Citrus Sinensis ID: 023459

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280--
Protein Sequence
MAESTAVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAAVTAAAVVCVCYARCR
Secondary Structure (PSIPRED)
ccHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHcHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MAESTAVAIngvddqttedffdpdqdgsnnkvTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESElgnckseknSAEKTVKEMDERILLWQKEIEEAEKVIAGLkdktldgvngtardvklngdgeeedsrlnWQLPLAAVTAAAVVCVCYARCR
Flexible Loop (DISEMBL)
MAESTAVaingvddqttedffdpdqdgsnnkvteltkkveslelenkemkgtikkltieiegseedkRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRvlgekgvkleelerevdglkkekvesekkvrelernvgllevremeekskrvrveeemrekldekdreisgfkkkvddleselgnckseknsaektvKEMDERILLWQKEIEEAEKVIaglkdktldgvngtardvklngdgeeedsrlnWQLPLAAVTAAAVVCVCYARCR
Low Complexity Region (SEG)
MAESTAVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRvlgekgvkleelerevDGlkkekvesekkvrelerNVGLLevremeekskrvrveeemrekLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLaavtaaavvcvcyaRCR
Disordered region (IsUnstruct)
********************************************************************************************************************************************************************************************************************RILLWQKEIEEAEKVIAGLKDKTLDGVN*****************RLNWQLPLAAVTAAAVVCVCYAR**
Disordered Region (DISOPRED)
***********************************************************************************************************************************************************************************************************************************************************************PLAAVTAAAVVCVCYARCR
Disordered Region (DISEMBL)
MAESTAVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAAVTAAAVVCVCYARCR
Disordered Region (DISPRO)
*****AVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAAVTAAAVVCVCYARCR
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAESTAVAINGVDDQTTEDFFDPDxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGDELGAExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxExxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAAVTAAAVVCVCYARCR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	282
449450848	330	PREDICTED: uncharacterized protein LOC10	0.897	0.766	0.447	3e-49
224085302	303	predicted protein [Populus trichocarpa]	0.918	0.854	0.432	2e-46
255558740	275	protein with unknown function [Ricinus c	0.868	0.890	0.406	1e-38
225446863	327	PREDICTED: uncharacterized protein LOC10	0.957	0.825	0.371	2e-37
147816954	480	hypothetical protein VITISV_030011 [Viti	0.957	0.562	0.371	3e-37
297820720	318	hypothetical protein ARALYDRAFT_486343 [	0.939	0.833	0.398	2e-35
224062756	303	predicted protein [Populus trichocarpa]	0.904	0.841	0.431	1e-34
357494325	345	hypothetical protein MTR_5g091710 [Medic	0.953	0.779	0.373	4e-33
356553631	313	PREDICTED: uncharacterized protein LOC10	0.964	0.869	0.377	6e-33
15221511	323	tropomyosin-related protein [Arabidopsis	0.829	0.724	0.386	7e-33

>gi|449450848|ref|XP_004143174.1| PREDICTED: uncharacterized protein LOC101216888 [Cucumis sativus]

 Score =  201 bits (511), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 133/297 (44%), Positives = 188/297 (63%), Gaps = 44/297 (14%)

Query: 13  DDQTTEDFFDPDQDGSNNKVTELTKKVESLELE-------NKEMKGTIKKLTIEIEG--- 62
           DDQ  EDF+D DQ  ++ KV EL +++E LE E       N+++K  I+ L+ EIEG   
Sbjct: 15  DDQNPEDFYDVDQRENDAKVAELNQRIEVLEREKKKLVDENEQIKDRIEILSAEIEGLKS 74

Query: 63  ------------------SEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAE 104
                             +EE  ++LESVAARA ELE EV+RLQHDL+++M+  D+  AE
Sbjct: 75  EEGTLKERLKEMEKQVKSAEEGNKVLESVAARALELETEVARLQHDLISTMNGADDANAE 134

Query: 105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRV 164
           V  L++ LGEK V +  +E E++ LKK K E E+KVRELER VG+LEV+E+EEKSK+VRV
Sbjct: 135 VERLRKSLGEKAVNVTAVEEELEALKKAKAEGERKVRELERKVGVLEVKEIEEKSKKVRV 194

Query: 165 EEEMREKLDEKDREISGFKKKVDDLES-------ELGNCKSEK-------NSAEKTVKEM 210
           EEEMR++++EK+ EI+ FKK + DLES       EL     EK         +E+  K +
Sbjct: 195 EEEMRDRIEEKEMEITSFKKTIMDLESVITKNGLELDRWIKEKLKVEELLKESEEKTKMV 254

Query: 211 DERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAA 267
           + +++  QKE+EEA KVI GLK+K ++ +NGTA ++K    G E++  LNW  P+ A
Sbjct: 255 ESKMVQLQKEVEEAHKVICGLKEKAVNALNGTAEELKSAFKGAEKELNLNW--PIIA 309

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224085302|ref|XP_002307541.1| predicted protein [Populus trichocarpa] gi|222856990|gb|EEE94537.1| predicted protein [Populus trichocarpa]

 Score =  192 bits (487), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 141/326 (43%), Positives = 195/326 (59%), Gaps = 67/326 (20%)

Query: 1   MAESTAVAINGVDDQTT--EDFFDPDQDGSNNKVTELTKKVESLELE-------NKEMKG 51
           MA+ TA+  NGV+D     E+F+D DQ G N   T+L +K+ESLE E       NK +K 
Sbjct: 1   MADETAMT-NGVNDYQMAEENFYDLDQ-GENE--TKLKQKIESLETEKYSLADENKGIKY 56

Query: 52  TIKKLTIEIEG---------------------SEEDKRILESVAARAEELEIEVSRLQHD 90
            + KL  EIE                      SEE +R LES+A RA ELE   SRLQHD
Sbjct: 57  QVAKLAAEIESLKSEESSLKLRIAELEREVEKSEETQRTLESIAGRAVELETSASRLQHD 116

Query: 91  LVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL 150
           L++++SEGDE   E  ELKRV+ +K VK+EE       +KKEK E+E K +ELER VG+L
Sbjct: 117 LISAVSEGDEAHKEAGELKRVVSQKEVKIEE-------VKKEKAETEMKAKELERKVGVL 169

