consensus Mitochondrial import inner membrane tran	100.0
TIGR00984		378	3a0801s03tim44 mitochondrial import inner membrane	100.0
PF04280		147	Tim44: Tim44-like domain; InterPro: IPR007379 Tim4	100.0
COG4395		281	Uncharacterized protein conserved in bacteria [Fun	99.93
PF07961		235	MBA1: MBA1-like protein; InterPro: IPR024621 Mba1	98.47
PF13355		117	DUF4101: Protein of unknown function (DUF4101)	95.9
KOG4599		379	consensus Putative mitochondrial/chloroplast ribos	94.09
PF12870		111	Lumazine_bd: Lumazine-binding domain; InterPro: IP	90.76
KOG2580		459	consensus Mitochondrial import inner membrane tran	90.41
PF12893		116	Lumazine_bd_2: Putative lumazine-binding; PDB: 3BL	88.84
PF13474		121	SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE	87.71
PF08332		128	CaMKII_AD: Calcium/calmodulin dependent protein ki	85.93
PF14534		107	DUF4440: Domain of unknown function (DUF4440); PDB	82.88

>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

Probab=100.00  E-value=1.4e-76  Score=585.14  Aligned_cols=339  Identities=31%  Similarity=0.554  Sum_probs=301.7

Q ss_pred             cchhhhhhHHHHHHHHHHHHHhhhhhhccCccccCCCCCCcccccCccCchhhhhhhccccchhhhhhcccccccCcccc
Q 017680            3 AESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKF   82 (368)
Q Consensus         3 ~e~~~~k~s~~~k~k~~~~~~~~~e~~~~~k~e~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (368)
                      +|+++.++|..+|+++++++++||.+.    +|+++|+ .+  +|.+++.+|++++|+++|+.-++||+||+++.+.|.|
T Consensus       112 ~e~~t~~~s~~~kk~~~e~~e~~k~~~----~ea~eS~-~~--k~t~~~~~e~~kqA~~sae~vd~~~~kv~~T~~yk~v  184 (459)
T KOG2580|consen  112 AESETQASSEVLKKKLGELKETVKLGA----EEAWESA-LG--KKTKEAVEEAQKQASGSAEEVDTFFEKVGQTAAYKAV  184 (459)
T ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHH----HHHHhhh-hh--ccchhhHHHHHHHhhcchhhhhHhhhhhhhhhhHHHH
Confidence            689999999999999999999888877    8888777 44  6999999999999999999666666666666666666


Q ss_pred             hHHHHHhhhhhHHHHHhhhhhhhhhhccCCCCcccccCCCCCCCCCCCCCccceeEEecccchhhHH-HHHhhcCCcccc
Q 017680           83 TLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSK-LKEKMQGYPVFK  161 (368)
Q Consensus        83 ~~~~~~l~~~~~~~~~~~~~~~vk~e~~~~~~~rk~~~~~~~~~~~~e~~~~t~~~~~~~k~s~w~~-~k~~~~~~p~~~  161 (368)
                      |+.+..++  +-++.++.|..+||+++...++++++.+.++++++++|+|+. +.+|++|++|+||+ |++|+++|.+++
T Consensus       185 Se~~~~vk--k~~d~s~~g~~i~k~~~r~lr~r~~~~~~~~~~~~~~E~n~~-a~~vv~h~~skw~~kwe~fkek~~~~~  261 (459)
T KOG2580|consen  185 SEVMETVK--KEIDSSRYGLDIVKERPRKLRKRTEFLGDTFPSEKVGEPNEE-AEGVVLHKDSKWYQKWEDFKEKNVVVR  261 (459)
T ss_pred             HHHHHhhc--ccchhhhhhhhchhhhhhhchhhhhhhccCCCcccccCCCcc-eeeEEeccchHHHHHHHHHHhcccchH
Confidence            66666666  456666666666666666544455555566778889999887 67778899999999 999999999999


