Citrus Sinensis ID: 011972

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-------450-------460-------470----

MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

ccHHHHHHHHHHHccccccccccccccccccEEEEccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHccccHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccHHHHHHccccccccccccccccccccccccccccEEEcccccHHHHHHHHHHccccccccccccccccccccHHHHHHHHHccccccccccHHHHHcccccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHcccHHHHHHHccHHHHHHHHHHHHHHHHcccEEccEEEEEcccEEEEEEEcccccEEEEEEEEEEEEEEEcccccEEccccccEEEEEEEEEEEEEcccccccccccccEEEEEEEcccccccc

ccHHHHHHHHHHHcccccHHHHccccccccHEEHcccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHcHHHHHHHHHHccccccEHHHHHHHHcccccccHHHccccccccccccccccccccEEEccccccccEEEccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHcccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcHHHHHHHHHHHHHHHHcccccccEEEEEccEEEEEEEEcccccEEEEEEEEEEEEEEEcccccEEEccccHEEEEEEEEEEEEccccccccccccccHHHHHHHHcccHHcc

MASRKLVRDLFlsrqrprflqltplqgsstRLRLVsangyssnrqfSVFKEFSKKIkgeaesnpefKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssDTAETFYGKlkssisspKFTLAFQKLKEAKVVDLAKKGYDivkdelsgspskrkhleytpspswtgekstrtdlvvtpskKSMWSKLKEKmqgypvfkritgisepvvtkgQEIAEDVRERwetsdnpivhKIQDMNETIFQETDAAASIKEirrrdpsfslpdfVSEVQEAIRPVLSAYMKGDVEtlkkycspeviERCKAEHTAYqshgiffdnrilhvSEVEVRetkmmgssPIIIVAFQTQQiycvrdkhgtiteggkdTIQTVYYAWAMQQVDAeelgedvlypIWKLREMQQLGVQALI

masrklvrdlflsrqrprflqltplqgsstrlRLVSangyssnrqfsvFKEFSKKikgeaesnpefkhsvkELKKKAEeikgvkeelkertkqtteqlykqvdgvWMEAESTVKKVSASMKEKISaateevkgtfrtgstdtsakhdddvrdgfkassgeekqkqtvssdtaETFYGklkssisspKFTLAFQKLKEAKVVDLAKKGYDIVkdelsgspskrkhleytpspswtgekstrtdlvvtpskksmwskLKEKMQGYPVfkritgisepvvtkgqeIAEDVrerwetsdnpivHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYqshgiffdnriLHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

**********F*******FL********************************************************************************QVDGVWM*******************************************************************************KFTLAFQKLKEAKVVDLAKKGYDIV************************************************MQGYPVFKRITGISEPVVTKGQEIAEDVRERWET*DNPIVHKIQDMNETIFQ******************SLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQL******

******V*DLFLSRQR**********************************EFSK******************************************************************KEKISAATEEVKGTFRTGS****************************************************************************************************************************PVFKRITGIS*****************WETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGF****************TAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

****KLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQT*SSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKD****************************DLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGV****

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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

SSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MASRKLVRDLFLSRQRPRFLQLTPLQGSSTRLRLVSANGYSSNRQFSVFKEFSKKIKGEAESNPEFKHSxxxxxxxxxxxxxxxxxxxxxxxxxxxxLYKQVDGVWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSISSPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSKLKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRPVLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI

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		474	2.2.26 [Sep-21-2011]
Q5XF06		469	Mitochondrial import inne	yes	no	0.981	0.991	0.652	0.0
Q1PF33		474	Mitochondrial import inne	no	no	0.987	0.987	0.612	1e-170
O35857		452	Mitochondrial import inne	yes	no	0.371	0.389	0.276	7e-19
O43615		452	Mitochondrial import inne	yes	no	0.371	0.389	0.276	1e-18
O35094		453	Mitochondrial import inne	yes	no	0.371	0.388	0.271	2e-18
O60084		427	Mitochondrial import inne	yes	no	0.348	0.386	0.295	7e-16
Q01852		431	Mitochondrial import inne	yes	no	0.373	0.410	0.295	6e-15
O02161		425	Probable mitochondrial im	yes	no	0.373	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 =  640 bits (1650), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 312/478 (65%), Positives = 388/478 (81%), Gaps = 13/478 (2%)

