Citrus Sinensis ID: 013445

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-------370-------380-------390-------400-------410-------420-------430-------440---

MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFYKAL

ccHHHHHHHHHHHccccccccccccccccccEEEEccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHcccHHHHHcccccccccccccccccccccccccccccEEEccccHHHHHHHHHHHccccHHHHHHccccccHHHHHHHHHHHHHHHcccccHHHHHHHHHHccccccccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHHccccccccccccc

cHHHHHHHHHHHHcccccHHHHccccccccEEEEEccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHcccHHcccHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEEccHHHHHHHHHHHHccccHHHHHcccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHccHccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHccccccEEEEEHcHHHHHHHHHHHccccccHHHHcc

MASRKLVRDLFlsrqrprflqltplqgsstRLRLVsangyssnrqfSVFKEFSKKIkgeaesnpefKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssDTAETFYGKlkssisspKFTLAFQKLKEAKVVDLAKKGYDivkdelsgspskrkhleytpspswtgekstrtdlvvtpskKSMWSKLKEKmqgypvfkritgisepvvtkgQEIAEDVRERwetsdnpivhKIQDMNETIFQETDAAASIKEirrrdpsfslpdfVSEVQEAIRPVLSAYMKGDVEtlkkycspeviERCKAEHTAYqshgiffdnRVNEFVKFYHFLFVCFFFFfwlsssdchfisIHLGTLGVCKSLLlhiqpsnlsFYKAL

masrklvrdlflsrqrprflqltplqgsstrlRLVSangyssnrqfsvFKEFSKKikgeaesnpefkhsvkELKKKAEeikgvkeelkertkqtteqlykqvdgvWMEAESTVKKVSASMKEKISaateevkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssdtaETFYGklkssisspKFTLAFQKLKEAKVVDLAKKGYDIVkdelsgspskrkhleytpspswtgekstrtdlvvtpskksmwskLKEKMQGYPVfkritgisepvvtkgqeIAEDVrerwetsdnpivHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLlhiqpsnlsfykal

MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEfvkfyhflfvcfffffWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFYKAL

**********F*******FL********************************************************************************QVDGVWM*******************************************************************************KFTLAFQKLKEAKVVDLAKKGYDIV************************************************MQGYPVFKRITGISEPVVTKGQEIAEDVRERWET*DNPIVHKIQDMNETIFQ******************SLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSF****

******V*DLFL*************************************KEFSKK*********************************************************************SAATEEVKGTFRTGS*************************************************************************************************************************QGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNET*F******ASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFYKAL

MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGF****************TAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFYKAL

***RKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTG************************************FYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSG***********************TDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFY**L

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo

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MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSxxxxxxxxxxxxxxxxxxxxxxxxxxxxLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLFVCFFFFFWLSSSDCHFISIHLGTLGVCKSLLLHIQPSNLSFYKAL

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		443	2.2.26 [Sep-21-2011]
Q5XF06		469	Mitochondrial import inne	yes	no	0.853	0.805	0.634	1e-138
Q1PF33		474	Mitochondrial import inne	no	no	0.860	0.803	0.590	1e-128
Q01852		431	Mitochondrial import inne	yes	no	0.218	0.225	0.306	2e-07
O60084		427	Mitochondrial import inne	yes	no	0.218	0.227	0.314	3e-07

>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 =  492 bits (1267), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 248/391 (63%), Positives = 311/391 (79%), Gaps = 13/391 (3%)

Query: 1   MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEA 60
           MASRKLVRDL +++Q P   QL   +    RL L+  NG++S+R+FSVF EFSKKI+GEA
Sbjct: 1   MASRKLVRDLLITKQ-PLLQQLVHQRRVGARLGLLQGNGFASHRRFSVFSEFSKKIRGEA 59

Query: 61  ESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASM 120
           +SNPEF+ +VKE K++AEE++GVKE+LK RTKQTTE+LYKQ  GVW EAES  KKVS+S+
Sbjct: 60  DSNPEFQKTVKEFKERAEELQGVKEDLKVRTKQTTEKLYKQGQGVWTEAESVAKKVSSSV 119

Query: 121 KEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLK 180
           K+K SAATEEVK +F+ G  +++         G   + GE++Q+Q+ S++  +TF+GK K
Sbjct: 120 KDKFSAATEEVKESFKLGKEESAESA---SSSGTGTTEGEKQQQQSGSTEEQDTFFGKFK 176