Q ss_pred             ccccccCccccccccchHHhhhhhcccccchhhhhhhc-------cccccccChHHHHHHHHHhcCCCCChhhHHHHHHH
Q 017680          162 RITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDM-------NETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQE  234 (368)
Q Consensus       162 ~~~~~~~p~~~k~~e~~~d~r~~~eeSdnP~v~~~~di-------~d~lf~ete~a~~l~eIk~~DP~Fd~~~Fl~~ar~  234 (368)
                      +|.               +|+..||+|+||+|+-++|+       .+++|.+|+.++++++|+++||+||.++||+.|++
T Consensus       262 k~~---------------~lk~~ydeseN~~i~~~rdvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Flr~~ee  326 (459)
T KOG2580|consen  262 KFQ---------------ELKKKYDESENPSIRASRDVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFLRECEE  326 (459)
T ss_pred             HHH---------------HHHhhccccccHHHHHHHHHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHHHHHHH
Confidence            999               99999999999999755554       44799999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeCCeeEEEEEEEEeEEEEE
Q 017680          235 AIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCV  313 (368)
Q Consensus       235 ~~~p-IleA~~~GDle~Lk~~cse~~y~~~~~~i~~r~~~G~~~d~kiL~I~~veL~~ak~~~~~pvitV~F~aQqI~~v  313 (368)
                      +|+| ||+||.+||+++||+||++++|++|++++++++++|+.+|++||||++|+|++++||+++|+|+|+|++|+|||+
T Consensus       327 ~IiPnVLeAyvkGD~evLK~wcsea~~~~~aa~~keykk~gv~~d~kILdI~~Vdia~~KmM~d~PVlIitFqaQeI~~v  406 (459)
T KOG2580|consen  327 YIIPNVLEAYVKGDLEVLKKWCSEAPFSQLAAPIKEYKKHGVYFDSKILDIRGVDIASGKMMEDGPVLIITFQAQEIMCV  406 (459)
T ss_pred             hhhHHHHHHHHhccHHHHHHHHhhhHHHHHHHHHHHHHhcCeeecceeeeeccchhHHhhhhccCCEEEEEEeeEEEEEE
Confidence            9999 999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EcCCCCeecCCCCceeEEEEEEEEEEecccccCCCCCCCCeEEeeeeccccccCC
Q 017680          314 RDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI  368 (368)
Q Consensus       314 RDk~GeVVeGd~d~i~~v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq~g~~a~~  368 (368)
                      ||.+|+|||||||+|++++|+|+|+ +|++||||+. +++|||++|.++|.+++|
T Consensus       407 Rd~~GevveGd~d~i~~v~y~wvl~-rd~~El~~d~-~~~WRLlE~~r~~~~~~~  459 (459)
T KOG2580|consen  407 RDAKGEVVEGDPDKILRVYYAWVLC-RDQDELNPDE-YAAWRLLEFSRAGTEQFL  459 (459)
T ss_pred             EcCCCceecCCCCceeeEEeeeeee-ccHhhcCcch-hhhHHHHHHHhccchhcC
Confidence            9999999999999999999999995 4999998755 899999999999999876

>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit	Back alignment and domain information

>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []	Back alignment and domain information

>COG4395 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>PF07961 MBA1: MBA1-like protein; InterPro: IPR024621 Mba1 is an inner membrane protein that is part of the mitochondrial protein export machinery [, ]	Back alignment and domain information

>PF13355 DUF4101: Protein of unknown function (DUF4101)	Back alignment and domain information

>KOG4599 consensus Putative mitochondrial/chloroplast ribosomal protein L45 [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria	Back alignment and domain information

>KOG2580 consensus Mitochondrial import inner membrane translocase, subunit TIM44 [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C	Back alignment and domain information

>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B	Back alignment and domain information

>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases	Back alignment and domain information