Query: 151 EVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEK----- 205
           E++E+ EK+K+VR+ EEMREK+ EKD EI   KK++++LES++    +EK S EK     
Sbjct: 170 ELKEIGEKNKKVRLGEEMREKMSEKDMEIFECKKRIEELESQV----AEKESLEKKLRET 225

Query: 206 --TVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQL 263
              VKEM+ +++  QKE++EAEKV+ GL+++T + +NG   ++K    G         Q 
Sbjct: 226 EEKVKEMEGKLVELQKEVQEAEKVVGGLQERTGEVINGI--EIKSREKG------FKVQP 277

Query: 264 PLAAV-------TAAAVVCVCYARCR 282
           P+ A+        AAAV+ VCYAR R
Sbjct: 278 PVVAIGSVGAILAAAAVIYVCYARRR 303

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255558740|ref|XP_002520394.1| protein with unknown function [Ricinus communis] gi|223540441|gb|EEF42010.1| protein with unknown function [Ricinus communis]

 Score =  166 bits (419), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 119/293 (40%), Positives = 180/293 (61%), Gaps = 48/293 (16%)

Query: 9   INGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLE-------LENKEMKGTIKKLTIEIE 61
           +NGV         + ++D +    T+L++K+E+LE        EN+ +K  + KLT EIE
Sbjct: 8   VNGV-------ALEENEDKTAENETKLSQKIEALENEKILLVKENEGVKDQVVKLTAEIE 60

Query: 62  -------GSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGE 114
                   +E  K+ L++VAARA +LE EVSRLQHDL+++MS  DE   E+ ELK+++GE
Sbjct: 61  LLRSKESDAEAQKKALDAVAARASQLETEVSRLQHDLISAMSAEDEANNEIRELKKIIGE 120

Query: 115 KGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDE 174
           K   +EE       +KKEKVE E+KVRELER +G+LEV+E+EE+SKRVR+EEEMREK+DE
Sbjct: 121 KETDIEE-------VKKEKVEIERKVRELERKIGVLEVKEIEERSKRVRIEEEMREKIDE 173

Query: 175 KDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
           K++E+  +K K  +LE+   N   +   +E+  +E++ ++   QK++EE EK    +K++
Sbjct: 174 KEKEVFAYKNKFLELEN---NSAKKLEKSEERAREIEGKVAEMQKKLEETEK----MKER 226

Query: 235 TLDGVNGTARDVKLNGDGEEEDSRLNWQLPL-------AAVTAAAVVCVCYAR 280
           +L+GVNG      + G+  E + +     P+       A V A AV  VC AR
Sbjct: 227 SLEGVNG------IGGESTETEYKKMMDWPVIALGSTGAIVAALAVGYVCCAR 273

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446863|ref|XP_002283816.1| PREDICTED: uncharacterized protein LOC100247157 [Vitis vinifera]

 Score =  161 bits (408), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 119/320 (37%), Positives = 189/320 (59%), Gaps = 50/320 (15%)

Query: 8   AINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEM-------KGTIKKLTIE- 59
           AING DDQT E+F+D D++ ++ K+ ELT+KV  LE E  ++       K  ++KLT E 
Sbjct: 10  AING-DDQTNENFYDLDRE-NDIKIAELTRKVGVLEQEKADLIREYDGVKQRVEKLTAES 67

Query: 60  --------------------IEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGD 99
                               IE SE DK+ L+ + ARA ELE EVSRLQHDL+++ SE D
Sbjct: 68  EEMKSDKDEMEKKLEEMMREIERSESDKKALDVIGARAVELETEVSRLQHDLISASSEAD 127

Query: 100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKS 159
           E  AEV +LKR+L EK +++E LE+E   ++KEK E+E ++R+LE  + ++EV+E +   
Sbjct: 128 EANAEVMQLKRILEEKELRVENLEKEKGLIEKEKGENESRLRDLEEKIRVMEVKESKTNE 187

Query: 160 KRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK--------NSAEKTVKEMD 211
           +++++E+E +EK+DEK+REIS  K  +++L++ + + K ++        N  ++ +++ +
Sbjct: 188 EKIKIEQETKEKIDEKEREISNLKSDIEELKASIEHLKMQQKQDEEMRSNELKEALRKCN 247

Query: 212 ERILLWQKEIEEA-----EKVIAG--LKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLP 264
           E+    +  +++A     E  +A   L+D   +GVNG A D    GD EE      WQ+ 
Sbjct: 248 EKAQYTESALDQALEEARELKVASKTLQDTQYEGVNGIASDSD-TGDVEERPLGFKWQVA 306

Query: 265 L--AAVTAAAVVCVCYARCR 282
           +   A+TAAA   VCY R R
Sbjct: 307 IFTGAITAAA--AVCYLRYR 324

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147816954|emb|CAN71058.1| hypothetical protein VITISV_030011 [Vitis vinifera]

 Score =  161 bits (408), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 119/320 (37%), Positives = 189/320 (59%), Gaps = 50/320 (15%)

Query: 8   AINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEM-------KGTIKKLTIE- 59
           AING DDQT E+F+D D++ ++ K+ ELT+KV  LE E  ++       K  ++KLT E 
Sbjct: 163 AING-DDQTNENFYDLDRE-NDIKIAELTRKVGVLEQEKADLIREYDGVKQRVEKLTAES 220

Query: 60  --------------------IEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGD 99
                               IE SE DK+ L+ + ARA ELE EVSRLQHDL+++ SE D
Sbjct: 221 EEMKSDKDEMEKKLEEMMREIERSESDKKALDVIGARAVELETEVSRLQHDLISASSEAD 280

Query: 100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKS 159
           E  AEV +LKR+L EK +++E LE+E   ++KEK E+E ++R+LE  + ++EV+E +   
Sbjct: 281 EANAEVMQLKRILEEKELRVENLEKEKGLIEKEKGENESRLRDLEEKIRVMEVKESKTNE 340

Query: 160 KRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK--------NSAEKTVKEMD 211
           +++++E+E +EK+DEK+REIS  K  +++L++ + + K ++        N  ++ +++ +
Sbjct: 341 EKIKIEQETKEKIDEKEREISNLKSDIEELKASIEHLKMQQKQDEEMRSNELKEALRKCN 400