Query: 181 SSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTR 240
           SSISSPK + AF K      +D AKKG DIVKDEL G+PSKRKHLEYTP P +TGE+STR
Sbjct: 177 SSISSPKLSEAFHK-----PLDFAKKGLDIVKDELRGNPSKRKHLEYTPPPPFTGERSTR 231

Query: 241 TDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDN 296
           T++V+ P+K+S W K    L+EKMQGYPVFKR++G+SEPVV K QEIAEDVRE+WETSDN
Sbjct: 232 TEMVIMPTKQSKWQKKWESLREKMQGYPVFKRLSGMSEPVVNKSQEIAEDVREKWETSDN 291

Query: 297 PIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVET 356
           PIVHKIQDMNE IF+ET +A++ KEIRRRDPSFSLPDFVSE+QEAIRPVL+AY KGD +T
Sbjct: 292 PIVHKIQDMNERIFEETGSASTYKEIRRRDPSFSLPDFVSEIQEAIRPVLNAYSKGDAKT 351

Query: 357 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387
           LKKYCS E+IERC AEH A+ S G FFD+++
Sbjct: 352 LKKYCSKELIERCTAEHRAFTSQGYFFDHKL 382

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\|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\|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

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		443
225438141		485	PREDICTED: mitochondrial import inner me	0.871	0.795	0.696	1e-151
224062145		484	predicted protein [Populus trichocarpa]	0.871	0.797	0.678	1e-149
255567254		486	mitochondrial import inner membrane tran	0.871	0.794	0.697	1e-148
297744147		484	unnamed protein product [Vitis vinifera]	0.869	0.795	0.689	1e-147
224085633		485	predicted protein [Populus trichocarpa]	0.871	0.795	0.669	1e-140
42569661		469	translocase inner membrane subunit 44-2	0.853	0.805	0.634	1e-136
449526090		484	PREDICTED: uncharacterized protein LOC10	0.871	0.797	0.643	1e-134
297836804		477	mitochondrial import inner membrane tran	0.862	0.800	0.622	1e-132
297827085		469	attim44-2 [Arabidopsis lyrata subsp. lyr	0.853	0.805	0.629	1e-131
18399377		472	translocase inner membrane subunit 44-1	0.860	0.807	0.593	1e-127

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

 Score =  539 bits (1389), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 278/399 (69%), Positives = 322/399 (80%), Gaps = 13/399 (3%)

Query: 1   MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEA 60
           M SRKLVRDL+LS+Q      L+  Q SS RLRL+S NG S  R FSVF EFS KIKGE 
Sbjct: 1   MGSRKLVRDLYLSKQPLLLHLLSSQQASSARLRLISPNGCSGYRGFSVFNEFSNKIKGEV 60

Query: 61  ESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASM 120
             N EF+ +VKELK+KAEE+KGVKEELK RTKQTTEQLYK VDGVW EAE+T KKVSA++
Sbjct: 61  NRNSEFQQTVKELKEKAEELKGVKEELKVRTKQTTEQLYKHVDGVWTEAEATAKKVSANV 120

Query: 121 KEKISAATEEVKGTFRTG------STDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAET 174
           KEKISAATE+VK TF  G      S  TSAK + DV  G  +SSGEEK  ++  SDTAET
Sbjct: 121 KEKISAATEDVKETFGKGKQEFSESAGTSAKSEADVNKG-SSSSGEEKHHKSGPSDTAET 179

Query: 175 FYGKLKSSIS--SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPS 232
            +GK KSS+S  SPK +LAF+KLKEAKV+DLAKKGY IVKDELS +PSKRK ++   S +
Sbjct: 180 LFGKFKSSVSTVSPKVSLAFEKLKEAKVLDLAKKGYGIVKDELSSNPSKRKQMQRAASSA 239

Query: 233 WTGEKSTRTDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVR 288
             GE+ST+TD+V+ PSK+S WSK    LK+KMQG+PVFKRI+G+SEPVVTKGQE+AEDVR
Sbjct: 240 SPGERSTKTDIVIVPSKQSRWSKKWEALKDKMQGHPVFKRISGLSEPVVTKGQELAEDVR 299