>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		368
2cw9_A		194	Crystal Structure Of Human Tim44 C-Terminal Domain		4e-17
3qk9_A		222	Yeast Tim44 C-Terminal Domain Complexed With Cymal-		9e-16
2fxt_A		192	Crystal Structure Of Yeast Tim44 Length = 192		2e-15

>pdb|2CW9|A Chain A, Crystal Structure Of Human Tim44 C-Terminal Domain Length = 194

Back alignment and structure

Iteration: 1

Score = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 86/169 (50%), Gaps = 5/169 (2%) Query: 192 IVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVET 250 + K+ D+ +F +T+ + + EI R DP+F F+ + + I P VL A + G+++ Sbjct: 21 LTDKVTDLLGGLFSKTEXSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAXISGELDI 80 Query: 251 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQI 310 LK +C + ++ G+ F +RIL + V++ K + P++I+ FQ Q + Sbjct: 81 LKDWCYEATYSQLAHPIQQAKALGLQFHSRILDIDNVDLAXGKXVEQGPVLIITFQAQLV 140 Query: 311 YCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREM 359 VR+ G + EG D + Y WA+ + D +EL Y W+L ++ Sbjct: 141 XVVRNPKGEVVEGDPDKVLRXLYVWALCR-DQDELNP---YAAWRLLDI 185

PyMOL of 2cw9

>pdb|3QK9|A Chain A, Yeast Tim44 C-Terminal Domain Complexed With Cymal-3 Length = 222

Back alignment and structure

>pdb|2FXT|A Chain A, Crystal Structure Of Yeast Tim44 Length = 192

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		368
3qk9_A		222	Mitochondrial import inner membrane translocase S	2e-54
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	2e-42
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08

>3qk9_A Mitochondrial import inner membrane translocase S TIM44; mitochondrion, protein transport; 3.10A {Saccharomyces cerevisiae} PDB: 2fxt_A Length = 222	Back alignment and structure

 Score =  177 bits (451), Expect = 2e-54
 Identities = 57/201 (28%), Positives = 98/201 (48%), Gaps = 9/201 (4%)

Query: 174 GQEIAEDVRERWETSDNPIV---HKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVS 230
           G+ I     + W+ S+NP++    KI +     F ET+++    + +  DP+FS   F  
Sbjct: 23  GRSIQSLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTR 82

Query: 231 EVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEV 289
            ++E I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D RIL +  VE+
Sbjct: 83  HLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEI 142

Query: 290 RETKMMG--SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELG 346
              K++     P+++V  + Q+I   R  K G I  G +  I    YA    + D E++ 
Sbjct: 143 VSAKLLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTR-DPEQID 201

Query: 347 EDVLYPIWKLREMQQLGVQAL 367
           +D     WK+ E  + G +  
Sbjct: 202 DD-ETEGWKILEFVRGGSRQF 221

PyMOL of 3qk9

>2cw9_A Translocase of inner mitochondrial membrane; structure genomics, TIM, structural genomics, NPPFSA, riken structural genomics/proteomics initiative; HET: 1PE; 1.90A {Homo sapiens} SCOP: d.17.4.13 Length = 194	Back alignment and structure

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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		368
3qk9_A		222	Mitochondrial import inner membrane translocase S	100.0
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	100.0
2f86_B		143	Hypothetical protein K11E8.1D; UNC-43, oligomeriza	88.99
3gzr_A		146	Uncharacterized protein with A NTF2-like fold; str	88.75
3soy_A		145	NTF2-like superfamily protein; structural genomics	88.29
2ux0_A		143	Calcium-calmodulin dependent protein kinase (CAM I	87.86
4hyz_A		114	Uncharacterized protein; PF13026 family protein, D	87.85
3h51_A		156	Putative calcium/calmodulin dependent protein KIN	87.61
3f7s_A		142	Uncharacterized NTF2-like protein; structural geno	87.56
4i4k_A		143	Uncharacterized protein SGCJ; structural genomics,	85.95
3fsd_A		134	NTF2-like protein of unknown function in nutrient;	85.25
3gwr_A		144	Putative calcium/calmodulin-dependent protein KIN	84.97
3bb9_A		148	Putative orphan protein; structural genomics, join	83.23
3hx8_A		129	MLR2180 protein, putative ketosteroid isomerase; s	82.77
2r4i_A		123	Uncharacterized protein; NTF2-like protein, struct	81.54
3cnx_A		170	Uncharacterized protein; putative dehydratase, NTF	80.11