Query: 212 ERILLWQKEIEEA-----EKVIAG--LKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLP 264
           E+    +  +++A     E  +A   L+D   +GVNG A D    GD EE      WQ+ 
Sbjct: 401 EKAQYTESALDQALEEARELKVASKTLQDTQYEGVNGIASDSD-TGDVEERPLGFKWQVA 459

Query: 265 L--AAVTAAAVVCVCYARCR 282
           +   A+TAAA   VCY R R
Sbjct: 460 IFTGAITAAA--AVCYLRYR 477

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297820720|ref|XP_002878243.1| hypothetical protein ARALYDRAFT_486343 [Arabidopsis lyrata subsp. lyrata] gi|297324081|gb|EFH54502.1| hypothetical protein ARALYDRAFT_486343 [Arabidopsis lyrata subsp. lyrata]

 Score =  155 bits (392), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 128/321 (39%), Positives = 179/321 (55%), Gaps = 56/321 (17%)

Query: 12  VDDQTTEDFFDPDQDGSNN-----KVTELTKKVESLELENKEMKGTIKKLTIEIEG---- 62
           V+++  +   D DQ G        K+ E+  K + L  EN+E+K  +++LT EIE     
Sbjct: 4   VENRAAKGISDYDQGGGKTTELERKIAEMENKSQELTKENRELKERLERLTGEIEEMKGV 63

Query: 63  -SEEDKRI----------------LESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEV 105
            +E ++R                 LESV+ RA ELE EVS LQ DL+TS++  D+   EV
Sbjct: 64  EAEMNQRFGEMEKEIEEYEEEKKALESVSTRAVELETEVSNLQDDLITSLNGVDKTAEEV 123

Query: 106 AELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVE 165
           AELK+ L EKG KLE  E+E +GL+K++ E EK+VR+LER +G+LEVREMEEKSK++R+E
Sbjct: 124 AELKKALAEKGEKLEGYEKEAEGLRKDRAEVEKRVRDLERKIGVLEVREMEEKSKKLRLE 183

Query: 166 EEMREKLDEKDREISGFKKKVDDLE-------SELGNCKSEKNSAEKTV-------KEMD 211
           EEMRE  DEK REI   +K V  L         EL   KSEK   E+ +       KEM+
Sbjct: 184 EEMRELADEKQREIDELQKTVGALNLELVKNVEELAKRKSEKKLTEEALSVTQKREKEME 243

Query: 212 ---ERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPL--- 265
              E +L   K++EE  K + GL ++T+   NG  RD   NG  ++      +Q P+   
Sbjct: 244 LEKEDLL---KKVEEGNKTVFGLNERTMKPSNGV-RDT--NGSDQKGSMEAEFQWPVVAA 297

Query: 266 ----AAVTAAAVVCVCYARCR 282
               AA   AA + VCY++ R
Sbjct: 298 GSVGAAGLVAATLFVCYSKLR 318

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224062756|ref|XP_002300884.1| predicted protein [Populus trichocarpa] gi|222842610|gb|EEE80157.1| predicted protein [Populus trichocarpa]

 Score =  153 bits (386), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 135/313 (43%), Positives = 189/313 (60%), Gaps = 58/313 (18%)

Query: 10  NGVDDQ--TTEDFFDPDQDGSNNKVTELTKKVESLELE-------NKEMKGTIKKLTI-- 58
           NGV++     ++F+D DQ     + TEL +K+ SLE E       N+E+K  ++KLT   
Sbjct: 9   NGVEENQVAVDNFYDLDQ---GERETELKQKIASLETEKKSLADENEEIKCQVEKLTAKF 65

Query: 59  -------------------EIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGD 99
                              E+E SEE +R LES+A RA ELE  VSRLQHDL+++MSEGD
Sbjct: 66  ESMKSEESSLKLRVAELEREVEQSEETQRALESIAGRAAELETNVSRLQHDLISAMSEGD 125

Query: 100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKS 159
           E   EVAELKR       ++ E E +++ +KKEK E+EKKVRELER +G+LEV+E+EEKS
Sbjct: 126 EANKEVAELKR-------EVSEKEVKIEEVKKEKSEAEKKVRELERKIGVLEVKEIEEKS 178

Query: 160 KRVRVEEEMREKLDEKDREISGFKKKVDDLES---ELGNCKSEKNSAEKTVKEMDERILL 216
           K+VR+EE+MREK+ EKD+EI   KK++ +LES   E    + +   +E+ VKEM+ +++ 
Sbjct: 179 KKVRLEEDMREKVTEKDKEIIDCKKRIKELESLVVEKERLEKKLRESEEKVKEMEGKMVG 238

Query: 217 WQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQLPLAAVTA------ 270
            QKE +EAEKVI GLK++  + +NG   D +  G           Q P+ A+ +      
Sbjct: 239 LQKEAKEAEKVIGGLKERAREVINGIEIDSREKG--------FKVQSPVVAIGSVGAVAV 290

Query: 271 -AAVVCVCYARCR 282
            AAVV VCY R R
Sbjct: 291 AAAVVYVCYWRRR 303

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357494325|ref|XP_003617451.1| hypothetical protein MTR_5g091710 [Medicago truncatula] gi|355518786|gb|AET00410.1| hypothetical protein MTR_5g091710 [Medicago truncatula]

 Score =  147 bits (372), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 120/321 (37%), Positives = 186/321 (57%), Gaps = 52/321 (16%)

Query: 3   ESTAVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIE--- 59
           E   +A +GV +   +D +   +D S  K++ L K+ + L  EN E K  IKKLT+E   
Sbjct: 31  EKLTMADDGVSNGVVDDQY---EDQSVTKISALEKERDELVQENNEKKEEIKKLTLEMEE 87

Query: 60  ------------------IEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDEL 101
                             +E S++  +  E +AARA +LE +++R+QHD++T MS G+E+
Sbjct: 88  LRSKGEEMREKIEEMRDVVEKSQDSAKAAEVIAARAADLETQIARMQHDMITDMSAGEEM 147

Query: 102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKR 161
             E   LK VL +K  ++EEL +EV+GLKK K ESE +V++LE+ +G+LE++E+EE++KR
Sbjct: 148 KKEAEGLKEVLKDKEGRVEELVKEVEGLKKVKAESEARVKDLEKRIGVLEMKEIEERNKR 207