Query: 289 ERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSA 348
           ERWETSDNP+VHKIQD+NE++F ET AA S KEIRRRDPSFSLPDFVSEVQE IRPVL+A
Sbjct: 300 ERWETSDNPVVHKIQDLNESVFGETAAAMSFKEIRRRDPSFSLPDFVSEVQEVIRPVLNA 359

Query: 349 YMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387
           Y+KGD ETLKKYCSPEVIERCKAEH AYQ+ GI FDN++
Sbjct: 360 YIKGDAETLKKYCSPEVIERCKAEHGAYQTMGIIFDNKI 398

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>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\|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\|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\|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

>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\|18399377\|ref\|NP_565473.1\| translocase inner membrane subunit 44-1 [Arabidopsis thaliana] gi\|20198086\|gb\|AAD25651.2\| putative mitochondrial inner membrane translocating protein [Arabidopsis thaliana] gi\|330251926\|gb\|AEC07020.1\| translocase inner membrane subunit 44-1 [Arabidopsis thaliana]	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		443
TAIR\|locus:2039195		469	TIM44-2 "AT2G36070" [Arabidops	0.853	0.805	0.634	2.8e-128
TAIR\|locus:2054759		474	TIM44-1 "translocase inner mem	0.860	0.803	0.595	2.3e-119
SGD\|S000001284		431	TIM44 "Essential component of	0.270	0.278	0.288	2.1e-09
UNIPROTKB\|Q8IIG7		1070	PF11_0207 "Uncharacterized pro	0.573	0.237	0.236	1.2e-08
CGD\|CAL0005261		424	TIM44 [Candida albicans (taxid	0.227	0.238	0.342	1.4e-08
UNIPROTKB\|Q5A7M2		424	TIM44 "Putative uncharacterize	0.227	0.238	0.342	1.4e-08
ASPGD\|ASPL0000052531		514	AN1281 [Emericella nidulans (t	0.227	0.196	0.323	1.9e-07
POMBASE\|SPBC14C8.02		427	tim44 "TIM23 translocase compl	0.218	0.227	0.314	2.4e-07
UNIPROTKB\|F1NU71		447	TIMM44 "Uncharacterized protei	0.665	0.659	0.234	5.5e-07
FB\|FBgn0038683		459	CG11779 [Drosophila melanogast	0.625	0.603	0.212	5.7e-07

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

 Score = 1259 (448.2 bits), Expect = 2.8e-128, P = 2.8e-128
 Identities = 248/391 (63%), Positives = 311/391 (79%)

Query:     1 MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEA 60
             MASRKLVRDL +++Q P   QL   +    RL L+  NG++S+R+FSVF EFSKKI+GEA
Sbjct:     1 MASRKLVRDLLITKQ-PLLQQLVHQRRVGARLGLLQGNGFASHRRFSVFSEFSKKIRGEA 59

Query:    61 ESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASM 120
             +SNPEF+ +VKE K++AEE++GVKE+LK RTKQTTE+LYKQ  GVW EAES  KKVS+S+
Sbjct:    60 DSNPEFQKTVKEFKERAEELQGVKEDLKVRTKQTTEKLYKQGQGVWTEAESVAKKVSSSV 119

Query:   121 KEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLK 180
             K+K SAATEEVK +F+ G  +++         G   + GE++Q+Q+ S++  +TF+GK K
Sbjct:   120 KDKFSAATEEVKESFKLGKEESAESASSS---GTGTTEGEKQQQQSGSTEEQDTFFGKFK 176

Query:   181 SSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTR 240
             SSISSPK + AF K      +D AKKG DIVKDEL G+PSKRKHLEYTP P +TGE+STR
Sbjct:   177 SSISSPKLSEAFHK-----PLDFAKKGLDIVKDELRGNPSKRKHLEYTPPPPFTGERSTR 231

Query:   241 TDLVVTPSKKSMWSK----LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDN 296
             T++V+ P+K+S W K    L+EKMQGYPVFKR++G+SEPVV K QEIAEDVRE+WETSDN
Sbjct:   232 TEMVIMPTKQSKWQKKWESLREKMQGYPVFKRLSGMSEPVVNKSQEIAEDVREKWETSDN 291

Query:   297 PIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVET 356
             PIVHKIQDMNE IF+ET +A++ KEIRRRDPSFSLPDFVSE+QEAIRPVL+AY KGD +T
Sbjct:   292 PIVHKIQDMNERIFEETGSASTYKEIRRRDPSFSLPDFVSEIQEAIRPVLNAYSKGDAKT 351