>3qk9_A Mitochondrial import inner membrane translocase S TIM44; mitochondrion, protein transport; 3.10A {Saccharomyces cerevisiae} PDB: 2fxt_A	Back alignment and structure

Probab=100.00  E-value=2.2e-58  Score=430.90  Aligned_cols=206  Identities=27%  Similarity=0.527  Sum_probs=162.2

Q ss_pred             hhhHH-HHHhhcCCccccccccccCccccccccchHHhhhh-hcccccchhhhhhhcccc---ccccChHHHHHHHHHhc
Q 017680          145 SMWSK-LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRER-WETSDNPIVHKIQDMNET---IFQETDAAASIKEIRRR  219 (368)
Q Consensus       145 s~w~~-~k~~~~~~p~~~~~~~~~~p~~~k~~e~~~d~r~~-~eeSdnP~v~~~~di~d~---lf~ete~a~~l~eIk~~  219 (368)
                      .+|++ |++|+++||++++|+               |||++ |||||||+|+++|+|+|+   ||++|+++++|++|+++
T Consensus         7 ~~~~~~w~~fk~~~~~~~~~~---------------~~k~~~~~es~np~i~~~r~itd~v~~~f~~te~a~~l~~Ik~~   71 (222)
T 3qk9_A            7 ESFGKKVEDFKEKTVVGRSIQ---------------SLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLM   71 (222)
T ss_dssp             --------------------C---------------HHHHHHHHHCCCHHHHHHHHHCC---------CCHHHHTTCC--
T ss_pred             hHHHHHHHHHhhcCHHHHHHH---------------HHHhhhcccccCHHHHHHHHHHHhcccccCCCHHHHHHHHHHHh
Confidence            38998 999999999999999               99999 999999999999999984   89999999999999999


Q ss_pred             CCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEeC--
Q 017680          220 DPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMG--  296 (368)
Q Consensus       220 DP~Fd~~~Fl~~ar~~~~p-IleA~~~GDle~Lk~~cse~~y~~~~~~i~~r~~~G~~~d~kiL~I~~veL~~ak~~~--  296 (368)
                      ||+||+++|+++|+++|+| ||+||.+||++.||+||++++|+.|+++|++|+++|+++++++|+|++++|+++++++  
T Consensus        72 DPsF~~~~Fl~~a~~ai~p~Il~Af~~GD~~~Lk~llse~~y~~f~~~i~~r~~~G~~~d~~il~I~~vdI~~a~~~~~~  151 (222)
T 3qk9_A           72 DPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAKLLAPQ  151 (222)
T ss_dssp             ---CCHHHHHHHHHHTHHHHHHHHHHHTCHHHHHHHBCHHHHHHHHHHHHHHHTTTEEECCEEEEEEEEEEEEEEECSSS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHHCCCEeeeeEeeecceEEEEEEEecCC
Confidence            9999999999999999887 9999999999999999999999999999999999999999999999999999999995  