Query: 162 VRVEEEMREKLDEKDREISGFKKKVDDLES-------ELGNCKSEKNSAEKTVKEMDER- 213
           +RVEEE+R+ + EKDREI GF+ KV++LE        E G+  +EK S EK ++E +E+ 
Sbjct: 208 IRVEEELRDTIGEKDREIDGFRNKVEELEKVGAEKKDEAGDWLNEKLSYEKALRESEEKA 267

Query: 214 ------ILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNG-DGEEEDSRLNWQLPLA 266
                 I+   +E+ E+ K+I  L +K  + V    R++  NG  GEE+D +L W  P+ 
Sbjct: 268 KGFESQIVQLLEEVGESGKMIKSLNEKAAEIV---GREI--NGIHGEEKDFKLQW--PIV 320

Query: 267 AVTAAAVVCV------CYARC 281
           A  A   V V       Y  C
Sbjct: 321 AAGAGTTVAVFGAAALIYVYC 341

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356553631|ref|XP_003545158.1| PREDICTED: uncharacterized protein LOC100814031 [Glycine max]

 Score =  147 bits (371), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 122/323 (37%), Positives = 181/323 (56%), Gaps = 51/323 (15%)

Query: 1   MAESTAVAINGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEI 60
           MA+       GVDDQ  E+        S  K+  L ++ + L  EN   K  IKKLT E+
Sbjct: 1   MADEGVANGGGVDDQYGEE--------SATKIAALQRERDELVSENVARKEEIKKLTAEL 52

Query: 61  EG---------------------SEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGD 99
           +G                     S +  +  E +AARA +LE EV+RL HD+V+ M+  +
Sbjct: 53  DGLRSDGADKSEKIEELQREVEQSRDAAKATEVIAARAADLETEVARLHHDMVSEMTAAE 112

Query: 100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKS 159
           E  A+ AEL++V GEK  ++E LE E+ GLKK K ES+ +VR+LER +G+LE +E+EE++
Sbjct: 113 EARADAAELRKVFGEKESRVESLENELAGLKKVKAESDVRVRDLERKIGVLETKEIEERN 172

Query: 160 KRVRVEEEMREKLDEKDREISGFKKKVDDLE-------SELGNCKSEKNSAEKTVKEMDE 212
           KR+R EEE R+K+DEK+REI G+++KV++LE       +EL     +K   E+ ++E +E
Sbjct: 173 KRIRFEEETRDKIDEKEREIKGYRQKVEELEKVAAEKKTELDELVKQKLRLEEALRESEE 232

Query: 213 R-------ILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNG-DGEEEDSRLNWQLP 264
           +       IL  +KE +EAE+VI  L +K ++ V    R   LNG   E +  +L W + 
Sbjct: 233 KVTGLESSILQLRKEAKEAERVIISLNEKAVETVESIDRG--LNGVHSEGKGLKLQWPVV 290

Query: 265 LAAVTA-----AAVVCVCYARCR 282
            A  T      AAV+ VCY + R
Sbjct: 291 AAGSTGAVVAAAAVIYVCYGKRR 313

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221511|ref|NP_172140.1| tropomyosin-related protein [Arabidopsis thaliana] gi|6692690|gb|AAF24824.1|AC007592_17 F12K11.14 [Arabidopsis thaliana] gi|332189881|gb|AEE28002.1| tropomyosin-related protein [Arabidopsis thaliana]

 Score =  147 bits (370), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 107/277 (38%), Positives = 168/277 (60%), Gaps = 43/277 (15%)

Query: 8   AING-VDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEM-------KGTIKKLTIE 59
           ++NG    Q  E FFD DQ G + K TEL +K+  LE +N+E+          I+ LT E
Sbjct: 6   SLNGEATGQDDESFFDSDQQGDDGKSTELNQKIGDLESQNQELARDNDAINRKIESLTAE 65

Query: 60  IE---------------------GSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEG 98
           IE                      S+E++++LE++A+RA ELE EV+RLQH+L+T+ +EG
Sbjct: 66  IEELRGAESKAKRKMGEMEREIDKSDEERKVLEAIASRASELETEVARLQHELITARTEG 125

Query: 99  DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEK 158
           +E  AE  +L+  + +KG  +EELE+EV GL+  K E+EK+++ELE  +G LEV+E++EK
Sbjct: 126 EEATAEAEKLRSEISQKGGGIEELEKEVAGLRTVKEENEKRMKELESKLGALEVKELDEK 185

Query: 159 SKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNS--------------AE 204
           +K+ R EEEMREK+D K++E+   K+K+  LES++   K+E                 +E
Sbjct: 186 NKKFRAEEEMREKIDNKEKEVHDLKEKIKSLESDVAKGKTELQKWITEKMVVEDSLKDSE 245

Query: 205 KTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNG 241
           K V  ++  I+  QK++++AEK+I GLK+   + +NG
Sbjct: 246 KKVVALESEIVELQKQLDDAEKMINGLKNVVEEPLNG 282

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	282
TAIR|locus:2009215	323	PMD2 "AT1G06530" [Arabidopsis	0.304	0.266	0.406	1.2e-22
TAIR|locus:2099114	318	PMD1 "peroxisomal and mitochon	0.283	0.251	0.412	5.6e-15
DICTYBASE|DDB_G0288069	1082	DDB_G0288069 [Dictyostelium di	0.312	0.081	0.325	3.6e-05
UNIPROTKB|E2RDK6	979	SYCP1 "Uncharacterized protein	0.283	0.081	0.321	6.8e-05
MGI|MGI:1098230	2474	Cenpe "centromere protein E" [	0.358	0.040	0.291	0.00012
UNIPROTKB|J9NX31	979	SYCP1 "Uncharacterized protein	0.265	0.076	0.329	0.00026
SGD|S000004300	911	IMH1 "Protein involved in vesi	0.301	0.093	0.260	0.00059
TAIR|locus:2145141	853	AT5G52280 "AT5G52280" [Arabido	0.237	0.078	0.333	0.0008

TAIR|locus:2009215 PMD2 "AT1G06530" [Arabidopsis thaliana (taxid:3702)]