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 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQI 416
           LKKYCS E+IERC AEH A+ S G FFD+++LHVSEV+++ETKMMG++P+IIV FQTQ+I
Sbjct: 352 LKKYCSKELIERCTAEHRAFTSQGYFFDHKLLHVSEVDIQETKMMGTTPVIIVRFQTQEI 411

Query: 417 YCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI 474
           +CVRD+ G I EGG+DTI TVYY WAMQQVDA ELGED +YPIW+LREM + GVQALI
Sbjct: 412 FCVRDQDGKIKEGGQDTIHTVYYDWAMQQVDAAELGEDAIYPIWRLREMLRAGVQALI 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		474
225438141		485	PREDICTED: mitochondrial import inner me	0.997	0.975	0.724	0.0
297744147		484	unnamed protein product [Vitis vinifera]	0.995	0.975	0.718	0.0
224062145		484	predicted protein [Populus trichocarpa]	0.997	0.977	0.701	0.0
255567254		486	mitochondrial import inner membrane tran	0.997	0.973	0.720	0.0
224085633		485	predicted protein [Populus trichocarpa]	0.997	0.975	0.687	0.0
42569661		469	translocase inner membrane subunit 44-2	0.981	0.991	0.652	0.0
449526090		484	PREDICTED: uncharacterized protein LOC10	0.997	0.977	0.668	0.0
297827085		469	attim44-2 [Arabidopsis lyrata subsp. lyr	0.981	0.991	0.650	1e-176
297836804		477	mitochondrial import inner membrane tran	0.989	0.983	0.636	1e-174
18399377		472	translocase inner membrane subunit 44-1	0.987	0.991	0.615	1e-170

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

 Score =  704 bits (1818), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 352/486 (72%), Positives = 402/486 (82%), Gaps = 13/486 (2%)

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 YMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIII 408
           Y+KGD ETLKKYCSPEVIERCKAEH AYQ+ GI FDN+ILH+S+VEVRETKMMG+SPIII
Sbjct: 360 YIKGDAETLKKYCSPEVIERCKAEHGAYQTMGIIFDNKILHISDVEVRETKMMGTSPIII 419

Query: 409 VAFQTQQIYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQL 468
           VAFQTQQ+YCVR   G+I EGGKDTI TVYYAWAMQQVDAEELGE  +YPIW+LREMQQL
Sbjct: 420 VAFQTQQVYCVRSADGSIKEGGKDTIHTVYYAWAMQQVDAEELGEGAIYPIWRLREMQQL 479

Query: 469 GVQALI 474
           GVQALI
Sbjct: 480 GVQALI 485

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>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\|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\|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\|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

>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		474
TAIR\|locus:2039195		469	TIM44-2 "AT2G36070" [Arabidops	0.981	0.991	0.652	1.4e-165
TAIR\|locus:2054759		474	TIM44-1 "translocase inner mem	0.987	0.987	0.616	1.9e-154
FB\|FBgn0038683		459	CG11779 [Drosophila melanogast	0.755	0.779	0.243	8.7e-23
UNIPROTKB\|F1NU71		447	TIMM44 "Uncharacterized protei	0.784	0.832	0.244	4.7e-21
MGI\|MGI:1343262		452	Timm44 "translocase of inner m	0.793	0.831	0.25	5.7e-20
UNIPROTKB\|F1PSC7		454	TIMM44 "Uncharacterized protei	0.793	0.828	0.235	7.6e-20
UNIPROTKB\|O43615		452	TIMM44 "Mitochondrial import i	0.795	0.834	0.235	1.7e-19
UNIPROTKB\|E1B844		454	TIMM44 "Uncharacterized protei	0.793	0.828	0.230	3.8e-19
UNIPROTKB\|F1SA66		454	TIMM44 "Uncharacterized protei	0.793	0.828	0.225	1.4e-18
RGD\|3864		453	Timm44 "translocase of inner m	0.793	0.830	0.242	2.4e-18

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

 Score = 1611 (572.2 bits), Expect = 1.4e-165, P = 1.4e-165
 Identities = 312/478 (65%), Positives = 388/478 (81%)

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 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQI 416
             LKKYCS E+IERC AEH A+ S G FFD+++LHVSEV+++ETKMMG++P+IIV FQTQ+I
Sbjct:   352 LKKYCSKELIERCTAEHRAFTSQGYFFDHKLLHVSEVDIQETKMMGTTPVIIVRFQTQEI 411