Q ss_pred             CeeEEEEEEEEeEEEEEEc-CCCCeecCCCCceeEEEEEEEEEEecccccCCCCCCCCeEEeeeeccccccC
Q 017680          297 SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQAL  367 (368)
Q Consensus       297 ~~pvitV~F~aQqI~~vRD-k~GeVVeGd~d~i~~v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq~g~~a~  367 (368)
                      +.|+|+|+|++|||+|+|| ++|+||+|+|++|.++.|+|+|+| ++++++ +..+|+|+|++|||.|+.+.
T Consensus       152 ~~p~itV~f~aq~i~~~rd~k~GeVVeGd~d~i~~~~~~WtF~R-~~~~~d-~~~tp~WkL~eiq~~~~~~~  221 (222)
T 3qk9_A          152 DIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTR-DPEQID-DDETEGWKILEFVRGGSRQF  221 (222)
T ss_dssp             CCEEEEEEEEEEEECCEEESTTCCCSSSCTTCCEEEEEEEEEEE-CCC---------CEEEEEEECCCCSCC
T ss_pred             CceEEEEEEEEEEEEEEEeCCCCccccCCCCCceEEEEEEEEEE-cCccCC-CCCCCCcEEehhhccccccc
Confidence            7999999999999999999 999999999999999999999966 565544 23358999999999998654

PyMOL of 3qk9

>2cw9_A Translocase of inner mitochondrial membrane; structure genomics, TIM, structural genomics, NPPFSA, riken structural genomics/proteomics initiative; HET: 1PE; 1.90A {Homo sapiens} SCOP: d.17.4.13	Back alignment and structure

>2f86_B Hypothetical protein K11E8.1D; UNC-43, oligomerization domain, transferase; 2.64A {Caenorhabditis elegans} SCOP: d.17.4.7	Back alignment and structure

>3gzr_A Uncharacterized protein with A NTF2-like fold; structural genomics, joint center for struct genomics, JCSG, protein structure initiative; HET: MSE GOL; 1.40A {Caulobacter vibrioides}	Back alignment and structure

>3soy_A NTF2-like superfamily protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.00A {Salmonella enterica subsp}	Back alignment and structure

>2ux0_A Calcium-calmodulin dependent protein kinase (CAM II gamma; transferase, oligomerisation DOM serine- threonine kinase, ATP-binding; 2.46A {Homo sapiens} SCOP: d.17.4.7 PDB: 2w2c_A 1hkx_A*	Back alignment and structure

>4hyz_A Uncharacterized protein; PF13026 family protein, DUF3887, structural genomics, joint for structural genomics, JCSG; 2.25A {Ruminococcus gnavus}	Back alignment and structure

>3h51_A Putative calcium/calmodulin dependent protein KIN association domain; NP_636218.1; HET: MSE PG4; 1.70A {Xanthomonas campestris PV}	Back alignment and structure

>3f7s_A Uncharacterized NTF2-like protein; structural genomics, joint center for STR genomics, JCSG, protein structure initiative, PSI-2; 2.11A {Pseudomonas putida KT2440}	Back alignment and structure

>4i4k_A Uncharacterized protein SGCJ; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: CIT PG4 1PE; 1.70A {Streptomyces globisporus}	Back alignment and structure

>3fsd_A NTF2-like protein of unknown function in nutrient; YP_427473.1, NTF2-like protein of unknown function in nutrie uptake; HET: UNL; 1.70A {Rhodospirillum rubrum atcc 11170} SCOP: d.17.4.0	Back alignment and structure

>3gwr_A Putative calcium/calmodulin-dependent protein KIN II association domain; YP_315894.1; HET: MSE PG4; 2.01A {Thiobacillus denitrificans atcc 25259}	Back alignment and structure

>3bb9_A Putative orphan protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.80A {Shewanella frigidimarina} SCOP: d.17.4.16	Back alignment and structure

>3hx8_A MLR2180 protein, putative ketosteroid isomerase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: MSE UNL PG4; 1.45A {Mesorhizobium loti}	Back alignment and structure

>2r4i_A Uncharacterized protein; NTF2-like protein, structural genomics, joint center for STR genomics, JCSG; HET: MSE CIT; 1.60A {Cytophaga hutchinsonii atcc 33406} SCOP: d.17.4.15	Back alignment and structure