 Score = 185 (70.2 bits), Expect = 1.2e-22, Sum P(2) = 1.2e-22
 Identities = 35/86 (40%), Positives = 59/86 (68%)

Query:    24 DQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIE 83
             D D  N K+  LT ++E L     + K  + ++  EI+ S+E++++LE++A+RA ELE E
Sbjct:    51 DNDAINRKIESLTAEIEELRGAESKAKRKMGEMEREIDKSDEERKVLEAIASRASELETE 110

Query:    84 VSRLQHDLVTSMSEGDELGAEVAELK 109
             V+RLQH+L+T+ +EG+E  AE  +L+
Sbjct:   111 VARLQHELITARTEGEEATAEAEKLR 136

GO:0005739 "mitochondrion" evidence=IDA

GO:0009536 "plastid" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0031307 "integral to mitochondrial outer membrane" evidence=IDA

GO:0007005 "mitochondrion organization" evidence=IMP

TAIR|locus:2099114 PMD1 "peroxisomal and mitochondrial division factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 150 (57.9 bits), Expect = 5.6e-15, Sum P(2) = 5.6e-15
 Identities = 33/80 (41%), Positives = 51/80 (63%)

Query:    31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHD 90
             ++  LT ++E ++    EM     ++  EIE  EE+K+ LE+++ RA ELE EVS L  D
Sbjct:    49 RLERLTGEIEEMKDVEAEMNQRFGEMEKEIEEYEEEKKALEAISTRAVELETEVSNLHDD 108

Query:    91 LVTSMSEGDELGAEVAELKR 110
             L+TS++  D+   EVAELK+
Sbjct:   109 LITSLNGVDKTAEEVAELKK 128

GO:0005737 "cytoplasm" evidence=ISM

GO:0005739 "mitochondrion" evidence=IDA

GO:0009536 "plastid" evidence=IDA

GO:0005777 "peroxisome" evidence=IDA

GO:0005778 "peroxisomal membrane" evidence=IDA

GO:0007005 "mitochondrion organization" evidence=IMP

GO:0007031 "peroxisome organization" evidence=IMP

GO:0031966 "mitochondrial membrane" evidence=IDA

DICTYBASE|DDB_G0288069 DDB_G0288069 [Dictyostelium discoideum (taxid:44689)]

 Score = 101 (40.6 bits), Expect = 3.6e-05, Sum P(2) = 3.6e-05
 Identities = 29/89 (32%), Positives = 47/89 (52%)

Query:   174 EKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD 233
             ++  E    KK+++D E  + N K +K   EK  KE ++RI L +K+ E+ EK IA  K 
Sbjct:   496 KQQEEAIAEKKRLEDEEKRIANEK-KKQEEEKKRKEEEKRIALEKKKQEDEEKRIALEKK 554

Query:   234 KTLDGVNGTARDVKLNGDGEEEDSRLNWQ 262
             K  D     A + K   + E+E+ R+  +
Sbjct:   555 KQEDEDKRIAMEKKRKEEKEKEEKRIEME 583

GO:0005615 "extracellular space" evidence=IDA

GO:0003950 "NAD+ ADP-ribosyltransferase activity" evidence=IEA

UNIPROTKB|E2RDK6 SYCP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 96 (38.9 bits), Expect = 6.8e-05, Sum P(2) = 6.8e-05
 Identities = 27/84 (32%), Positives = 43/84 (51%)

Query:    26 DGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEED----KRILESVAARAEELE 81
             +  N K TEL      L LENKE+      + +EI+  +ED    K+  E +  + E+LE
Sbjct:   508 ENENLKTTELNASCNRLSLENKELAQETSDMALEIKKQQEDIDNSKKQEEMMLKQIEKLE 567

Query:    82 IEVSRLQHDLVTSMSEGDELGAEV 105
                ++L+++LV+   E    G EV
Sbjct:   568 ETETQLRNELVSVREELKRKGDEV 591

GO:0007130 "synaptonemal complex assembly" evidence=IEA

GO:0000795 "synaptonemal complex" evidence=IEA

MGI|MGI:1098230 Cenpe "centromere protein E" [Mus musculus (taxid:10090)]

 Score = 97 (39.2 bits), Expect = 0.00012, Sum P(2) = 0.00012
 Identities = 30/103 (29%), Positives = 49/103 (47%)

Query:     9 INGVDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEED-K 67
             ++G+D+Q  E        G +N+VTE  +K++SL  EN  ++ T++ +  E E  + D K
Sbjct:  1011 MDGIDEQN-ESAHTLLGGGKDNEVTEEQRKIDSLMQENSGLQQTLESVRAEKEQLKMDLK 1069

Query:    68 RILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR 110
               +E      EEL I    L+     +  E D    +  EL R
Sbjct:  1070 ENIEMSIENQEELRILRDELKRQQEVAAQEKDHATEKTQELSR 1112

GO:0000166 "nucleotide binding" evidence=IEA

GO:0000775 "chromosome, centromeric region" evidence=ISO

GO:0000776 "kinetochore" evidence=ISO;IDA

GO:0000778 "condensed nuclear chromosome kinetochore" evidence=IDA

GO:0000779 "condensed chromosome, centromeric region" evidence=ISO

GO:0000940 "condensed chromosome outer kinetochore" evidence=IDA

GO:0003777 "microtubule motor activity" evidence=ISO

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005694 "chromosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0005874 "microtubule" evidence=ISO

GO:0005875 "microtubule associated complex" evidence=IEA

GO:0007018 "microtubule-based movement" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0007088 "regulation of mitosis" evidence=IMP

GO:0007094 "mitotic spindle assembly checkpoint" evidence=IMP

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0008608 "attachment of spindle microtubules to kinetochore" evidence=IMP;TAS

GO:0019901 "protein kinase binding" evidence=IPI

GO:0043515 "kinetochore binding" evidence=ISO;IDA

GO:0045184 "establishment of protein localization" evidence=IMP

GO:0045842 "positive regulation of mitotic metaphase/anaphase transition" evidence=IMP

GO:0045860 "positive regulation of protein kinase activity" evidence=ISO;IDA

GO:0050793 "regulation of developmental process" evidence=IMP

GO:0051301 "cell division" evidence=IEA

GO:0051984 "positive regulation of chromosome segregation" evidence=IMP

GO:0051987 "positive regulation of attachment of spindle microtubules to kinetochore" evidence=IMP