Query:   357 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387
             LKKYCS E+IERC AEH A+ S G FFD+++
Sbjct:   352 LKKYCSKELIERCTAEHRAFTSQGYFFDHKL 382

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

SGD\|S000001284 TIM44 "Essential component of the TIM23 complex" [Saccharomyces cerevisiae (taxid:4932)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8IIG7 PF11_0207 "Uncharacterized protein PF11_0207" [Plasmodium falciparum 3D7 (taxid:36329)]	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

ASPGD\|ASPL0000052531 AN1281 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

POMBASE\|SPBC14C8.02 tim44 "TIM23 translocase complex subunit Tim44 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

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

FB\|FBgn0038683 CG11779 [Drosophila melanogaster (taxid:7227)]	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	0.6342	0.8532	0.8059	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		443
pfam04280		146	pfam04280, Tim44, Tim44-like domain	2e-19
smart00978		147	smart00978, Tim44, Tim44 is an essential component	9e-18
TIGR00984		378	TIGR00984, 3a0801s03tim44, mitochondrial import in	5e-12
COG4395		281	COG4395, COG4395, Uncharacterized protein conserve	1e-05
PTZ00121		2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04

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

 Score = 84.2 bits (209), Expect = 2e-19
 Identities = 23/71 (32%), Positives = 42/71 (59%)

Query: 316 AASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTA 375
           AA+++ I+  DPSF + +F+   +EA   +  A+ +GD+ETL++  +PEV E   A    
Sbjct: 1   AAALRAIKAADPSFDVEEFLEGAREAYEMIQEAWARGDLETLRELLTPEVYEEFAAAIAE 60

Query: 376 YQSHGIFFDNR 386
            ++ G+  D+ 
Sbjct: 61  REAQGLTNDST 71

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

>gnl\|CDD\|173412 PTZ00121, PTZ00121, MAEBL; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		443
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	99.68
COG4395		281	Uncharacterized protein conserved in bacteria [Fun	99.23
KOG2580		459	consensus Mitochondrial import inner membrane tran	98.54
TIGR00984		378	3a0801s03tim44 mitochondrial import inner membrane	97.06
PF07464		155	ApoLp-III: Apolipophorin-III precursor (apoLp-III)	90.1
PF07961		235	MBA1: MBA1-like protein; InterPro: IPR024621 Mba1	87.89

>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=7.8e-71  Score=559.14  Aligned_cols=369  Identities=25%  Similarity=0.414  Sum_probs=313.8

Q ss_pred             cCCccchhhccccCCC-CCCCcccHHHHHHHHHHHhhhChhhHHHHHHHHHHHHHHhhhHHHHHHhhHHHHHHHHHhhhh
Q 013445           26 QGSSTRLRLVSANGYS-SNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDG  104 (443)
Q Consensus        26 ~~~~~r~~~~~~~~ys-~~Rr~sff~~f~d~iK~E~~KNkElqeniK~l~eea~kL~~s~e~lK~r~k~~a~~~~K~V~~  104 (443)
                      +++..|+.+.+.++|| ++||.|||++|+||||+||+||||||+|||+|++++++|+++ |+||     .||++|..+  
T Consensus        41 ~~~~ar~~~~q~~~yss~~~r~s~ls~f~dn~r~E~~knkElqe~iK~lkd~a~~L~es-da~k-----kaR~k~~~~--  112 (459)
T KOG2580|consen   41 TRLGARLPFSQTRGYSSPGRRRSFLSEFSDNVRAELDKNKELQESIKKLKDRAGELEES-DALK-----KARTKYETA--  112 (459)
T ss_pred             hcccccccccccccccCCCCCCchHHHHHHHHHHHHhhCHHHHHHHHHHHHHHhhhccc-hHHH-----HHHHHHHHH--
Confidence            3678888888999999 589999999999999999999999999999999999999999 5665     599999999  