>3cnx_A Uncharacterized protein; putative dehydratase, NTF2-like protein, structural genomics center for structural genomics, JCSG; HET: MSE PGE PG6; 2.10A {Streptomyces avermitilis} SCOP: d.17.4.17	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		368
d2fxta1		192	d.17.4.13 (A:234-425) Translocase of inner mitocho	2e-49
d2cw9a1		182	d.17.4.13 (A:270-451) Translocase of inner mitocho	4e-42

>d2fxta1 d.17.4.13 (A:234-425) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 192	Back information, alignment and structure


class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  162 bits (412), Expect = 2e-49
 Identities = 54/189 (28%), Positives = 95/189 (50%), Gaps = 10/189 (5%)

Query: 179 EDVRER-WETSDNPIV---HKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQE 234
           + ++ + W+ S+NP++    KI +     F ET+++    + +  DP+FS   F   ++E
Sbjct: 3   QSLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLRE 62

Query: 235 AIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETK 293
            I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D RIL +  VE+   K
Sbjct: 63  YIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAK 122

Query: 294 MMG--SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVL 350
           ++     P+++V  + Q+I   R  K G I  G +  I    YA    + D E++ +D  
Sbjct: 123 LLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTR-DPEQIDDDE- 180

Query: 351 YPIWKLREM 359
              WK+ E 
Sbjct: 181 TEGWKILEF 189

PyMOL of d2fxta1

>d2cw9a1 d.17.4.13 (A:270-451) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 182	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		368
d2fxta1		192	Translocase of inner mitochondrial membrane TIMM44	100.0
d2cw9a1		182	Translocase of inner mitochondrial membrane TIMM44	100.0
d2ux0a1		135	Association domain of calcium/calmodulin-dependent	94.01
d3cnxa1		153	Uncharacterized protein SAV4671 {Streptomyces aver	93.81
d2r4ia1		122	Uncharacterized protein CHU142 {Cytophaga hutchins	93.39
d2rcda1		127	Uncharacterized protein ECA3500 {Pectobacterium at	91.59
d3bb9a1		121	Uncharacterized protein Sfri1973 {Shewanella frigi	89.43
d3cu3a1		162	Uncharacterized protein NpunR1993 {Nostoc punctifo	87.75
d2f86b1		129	Association domain of calcium/calmodulin-dependent	85.96
d2owpa1		128	Hypothetical protein BxeB1374 {Burkholderia xenovo	84.08
d3b7ca1		121	Uncharacterized protein SO0125 {Shewanella oneiden	83.63

>d2fxta1 d.17.4.13 (A:234-425) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: NTF2-like
family: TIM44-like
domain: Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.6e-49  Score=357.43  Aligned_cols=181  Identities=29%  Similarity=0.583  Sum_probs=167.2

Q ss_pred             HHhhhh-hcccccchhhhhhhccc---cccccChHHHHHHHHHhcCCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHHh
Q 017680          179 EDVRER-WETSDNPIVHKIQDMNE---TIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKK  253 (368)
Q Consensus       179 ~d~r~~-~eeSdnP~v~~~~di~d---~lf~ete~a~~l~eIk~~DP~Fd~~~Fl~~ar~~~~p-IleA~~~GDle~Lk~  253 (368)
                      ++||++ |||||||+|+..++|+|   ++|++|+++++|++||++||+||..+|+.+|+.+|+| ||+||++||++.|++
T Consensus         3 ~~~~~~~~~~sdnp~v~~~r~i~d~~~~~f~ete~~~~l~~ik~~Dp~F~~~~Fl~gak~~~~p~Il~Af~~GD~~~Lk~   82 (192)
T d2fxta1           3 QSLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKK   82 (192)
T ss_dssp             HHHHHHHHTCCSSHHHHHHHHHHTTTTCCBCCCCSHHHHHHHHHHCTTCCHHHHHHHHHHTHHHHHHHHHHTTCHHHHHH
T ss_pred             hHhcccccccCCCcceeeeeeeccccccccccCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            389998 99999999987777776   6999999999999999999999999999999999996 999999999999999