UNIPROTKB|J9NX31 SYCP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 91 (37.1 bits), Expect = 0.00026, Sum P(2) = 0.00026
 Identities = 26/79 (32%), Positives = 41/79 (51%)

Query:    31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEED----KRILESVAARAEELEIEVSR 86
             K TEL      L LENKE+      + +EI+  +ED    K+  E +  + E+LE   ++
Sbjct:   513 KTTELNASCNRLSLENKELAQETSDMALEIKKQQEDIDNSKKQEEMMLKQIEKLEETETQ 572

Query:    87 LQHDLVTSMSEGDELGAEV 105
             L+++LV+   E    G EV
Sbjct:   573 LRNELVSVREELKRKGDEV 591

GO:0007130 "synaptonemal complex assembly" evidence=IEA

GO:0000795 "synaptonemal complex" evidence=IEA

SGD|S000004300 IMH1 "Protein involved in vesicular transport" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 82 (33.9 bits), Expect = 0.00059, Sum P(2) = 0.00059
 Identities = 24/92 (26%), Positives = 51/92 (55%)

Query:   172 LDEKDREISGFKKKVDDLESELGNCKSEKNSA-EKTVKEMDE---RILLWQKEIEEAEKV 227
             L EK ++   +K+K +D+E+EL + K  +NS  EK+ KE++     ++  +K ++E    
Sbjct:   332 LQEKYKDCEDWKQKYEDIEAELKDAKELENSQLEKSAKELETLNTELIDTKKSLKEKNSE 391

Query:   228 IAGLKD--KTLDGVNGTARD-VKLNGDGEEED 256
             +  ++D  +T+      A+D +K +   + E+
Sbjct:   392 LEEVRDMLRTVGNELVDAKDEIKESSSKQNEE 423

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IMP

GO:0005794 "Golgi apparatus" evidence=IEA;IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=IMP

GO:0003674 "molecular_function" evidence=ND

GO:0000042 "protein targeting to Golgi" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006950 "response to stress" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

TAIR|locus:2145141 AT5G52280 "AT5G52280" [Arabidopsis thaliana (taxid:3702)]

 Score = 83 (34.3 bits), Expect = 0.00080, Sum P(2) = 0.00080
 Identities = 23/69 (33%), Positives = 35/69 (50%)

Query:    42 LELENKEMKGTIKKLTIEIEGSEEDKRI-LESVAARAEELEIEVSRLQHDLVTSMSEGDE 100
             L L  +  K   K+LT+  + S +DK   L ++    E L ++ S LQ+  V    E DE
Sbjct:   696 LSLAKEVAKTAQKELTLT-KSSNDDKETRLRNLKTEVEGLSLQYSELQNSFVQEKMENDE 754

Query:   101 LGAEVAELK 109
             L  +V+ LK
Sbjct:   755 LRKQVSNLK 763

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0002034001 hypothetical protein (303 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	282
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-08
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-08
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-07
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	6e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-06
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	8e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	1e-05
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	4e-05
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	1e-04
PRK05771	646	PRK05771, PRK05771, V-type ATP synthase subunit I;	1e-04
pfam05622	713	pfam05622, HOOK, HOOK protein	1e-04
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	1e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-04
pfam01576	859	pfam01576, Myosin_tail_1, Myosin tail	6e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-04
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.001
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.001
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	0.001
pfam10186	307	pfam10186, Atg14, UV radiation resistance protein	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	0.004

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 55.1 bits (133), Expect = 2e-08
 Identities = 51/225 (22%), Positives = 93/225 (41%), Gaps = 8/225 (3%)

Query: 12  VDDQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE 71
              +   +            +  L  +VE LE    ++   + +L  EIE  EE     E
Sbjct: 715 EQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAE 774

Query: 72  SVAARAEE----LEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVD 127
              A AE     LE ++ +L+ +L       DEL AE+  L         +LE LER + 
Sbjct: 775 EELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIA 834

Query: 128 GLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVD 187
             ++   + E+++ EL  ++  L   E+EE  +     EE+  +L+    E +  ++ + 
Sbjct: 835 ATERRLEDLEEQIEELSEDIESLA-AEIEELEEL---IEELESELEALLNERASLEEALA 890

Query: 188 DLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLK 232
            L SEL     E    E    E+   +   ++++ + E  + GL+
Sbjct: 891 LLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLEGLE 935

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 53.6 bits (129), Expect = 5e-08
 Identities = 52/204 (25%), Positives = 114/204 (55%), Gaps = 3/204 (1%)

Query: 31  KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHD 90
           K+ EL K++E LE E   ++  +++L  E+E +E++   +E + +  EEL  E+  LQ +
Sbjct: 233 KLKELRKELEELEEELSRLEEELEELQEELEEAEKE---IEELKSELEELREELEELQEE 289

Query: 91  LVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL 150
           L+    E +EL  E++ L+  L E   +LEELE  ++ LK++    ++++ E E  +  L
Sbjct: 290 LLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEEL 349

Query: 151 EVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEM 210
           E    E +  +  +EE++   L+E +      ++++ +LE+EL   ++E    ++ ++ +
Sbjct: 350 EQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESL 409

Query: 211 DERILLWQKEIEEAEKVIAGLKDK 234
           +ER+    + +E+ ++ +  L+ +
Sbjct: 410 EERLERLSERLEDLKEELKELEAE 433

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 52.4 bits (126), Expect = 1e-07
 Identities = 58/230 (25%), Positives = 108/230 (46%), Gaps = 6/230 (2%)

Query: 30  NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH 89
            ++ EL +++E L+ E KE +  +++LT E++  EE    LE +     ELE E+  LQ 
Sbjct: 232 LRLEELREELEELQEELKEAEEELEELTAELQELEEK---LEELRLEVSELEEEIEELQK 288

Query: 90  DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL 149
           +L    +E   L  +   L+  L     +LEELE +++ L+ +  E  +++ ELE  +  
Sbjct: 289 ELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEE 348

Query: 150 LEVR---EMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKT 206
           L+        E  +     EE+  +L+E + ++   + KV  LE ++ +  +E    E  
Sbjct: 349 LKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEAR 408