Query:   417 YCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI 474
             +CVRD+ G I EGG+DTI TVYY WAMQQVDA ELGED +YPIW+LREM + GVQALI
Sbjct:   412 FCVRDQDGKIKEGGQDTIHTVYYDWAMQQVDAAELGEDAIYPIWRLREMLRAGVQALI 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

UNIPROTKB\|F1SA66 TIMM44 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

RGD\|3864 Timm44 "translocase of inner mitochondrial membrane 44 homolog (yeast)" [Rattus norvegicus (taxid:10116)]	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	0.6527	0.9810	0.9914	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		474
pfam04280		146	pfam04280, Tim44, Tim44-like domain	7e-45
smart00978		147	smart00978, Tim44, Tim44 is an essential component	3e-35
TIGR00984		378	TIGR00984, 3a0801s03tim44, mitochondrial import in	3e-24
COG4395		281	COG4395, COG4395, Uncharacterized protein conserve	2e-12
PTZ00121		2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-04

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

 Score =  153 bits (389), Expect = 7e-45
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 6/152 (3%)

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

Query: 376 YQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQIYCVRDKHGTITEGGKDTIQ 435
            ++ G+  D+ I+ + + E+ E KM G   ++ V F  Q I    D  G + EG  D   
Sbjct: 61  REAQGLTNDSTIVGIRDAELLEAKMEGDEAVVTVRFVAQLISVTDDASGEVVEGDPDEPV 120

Query: 436 TVYYAWAMQQVDAEELGEDVLYPIWKLREMQQ 467
            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

>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		474
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	99.92
PF07961		235	MBA1: MBA1-like protein; InterPro: IPR024621 Mba1	98.31
KOG2580		459	consensus Mitochondrial import inner membrane tran	98.17
TIGR00984		378	3a0801s03tim44 mitochondrial import inner membrane	96.93
PF13355		117	DUF4101: Protein of unknown function (DUF4101)	95.27
KOG4599		379	consensus Putative mitochondrial/chloroplast ribos	92.08
PF12870		111	Lumazine_bd: Lumazine-binding domain; InterPro: IP	89.85
PF07464		155	ApoLp-III: Apolipophorin-III precursor (apoLp-III)	88.45
PF12893		116	Lumazine_bd_2: Putative lumazine-binding; PDB: 3BL	85.03
PF08332		128	CaMKII_AD: Calcium/calmodulin dependent protein ki	80.5

>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=3.2e-90  Score=703.88  Aligned_cols=409  Identities=31%  Similarity=0.557  Sum_probs=362.3

Q ss_pred             cCCccccccccccCCCC-CCCccchHHHHHHHHHHhhhChhhHHHHHHHHHHHHHHhhhHHHHHHhhHHHHHHHHHhhhh
Q 011972           26 QGSSTRLRLVSANGYSS-NRQFSVFKEFSKKIKGEAESNPEFKHSVKELKKKAEEIKGVKEELKERTKQTTEQLYKQVDG  104 (474)
Q Consensus        26 ~~~~~~~~~~~~~~~~~-~r~~~~f~~f~~~ik~E~~kn~E~qe~ik~l~e~a~kl~~~~e~lk~r~~~~a~~~~k~v~~  104 (474)
                      +++..|+++.+.++||+ +||+|||++|+||||+||+||||||+|||+|++++++|++| ++||     .||++|..+  
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            46888999999999996 79999999999999999999999999999999999999998 5675     599999999  


Q ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHhhhhhccccccccCCCCCcccccccccCchhhhhhhcccCCcchhhhccccccCC
Q 011972          105 VWMEAESTVKKVSASMKEKISAATEEVKGTFRTGSTDTSAKHDDDVRDGFKASSGEEKQKQTVSSDTAETFYGKLKSSIS  184 (474)
Q Consensus       105 ~~~e~e~~~~k~s~~~k~k~~~~~e~v~~~~~~~k~~~s~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~  184 (474)
                           |++++++|+.++.+++++.|.|+...    +++++|.-.   ++.+++.+|..++|+++++.-+++|++|.++.+
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                 88899999999999999988888775    466664332   377888889999999999977777777777777