Q ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHhhhhhhcccccccCccCCcccccccccCchhhhhhhcccCccchhhhccccccCC
Q 013445          105 VWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSIS  184 (443)
Q Consensus       105 a~~esE~~~~k~s~~~k~ki~~a~e~vk~t~~~~k~~~s~s~~~~~~~~~~~~~~e~~~~a~~~~d~a~s~~~~f~~~~~  184 (443)
                           |++++++|+.++.+++++.|.|+...    +++++|.-.   .+.+++.+|+.++|++++++-+++|++|.++..
T Consensus       113 -----e~~t~~~s~~~kk~~~e~~e~~k~~~----~ea~eS~~~---k~t~~~~~e~~kqA~~sae~vd~~~~kv~~T~~  180 (459)
T KOG2580|consen  113 -----ESETQASSEVLKKKLGELKETVKLGA----EEAWESALG---KKTKEAVEEAQKQASGSAEEVDTFFEKVGQTAA  180 (459)
T ss_pred             -----HhhhhhhhHHHHHHHHHHHHHHHHHH----HHHHhhhhh---ccchhhHHHHHHHhhcchhhhhHhhhhhhhhhh
Confidence                 88899999999999999988888875    466765422   277778889999999999877777777777766


Q ss_pred             ChhhhHHHHHhHHHHHHHHHHhhhhhhcccccCCCCcccccCCCCCCCCCCCCCc-ccceEEecCcchhHHH-HHHhhcC
Q 013445          185 SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKST-RTDLVVTPSKKSMWSK-LKEKMQG  262 (443)
Q Consensus       185 ~~~~se~~~klr~~~~~~~~k~g~~~vkeEl~~~~~~RKr~~~~~~~~~~~e~~~-~t~vv~~~~k~s~W~~-~k~~~~~  262 (443)
                      +|.||+.+..+++  -++.++.|..+||++....|++.+..+..++++.++|+++ +++||  +|++|+||+ |++|+++
T Consensus       181 yk~vSe~~~~vkk--~~d~s~~g~~i~k~~~r~lr~r~~~~~~~~~~~~~~E~n~~a~~vv--~h~~skw~~kwe~fkek  256 (459)
T KOG2580|consen  181 YKAVSEVMETVKK--EIDSSRYGLDIVKERPRKLRKRTEFLGDTFPSEKVGEPNEEAEGVV--LHKDSKWYQKWEDFKEK  256 (459)
T ss_pred             HHHHHHHHHhhcc--cchhhhhhhhchhhhhhhchhhhhhhccCCCcccccCCCcceeeEE--eccchHHHHHHHHHHhc
Confidence            6666666666654  3466666666666666654444445556666777777654 45544  699999999 9999999


Q ss_pred             CccchhhccccccccccchhchHHhhhhhcccccchhh-------hhhhccccccCcchHHHHHHHHHHhCCCCChhhHH
Q 013445          263 YPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVH-------KIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFV  335 (443)
Q Consensus       263 ~pi~~~~~g~~~pv~~k~~e~~ed~r~~~EeSDNPlV~-------ki~dI~d~lf~eTe~a~vL~eIk~~DPsFd~~~Fl  335 (443)
                      |.++++|.               +|+..||+||||+|.       +|.++.+++|.+|+++++|++|+++||+||.++|+
T Consensus       257 ~~~~~k~~---------------~lk~~ydeseN~~i~~~rdvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Fl  321 (459)
T KOG2580|consen  257 NVVVRKFQ---------------ELKKKYDESENPSIRASRDVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFL  321 (459)
T ss_pred             ccchHHHH---------------HHHhhccccccHHHHHHHHHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHH
Confidence            99999999               999999999999994       55556668999999999999999999999999999


Q ss_pred             HHHHHHHHH-HHHHHHhCCHHHHhhhcCHHHHHHHHHHHHHHHHCCCeecceeeecccccchhh------hhheehhhcc
Q 013445          336 SEVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLF------VCFFFFFWLS  408 (443)
Q Consensus       336 ~gar~ai~p-ILeAf~kGD~e~LK~wcseavyn~faa~I~~R~~~Gl~~DskILdI~~i~~~~~------~~~~~~~~~~  408 (443)
                      +.|+++|+| ||+||.+||+++||+||+|++|++|+++|++++++|+.+|++||||..++-+++      |.++++  |+
T Consensus       322 r~~ee~IiPnVLeAyvkGD~evLK~wcsea~~~~~aa~~keykk~gv~~d~kILdI~~Vdia~~KmM~d~PVlIit--Fq  399 (459)
T KOG2580|consen  322 RECEEYIIPNVLEAYVKGDLEVLKKWCSEAPFSQLAAPIKEYKKHGVYFDSKILDIRGVDIASGKMMEDGPVLIIT--FQ  399 (459)
T ss_pred             HHHHHhhhHHHHHHHHhccHHHHHHHHhhhHHHHHHHHHHHHHhcCeeecceeeeeccchhHHhhhhccCCEEEEE--Ee
Confidence            999999999 999999999999999999999999999999999999999999999999988766      666653  57