Q ss_pred             hcCHHHHHHHHHHHHHHHhCCCcccceEEEecceeEEEEEEe--CCeeEEEEEEEEeEEEEEEc-CCCCeecCCCCceeE
Q 017680          254 YCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMM--GSSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQT  330 (368)
Q Consensus       254 ~cse~~y~~~~~~i~~r~~~G~~~d~kiL~I~~veL~~ak~~--~~~pvitV~F~aQqI~~vRD-k~GeVVeGd~d~i~~  330 (368)
                      ||++++|+.|+++|++|+++|+++++++|+|++++|++++++  ++.|+|+|+|++|||+|+|| ++|+||+|+++.+..
T Consensus        83 lls~~vy~~f~~~I~~r~~~g~~~~~~ii~I~~~~I~~a~~~~~~~~~~itV~F~t~qi~~~~d~k~G~IieGd~d~i~~  162 (192)
T d2fxta1          83 WFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAKLLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILM  162 (192)
T ss_dssp             HBCHHHHHHHHHHHHHHHHTTEECCEEECCCEEEEEEEEEEETTTTEEEEEEEEEECEEECCEETTTBTTSSCSCCCCCC
T ss_pred             HhhHHHHHHHHHHHHHHHHcCCeeeEEEeccceeEEEEEEEecCCCeEEEEEEEEEEEEEEEEecCCCcEecCCCCccEE
Confidence            999999999999999999999999999999999999999997  46899999999999999998 689999999999999


Q ss_pred             EEEEEEEEEecccccCCCCCCCCeEEeeeec
Q 017680          331 VYYAWAMQQVDAEELGEDVLYPIWKLREMQQ  361 (368)
Q Consensus       331 v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq  361 (368)
                      +.|+|+|+| +..+.+|+ .+++|+|++|+|
T Consensus       163 v~d~WtF~R-~~~~~~pn-~~~~W~LiE~~~  191 (192)
T d2fxta1         163 SSYAMVFTR-DPEQIDDD-ETEGWKILEFVR  191 (192)
T ss_dssp             EEEEEEEEC-CSSSCTTS-SSTTCEEEEEEC
T ss_pred             EEEEEEEEE-cCccCCCC-CCCCEEEEEeec
Confidence            999999977 44444432 356799999987

PyMOL of d2fxta1

>d2cw9a1 d.17.4.13 (A:270-451) Translocase of inner mitochondrial membrane TIMM44 (TIM44), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d2ux0a1 d.17.4.7 (A:387-521) Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d3cnxa1 d.17.4.17 (A:5-157) Uncharacterized protein SAV4671 {Streptomyces avermitilis [TaxId: 33903]}	Back information, alignment and structure

>d2r4ia1 d.17.4.15 (A:1-122) Uncharacterized protein CHU142 {Cytophaga hutchinsonii [TaxId: 985]}	Back information, alignment and structure

>d2rcda1 d.17.4.18 (A:1-127) Uncharacterized protein ECA3500 {Pectobacterium atrosepticum [TaxId: 29471]}	Back information, alignment and structure

>d3bb9a1 d.17.4.16 (A:27-147) Uncharacterized protein Sfri1973 {Shewanella frigidimarina [TaxId: 56812]}	Back information, alignment and structure

>d3cu3a1 d.17.4.28 (A:9-170) Uncharacterized protein NpunR1993 {Nostoc punctiforme [TaxId: 272131]}	Back information, alignment and structure

>d2f86b1 d.17.4.7 (B:343-471) Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A {Caenorhabditis elegans [TaxId: 6239]}	Back information, alignment and structure

>d2owpa1 d.17.4.18 (A:1-128) Hypothetical protein BxeB1374 {Burkholderia xenovorans [TaxId: 36873]}	Back information, alignment and structure

>d3b7ca1 d.17.4.16 (A:1-121) Uncharacterized protein SO0125 {Shewanella oneidensis [TaxId: 70863]}	Back information, alignment and structure