Q ss_pred             CccchHHHHHhHHHHHHHHHhhhcccccccccCCCCcccccCCCCCCCCCCCCCccceeEEecccchhhHH-HHHhhcCC
Q 011972          185 SPKFTLAFQKLKEAKVVDLAKKGYDIVKDELSGSPSKRKHLEYTPSPSWTGEKSTRTDLVVTPSKKSMWSK-LKEKMQGY  263 (474)
Q Consensus       185 ~~~~s~~~~k~~~~~~~~~~~~~~~~vk~el~~~~~~rkr~~~~~~~~~~~e~~~~t~~v~~~~k~s~w~~-~k~~~~~~  263 (474)
                      .|.+|+.+..+++  -++.++.|..++|+++...+++.+..+.++++++++|.++. +.+|++|++|+||+ |++|+++|
T Consensus       181 yk~vSe~~~~vkk--~~d~s~~g~~i~k~~~r~lr~r~~~~~~~~~~~~~~E~n~~-a~~vv~h~~skw~~kwe~fkek~  257 (459)
T KOG2580|consen  181 YKAVSEVMETVKK--EIDSSRYGLDIVKERPRKLRKRTEFLGDTFPSEKVGEPNEE-AEGVVLHKDSKWYQKWEDFKEKN  257 (459)
T ss_pred             HHHHHHHHHhhcc--cchhhhhhhhchhhhhhhchhhhhhhccCCCcccccCCCcc-eeeEEeccchHHHHHHHHHHhcc
Confidence            7777777776664  45667777777777777554444455666777888997766 44557899999999 99999999


Q ss_pred             ccccccccccCccccccccchHHhhhhhhccccchhhh-------hhcccccccccChHHHHHHHHHhcCCCCChhhHHH
Q 011972          264 PVFKRITGISEPVVTKGQEIAEDVRERWETSDNPIVHK-------IQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVS  336 (474)
Q Consensus       264 p~~~~~~~~~~p~~~k~~e~~~d~k~~~eeSdnP~v~~-------i~di~d~lf~ete~a~al~eIk~~DPsFd~~~Fl~  336 (474)
                      .++++|.               +|+..||+||||+|.-       |.++.+++|.+|+.++++++|+.+||+||.++|++
T Consensus       258 ~~~~k~~---------------~lk~~ydeseN~~i~~~rdvtdki~~~~~g~fsktE~Sev~tei~~iDPsF~~~~Flr  322 (459)
T KOG2580|consen  258 VVVRKFQ---------------ELKKKYDESENPSIRASRDVTDKITDVDGGLFSKTEMSEVLTEIKKIDPSFDKEDFLR  322 (459)
T ss_pred             cchHHHH---------------HHHhhccccccHHHHHHHHHHHhhhhcccccchhhHHHHHHHHHHhcCCCCCcHHHHH
Confidence            9999999               9999999999999954       44555689999999999999999999999999999


Q ss_pred             HHHHHHHH-HHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEeecceeEEEEEEeCCeeEEEEEEEEeE
Q 011972          337 EVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQ  415 (474)
Q Consensus       337 ~are~~ip-IleAy~~GDle~Lk~~csea~y~~~~~~Ik~r~~~G~~~d~kIL~I~~veLv~ak~~e~~pvitVrF~aQq  415 (474)
                      .|+++|+| ||+||.+||+++|++||++++|++|++++++++++|+.+|++||||++|||++++||+++|||||+|++|+
T Consensus       323 ~~ee~IiPnVLeAyvkGD~evLK~wcsea~~~~~aa~~keykk~gv~~d~kILdI~~Vdia~~KmM~d~PVlIitFqaQe  402 (459)
T KOG2580|consen  323 ECEEYIIPNVLEAYVKGDLEVLKKWCSEAPFSQLAAPIKEYKKHGVYFDSKILDIRGVDIASGKMMEDGPVLIITFQAQE  402 (459)
T ss_pred             HHHHhhhHHHHHHHHhccHHHHHHHHhhhHHHHHHHHHHHHHhcCeeecceeeeeccchhHHhhhhccCCEEEEEEeeEE
Confidence            99999999 99999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEcCCCCeecCCCCceeeEeEEEEEEEecccccCCCCCCCCeEEeeeeccccccCC
Q 011972          416 IYCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQALI  474 (474)
Q Consensus       416 I~~vRDk~GeVVEGd~d~i~~v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq~g~~a~~  474 (474)
                      |||+||.+|+|||||||+|++++|+|+|+| |++|+||.. +++|||++|.++|.+++|
T Consensus       403 I~~vRd~~GevveGd~d~i~~v~y~wvl~r-d~~El~~d~-~~~WRLlE~~r~~~~~~~  459 (459)
T KOG2580|consen  403 IMCVRDAKGEVVEGDPDKILRVYYAWVLCR-DQDELNPDE-YAAWRLLEFSRAGTEQFL  459 (459)
T ss_pred             EEEEEcCCCceecCCCCceeeEEeeeeeec-cHhhcCcch-hhhHHHHHHHhccchhcC
Confidence            999999999999999999999999999955 999998644 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