Query: 207 VKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEED 256
           ++ +++R    Q+EIEE  K +   + K L        +       E E 
Sbjct: 409 LERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELER 458

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 50.1 bits (120), Expect = 6e-07
 Identities = 56/211 (26%), Positives = 110/211 (52%), Gaps = 16/211 (7%)

Query: 24  DQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIE 83
           +++    ++ EL + + SLE E + +K  +K+L   IE  EED            +LE  
Sbjct: 731 EEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDL----------HKLEEA 780

Query: 84  VSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVREL 143
           ++ L+  L  S S   E+ AE+++L+  +     +L E+E++++ L  EK   EK+++EL
Sbjct: 781 LNDLEARL--SHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQEL 838

Query: 144 ERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSA 203
           +     L+ +    + +     E +  K +E + E+   +  + DLES LG+ K E++  
Sbjct: 839 QEQRIDLKEQIKSIEKE----IENLNGKKEELEEELEELEAALRDLESRLGDLKKERDEL 894

Query: 204 EKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
           E  ++E++ +I   + +IE+  K ++ LK K
Sbjct: 895 EAQLRELERKIEELEAQIEKKRKRLSELKAK 925

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 53/209 (25%), Positives = 108/209 (51%), Gaps = 15/209 (7%)

Query: 30  NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEED----KRILESVAARAEELEIEVS 85
            ++  L  ++ SLE   +E++  +++L  ++E  + +    +  LE + +R EELE E+ 
Sbjct: 688 EELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELE 747

Query: 86  RLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER 145
            L+ +L       +EL  E+  L+  L +   ++EELE +   L++E  E E+++ E ER
Sbjct: 748 ELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAER 807

Query: 146 NVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEK 205
            +  LE      + +R R+E+E+ E            ++++++LE +L   + E    EK
Sbjct: 808 RLDALERELESLEQRRERLEQEIEEL-----------EEEIEELEEKLDELEEELEELEK 856

Query: 206 TVKEMDERILLWQKEIEEAEKVIAGLKDK 234
            ++E+ E +   + E EE E  +  L+++
Sbjct: 857 ELEELKEELEELEAEKEELEDELKELEEE 885

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 48.9 bits (117), Expect = 1e-06
 Identities = 44/199 (22%), Positives = 93/199 (46%), Gaps = 16/199 (8%)

Query: 41  SLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDE 100
           S   E + ++  ++ L  E+   + + R +E+   R +EL  E+S     +     E ++
Sbjct: 671 SEPAELQRLRERLEGLKRELSSLQSELRRIEN---RLDELSQELSDASRKIGEIEKEIEQ 727

Query: 101 LGAE-------VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVR 153
           L  E       + EL+  L     ++E ++ E+  L+    E E+ + +LE  +  LE R
Sbjct: 728 LEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEAR 787

Query: 154 EMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDER 213
               +        E++ +L + + E+S  + ++ ++E +L     EK   EK ++E+ E+
Sbjct: 788 LSHSRI------PEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQ 841

Query: 214 ILLWQKEIEEAEKVIAGLK 232
            +  +++I+  EK I  L 
Sbjct: 842 RIDLKEQIKSIEKEIENLN 860

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 48/208 (23%), Positives = 107/208 (51%), Gaps = 17/208 (8%)

Query: 32  VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRIL----ESVAARAEELEIEVSRL 87
           + EL ++++SLE + ++     +   ++ E  E +  +L    E +    EEL+ E+   
Sbjct: 195 LNELERQLKSLERQAEK---AERYKELKAELRELELALLVLRLEELREELEELQEELKEA 251

Query: 88  QHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNV 147
           + +L    +E  EL  ++ EL+       +++ ELE E++ L+KE      ++  LE+  
Sbjct: 252 EEELEELTAELQELEEKLEELR-------LEVSELEEEIEELQKELYALANEISRLEQQK 304

Query: 148 GLLEVREMEEKSKRVRVEEEMRE---KLDEKDREISGFKKKVDDLESELGNCKSEKNSAE 204
            +L  R    + +   +E ++ E   KLDE   E++  ++K+++L+ EL + ++E    E
Sbjct: 305 QILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELE 364

Query: 205 KTVKEMDERILLWQKEIEEAEKVIAGLK 232
             ++E++ R+   ++++E     +A L+
Sbjct: 365 AELEELESRLEELEEQLETLRSKVAQLE 392

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 48.6 bits (116), Expect = 2e-06
 Identities = 63/214 (29%), Positives = 112/214 (52%), Gaps = 9/214 (4%)

Query: 29  NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKR----ILESVAARAEELEIEV 84
             ++ EL +++E LE E + ++  + KL  EIE  EE ++     LE +    EE E  +
Sbjct: 750 EEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRL 809

Query: 85  SRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELE 144
             L+ +L +     + L  E+ EL+  + E   KL+ELE E++ L+KE  E ++++ ELE
Sbjct: 810 DALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELE 869

Query: 145 RNVGLLEVREMEEKSKRVRVEEEMRE---KLDEKDREISGFKKKVDDLESELGNCKSEKN 201
                LE    E + ++  +EEE+RE   +L E   EI   ++++++LE++L   + E  
Sbjct: 870 AEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELP 929

Query: 202 SAEKTVKE--MDERILLWQKEIEEAEKVIAGLKD 233
             E+ ++E   D      ++EIE  E+ I  L  
Sbjct: 930 ELEEELEEEYEDTLETELEREIERLEEEIEALGP 963

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 48.6 bits (116), Expect = 2e-06
 Identities = 51/209 (24%), Positives = 104/209 (49%), Gaps = 24/209 (11%)

Query: 50  KGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELK 109
            G+I   +     S   KR L+ +     ELE ++ +L+ +L +  +E   L   + EL+
Sbjct: 649 SGSITGGSRNKRSSLAQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELR 708

Query: 110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEM- 168
           R L E   +LEEL+RE+  L++E  + + ++ ELE  +  LE    E + +   +EEE+ 
Sbjct: 709 RQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELE 768

Query: 169 -----------------------REKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEK 205
                                  +E+L+E + E+   ++++D LE EL + +  +   E+
Sbjct: 769 SLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQ 828