Q ss_pred             CccceeeeecccchhhhhhhccccccCCc
Q 013445          409 SSDCHFISIHLGTLGVCKSLLLHIQPSNL  437 (443)
Q Consensus       409 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  437 (443)
                      .+.-||.++--|-  |++|-.|+|+..+.
T Consensus       400 aQeI~~vRd~~Ge--vveGd~d~i~~v~y  426 (459)
T KOG2580|consen  400 AQEIMCVRDAKGE--VVEGDPDKILRVYY  426 (459)
T ss_pred             eEEEEEEEcCCCc--eecCCCCceeeEEe
Confidence            7888999999999  99999999998653

>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

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

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

>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences	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

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		443
3qk9_A		222	Yeast Tim44 C-Terminal Domain Complexed With Cymal-		1e-08
2fxt_A		192	Crystal Structure Of Yeast Tim44 Length = 192		2e-08

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

Back alignment and structure

Iteration: 1

Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust. Identities = 31/101 (30%), Positives = 54/101 (53%), Gaps = 4/101 (3%) Query: 291 WETSDNPIV---HKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VL 346 W+ S+NP++ KI + F ET+++ + + DP+FS F ++E I P +L Sbjct: 34 WDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLREYIVPEIL 93 Query: 347 SAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387 AY+KGDV+ LKK+ S A+ ++ ++ D R+ Sbjct: 94 EAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRI 134

PyMOL of 3qk9

>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		443
3qk9_A		222	Mitochondrial import inner membrane translocase S	1e-25
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	2e-20
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-09
3lvg_D		190	LCB, clathrin light chain B; SELF assembly, coated	6e-04

>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 =  103 bits (258), Expect = 1e-25
 Identities = 33/112 (29%), Positives = 58/112 (51%), Gaps = 4/112 (3%)

Query: 280 GQEIAEDVRERWETSDNPIV---HKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVS 336
           G+ I     + W+ S+NP++    KI +     F ET+++    + +  DP+FS   F  
Sbjct: 23  GRSIQSLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTR 82

Query: 337 EVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387
            ++E I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D R+
Sbjct: 83  HLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRI 134

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

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		443
3qk9_A		222	Mitochondrial import inner membrane translocase S	100.0
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	99.95

>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=4.1e-40  Score=314.56  Aligned_cols=166  Identities=21%  Similarity=0.388  Sum_probs=124.4

Q ss_pred             hhHHH-HHHhhcCCccchhhccccccccccchhchHHhhhh-hcccccchhhhhhhccc---cccCcchHHHHHHHHHHh
Q 013445          251 SMWSK-LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRER-WETSDNPIVHKIQDMNE---TIFQETDAAASIKEIRRR  325 (443)
Q Consensus       251 s~W~~-~k~~~~~~pi~~~~~g~~~pv~~k~~e~~ed~r~~-~EeSDNPlV~ki~dI~d---~lf~eTe~a~vL~eIk~~  325 (443)
                      .+|++ |++|+++||++++|+               |||++ |||||||+|+++++|+|   |+|++|+++++|++|+++
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            38999 999999999999999               99999 99999999999999998   489999999999999999


Q ss_pred             CCCCChhhHHHHHHHHHHH-HHHHHHhCCHHHHhhhcCHHHHHHHHHHHHHHHHCCCeecceeeecccccchhh------
Q 013445          326 DPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLF------  398 (443)
Q Consensus       326 DPsFd~~~Fl~gar~ai~p-ILeAf~kGD~e~LK~wcseavyn~faa~I~~R~~~Gl~~DskILdI~~i~~~~~------  398 (443)
                      ||+|++++|+++|+.+|.| ||+||++||+++||+||++++|+.|+++|++|+++|+++|++||+|.+++-+.+      
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            9999999999999999888 999999999999999999999999999999999999999999999977765432      