>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

>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

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

>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C	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

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		474
2cw9_A		194	Crystal Structure Of Human Tim44 C-Terminal Domain		6e-17
3qk9_A		222	Yeast Tim44 C-Terminal Domain Complexed With Cymal-		1e-15
2fxt_A		192	Crystal Structure Of Yeast Tim44 Length = 192		3e-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 = 6e-17, Method: Compositional matrix adjust. Identities = 47/169 (27%), Positives = 86/169 (50%), Gaps = 5/169 (2%) Query: 298 IVHKIQDMNETIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVET 356 + K+ D+ +F +T+ + + EI R DP+F F+ + + I P VL A + G+++ Sbjct: 21 LTDKVTDLLGGLFSKTEXSEVLTEILRVDPAFDKDRFLKQCENDIIPNVLEAXISGELDI 80 Query: 357 LKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMGSSPIIIVAFQTQQI 416 LK +C + ++ G+ F +RIL + V++ K + P++I+ FQ Q + Sbjct: 81 LKDWCYEATYSQLAHPIQQAKALGLQFHSRILDIDNVDLAXGKXVEQGPVLIITFQAQLV 140 Query: 417 YCVRDKHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREM 465 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		474
3qk9_A		222	Mitochondrial import inner membrane translocase S	5e-53
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	1e-41
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-10

>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 (449), Expect = 5e-53
 Identities = 57/201 (28%), Positives = 98/201 (48%), Gaps = 9/201 (4%)

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

Query: 337 EVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEV 395
            ++E I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D RIL +  VE+
Sbjct: 83  HLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEI 142

Query: 396 RETKMMG--SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELG 452
              K++     P+++V  + Q+I   R  K G I  G +  I    YA    + D E++ 
Sbjct: 143 VSAKLLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTR-DPEQID 201

Query: 453 EDVLYPIWKLREMQQLGVQAL 473
           +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		474
3qk9_A		222	Mitochondrial import inner membrane translocase S	100.0
2cw9_A		194	Translocase of inner mitochondrial membrane; struc	100.0
4hyz_A		114	Uncharacterized protein; PF13026 family protein, D	88.41
3gzr_A		146	Uncharacterized protein with A NTF2-like fold; str	84.03
2f86_B		143	Hypothetical protein K11E8.1D; UNC-43, oligomeriza	83.52
2ux0_A		143	Calcium-calmodulin dependent protein kinase (CAM I	83.15
3soy_A		145	NTF2-like superfamily protein; structural genomics	82.26
3h51_A		156	Putative calcium/calmodulin dependent protein KIN	80.49
3f7s_A		142	Uncharacterized NTF2-like protein; structural geno	80.04

>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=2e-56  Score=431.89  Aligned_cols=206  Identities=27%  Similarity=0.527  Sum_probs=162.4

Q ss_pred             hhhHH-HHHhhcCCccccccccccCccccccccchHHhhhh-hhccccchhhhhhccccc---ccccChHHHHHHHHHhc
Q 011972          251 SMWSK-LKEKMQGYPVFKRITGISEPVVTKGQEIAEDVRER-WETSDNPIVHKIQDMNET---IFQETDAAASIKEIRRR  325 (474)
Q Consensus       251 s~w~~-~k~~~~~~p~~~~~~~~~~p~~~k~~e~~~d~k~~-~eeSdnP~v~~i~di~d~---lf~ete~a~al~eIk~~  325 (474)
                      .+|++ |++|+++||++++|+               |||++ |||||||+|+++|+|+|+   ||++|+++++|++|+++
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 999999999999999984   89999999999999999


Q ss_pred             CCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCcccceEEeecceeEEEEEEeC--
Q 011972          326 DPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMMG--  402 (474)
Q Consensus       326 DPsFd~~~Fl~~are~~ip-IleAy~~GDle~Lk~~csea~y~~~~~~Ik~r~~~G~~~d~kIL~I~~veLv~ak~~e--  402 (474)
                      ||+||+++|+++|+++|+| ||+||.+||++.||+||++++|+.|+++|++|.++|+++++++|+|++++|+++++++  
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 011972          403 SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVLYPIWKLREMQQLGVQAL  473 (474)
Q Consensus       403 ~~pvitVrF~aQqI~~vRD-k~GeVVEGd~d~i~~v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq~g~~a~  473 (474)
                      +.|+|+|+|++|||+|+|| ++|+||+|+|++|.++.|+|+|+| ++++++ +..+|+|+|++|||.|+.+.
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 999999999999999999999976 666554 23458999999999997654