Q ss_pred             --hhheehhhccCccceeeee-cccchhhhhhhccccccC
Q 013445          399 --VCFFFFFWLSSSDCHFISI-HLGTLGVCKSLLLHIQPS  435 (443)
Q Consensus       399 --~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  435 (443)
                        +.  +++-+..+..||+++ ..|.  |++|..++|+..
T Consensus       152 ~~p~--itV~f~aq~i~~~rd~k~Ge--VVeGd~d~i~~~  187 (222)
T 3qk9_A          152 DIPV--LVVGCRAQEINLYRKKKTGE--IAAGDEANILMS  187 (222)
T ss_dssp             CCEE--EEEEEEEEEECCEEESTTCC--CSSSCTTCCEEE
T ss_pred             CceE--EEEEEEEEEEEEEEeCCCCc--cccCCCCCceEE
Confidence              33  334467778999999 8999  999999998753

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

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		443
d2fxta1		192	d.17.4.13 (A:234-425) Translocase of inner mitocho	1e-26
d2cw9a1		182	d.17.4.13 (A:270-451) Translocase of inner mitocho	5e-20

>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 =  103 bits (258), Expect = 1e-26
 Identities = 31/108 (28%), Positives = 58/108 (53%), Gaps = 5/108 (4%)

Query: 285 EDVRER-WETSDNPIV---HKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQE 340
           + ++ + W+ S+NP++    KI +     F ET+++    + +  DP+FS   F   ++E
Sbjct: 3   QSLKNKLWDESENPLIVVMRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLRE 62

Query: 341 AIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRV 387
            I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D R+
Sbjct: 63  YIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRI 110

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		443
d2fxta1		192	Translocase of inner mitochondrial membrane TIMM44	99.97
d2cw9a1		182	Translocase of inner mitochondrial membrane TIMM44	99.89

>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=99.97  E-value=2.2e-32  Score=253.24  Aligned_cols=149  Identities=21%  Similarity=0.404  Sum_probs=132.1

Q ss_pred             HHhhhh-hcccccchhhhhhhccc---cccCcchHHHHHHHHHHhCCCCChhhHHHHHHHHHHH-HHHHHHhCCHHHHhh
Q 013445          285 EDVRER-WETSDNPIVHKIQDMNE---TIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKK  359 (443)
Q Consensus       285 ed~r~~-~EeSDNPlV~ki~dI~d---~lf~eTe~a~vL~eIk~~DPsFd~~~Fl~gar~ai~p-ILeAf~kGD~e~LK~  359 (443)
                      +|||++ |||||||+|...++|+|   ++|++|+++++|++|+++||+||+++|+.||+.+|+| ||+||++||+++||+
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            489998 99999999977777776   6999999999999999999999999999999999997 999999999999999


Q ss_pred             hcCHHHHHHHHHHHHHHHHCCCeecceeeecccccchhh------hhheehhhccCccceeeeec-ccchhhhhhhcccc
Q 013445          360 YCSPEVIERCKAEHTAYQSHGIFFDNRVNEFVKFYHFLF------VCFFFFFWLSSSDCHFISIH-LGTLGVCKSLLLHI  432 (443)
Q Consensus       360 wcseavyn~faa~I~~R~~~Gl~~DskILdI~~i~~~~~------~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  432 (443)
                      ||++++|+.|+++|++|+++|++++.+||+|.+++-+.+      -.-.+++-|..++++|+++. .|.  |+.|..++|
T Consensus        83 lls~~vy~~f~~~I~~r~~~g~~~~~~ii~I~~~~I~~a~~~~~~~~~~itV~F~t~qi~~~~d~k~G~--IieGd~d~i  160 (192)
T d2fxta1          83 WFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAKLLAPQDIPVLVVGCRAQEINLYRKKKTGE--IAAGDEANI  160 (192)
T ss_dssp             HBCHHHHHHHHHHHHHHHHTTEECCEEECCCEEEEEEEEEEETTTTEEEEEEEEEECEEECCEETTTBT--TSSCSCCCC
T ss_pred             HhhHHHHHHHHHHHHHHHHcCCeeeEEEeccceeEEEEEEEecCCCeEEEEEEEEEEEEEEEEecCCCc--EecCCCCcc
Confidence            999999999999999999999999999999977654321      11224556788899999985 799  999999988


Q ss_pred             ccC
Q 013445          433 QPS  435 (443)
Q Consensus       433 ~~~  435 (443)
                      +..
T Consensus       161 ~~v  163 (192)
T d2fxta1         161 LMS  163 (192)
T ss_dssp             CCE
T ss_pred             EEE
Confidence            753

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