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

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

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

>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

>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

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		474
d2fxta1		192	d.17.4.13 (A:234-425) Translocase of inner mitocho	2e-48
d2cw9a1		182	d.17.4.13 (A:270-451) Translocase of inner mitocho	3e-41

>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 =  163 bits (413), Expect = 2e-48
 Identities = 54/189 (28%), Positives = 95/189 (50%), Gaps = 10/189 (5%)

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

Query: 341 AIRP-VLSAYMKGDVETLKKYCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETK 399
            I P +L AY+KGDV+ LKK+ S        A+   ++   ++ D RIL +  VE+   K
Sbjct: 63  YIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAK 122

Query: 400 MMG--SSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQTVYYAWAMQQVDAEELGEDVL 456
           ++     P+++V  + Q+I   R  K G I  G +  I    YA    + D E++ +D  
Sbjct: 123 LLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTR-DPEQIDDDE- 180

Query: 457 YPIWKLREM 465
              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		474
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	92.07
d2r4ia1		122	Uncharacterized protein CHU142 {Cytophaga hutchins	90.54
d3cnxa1		153	Uncharacterized protein SAV4671 {Streptomyces aver	89.52
d2rcda1		127	Uncharacterized protein ECA3500 {Pectobacterium at	88.11
d3cu3a1		162	Uncharacterized protein NpunR1993 {Nostoc punctifo	85.44
d3bb9a1		121	Uncharacterized protein Sfri1973 {Shewanella frigi	85.06

>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=5.5e-47  Score=356.55  Aligned_cols=181  Identities=29%  Similarity=0.583  Sum_probs=167.5

Q ss_pred             HHhhhh-hhccccchhhhhhcccc---cccccChHHHHHHHHHhcCCCCChhhHHHHHHHHHHH-HHHHHHcCCHHHHHh
Q 011972          285 EDVRER-WETSDNPIVHKIQDMNE---TIFQETDAAASIKEIRRRDPSFSLPDFVSEVQEAIRP-VLSAYMKGDVETLKK  359 (474)
Q Consensus       285 ~d~k~~-~eeSdnP~v~~i~di~d---~lf~ete~a~al~eIk~~DPsFd~~~Fl~~are~~ip-IleAy~~GDle~Lk~  359 (474)
                      ++||++ |||||||+|...++|+|   ++|++|+++++|++||++||+||..+|+.+|+.+|+| |++||++||++.|++
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 99999999977777776   6999999999999999999999999999999999996 999999999999999


Q ss_pred             hcCHHHHHHHHHHHHHHHhCCCcccceEEeecceeEEEEEEe--CCeeEEEEEEEEeEEEEEEc-CCCCeecCCCCceee
Q 011972          360 YCSPEVIERCKAEHTAYQSHGIFFDNRILHVSEVEVRETKMM--GSSPIIIVAFQTQQIYCVRD-KHGTITEGGKDTIQT  436 (474)
Q Consensus       360 ~csea~y~~~~~~Ik~r~~~G~~~d~kIL~I~~veLv~ak~~--e~~pvitVrF~aQqI~~vRD-k~GeVVEGd~d~i~~  436 (474)
                      ||++++|+.|+++|++|.++|.++++++|+|++++|++++++  ++.|+|+|+|+||||+|+|| ++|+||+|+++.+..
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 011972          437 VYYAWAMQQVDAEELGEDVLYPIWKLREMQQ  467 (474)
Q Consensus       437 v~yvW~f~r~d~eel~~~~~~~~WrL~eiqq  467 (474)
                      +.|+|+|+| +....+|+ .+++|+|++|+|
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 55554432 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

>d2r4ia1 d.17.4.15 (A:1-122) Uncharacterized protein CHU142 {Cytophaga hutchinsonii [TaxId: 985]}	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

>d2rcda1 d.17.4.18 (A:1-127) Uncharacterized protein ECA3500 {Pectobacterium atrosepticum [TaxId: 29471]}	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

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