Query: 206 TVKEMDERILLWQKEIEEAEKVIAGLKDK 234
            ++E++E I   +++++E E+ +  L+ +
Sbjct: 829 EIEELEEEIEELEEKLDELEEELEELEKE 857

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 47.4 bits (113), Expect = 5e-06
 Identities = 56/206 (27%), Positives = 108/206 (52%), Gaps = 7/206 (3%)

Query: 29  NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQ 88
             ++ EL +K+E LE +  E++  + +L  E+E  EE+   LE +    EEL  ++S L+
Sbjct: 676 RREIEELEEKIEELEEKIAELEKALAELRKELEELEEE---LEQLRKELEELSRQISALR 732

Query: 89  HDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG 148
            DL    +E ++L   +A+L + L E   ++EELE  ++  ++E  E+E ++ ELE  + 
Sbjct: 733 KDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIE 792

Query: 149 LLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVK 208
               +  EE        +E+R +L   + E +  +++++ LE  +   +      E+ ++
Sbjct: 793 ----QLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIE 848

Query: 209 EMDERILLWQKEIEEAEKVIAGLKDK 234
           E+ E I     EIEE E++I  L+ +
Sbjct: 849 ELSEDIESLAAEIEELEELIEELESE 874

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 46.6 bits (111), Expect = 8e-06
 Identities = 49/215 (22%), Positives = 104/215 (48%), Gaps = 18/215 (8%)

Query: 33  TELTKKVESLELENKEMKGTIKKLTIEIE--GSEEDKRI----------LESVAARAEEL 80
            +LT+++  LE   +E++  +++L  +I+  G EE  R+          + S+     E 
Sbjct: 254 EKLTEEISELEKRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEK 313

Query: 81  EIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKV 140
           E E+   +  L    +E D+L AE+ EL+R + E+  + ++L  E   LK+E  +   ++
Sbjct: 314 ERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAEL 373

Query: 141 RELERNVGLLEVREMEEKSKRVRVE-EEMREKLDEKDREISGFKKKVDDLESELGNCKSE 199
            E+++     E  E  ++ K  R + E+++ +++E  RE+   ++++  L  EL +  + 
Sbjct: 374 EEVDK-----EFAETRDELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAA 428

Query: 200 KNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
               E  + E++E       EI++ E  +  L   
Sbjct: 429 IAGIEAKINELEEEKEDKALEIKKQEWKLEQLAAD 463

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 53/201 (26%), Positives = 97/201 (48%), Gaps = 3/201 (1%)

Query: 34  ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT 93
           EL +++E  E E +E+K  +++L  E+E  +E+   L+      EELE E+S L+  L  
Sbjct: 257 ELQEELEEAEKEIEELKSELEELREELEELQEELLELKE---EIEELEGEISLLRERLEE 313

Query: 94  SMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVR 153
             +E +EL   + ELK  +     +LEE E  ++ L++   E E+   ELE  +  L   
Sbjct: 314 LENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEE 373

Query: 154 EMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDER 213
             E          E+  +L E   E+   K++++ LE  L          ++ +KE++  
Sbjct: 374 LEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAE 433

Query: 214 ILLWQKEIEEAEKVIAGLKDK 234
           +   Q E+EE  + +  L+++
Sbjct: 434 LEELQTELEELNEELEELEEQ 454

Length = 1163

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 45.8 bits (109), Expect = 1e-05
 Identities = 44/214 (20%), Positives = 93/214 (43%), Gaps = 28/214 (13%)

Query: 34  ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILES----VAARAEELEIEVSRLQH 89
            + +K+  LE E   ++ +I +   E+E +EE    LE+    + A  EELE E+   + 
Sbjct: 291 RVKEKIGELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERK 350

Query: 90  DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL 149
                  E  EL  E+ +L+  L E   +  E   E+   +++  + ++++ EL+R +  
Sbjct: 351 RRDKLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDR 410

Query: 150 L---------EVREMEEKSKRVRVE--------EEMREKLDEKDREISGFKKKVDDLESE 192
           L         E+ ++      +  +        E+   ++ +++ ++      +   E E
Sbjct: 411 LQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQEWKLEQLAADLSKYEQE 470

Query: 193 LGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEK 226
           L + K E +  EK + ++       Q+E+ EAE 
Sbjct: 471 LYDLKEEYDRVEKELSKL-------QRELAEAEA 497

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 46.2 bits (110), Expect = 1e-05
 Identities = 55/210 (26%), Positives = 101/210 (48%), Gaps = 22/210 (10%)

Query: 30  NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELE------IE 83
            ++ EL K++ESLE   ++++  I++L   IE  +++   LE      +EL+      I+
Sbjct: 238 EEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELKEKAEEYIK 297

Query: 84  VSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVREL 143
           +S    + +  + E ++  + + E    + E+  +LEE E  ++ LKK+  E EK++ EL
Sbjct: 298 LSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRLEEL 357

Query: 144 ERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFK-KKVDDLESELGNCKSEKNS 202
           E               +R  + EE + K +E +R          + LE EL   +  K  
Sbjct: 358 E---------------ERHELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEE 402

Query: 203 AEKTVKEMDERILLWQKEIEEAEKVIAGLK 232
            E+ + ++  RI   +KEI+E +K I  LK
Sbjct: 403 IEEEISKITARIGELKKEIKELKKAIEELK 432

Length = 880

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 50/209 (23%), Positives = 101/209 (48%), Gaps = 6/209 (2%)

Query: 31   KVTELTKKVESLELENKEMKGTIKKLTIEIEG----SEEDKRILESVAARAEELEIEVSR 86
            ++ EL +++E  E     ++  ++ L    E      EE +  +E +  + +ELE E+  
Sbjct: 794  ELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEE 853

Query: 87   LQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERN 146
            L+ +L     E +EL AE  EL+  L E   + EELE E+  L+ E  E ++++ +L   
Sbjct: 854  LEKELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRER 913

Query: 147  VGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKT 206
            +  LE +    + +   +EEE+ E  + +D   +  +++++ LE E+         A + 
Sbjct: 914  LEELEAKLERLEVELPELEEELEE--EYEDTLETELEREIERLEEEIEALGPVNLRAIEE 971

Query: 207  VKEMDERILLWQKEIEEAEKVIAGLKDKT 235
             +E++ER    + + E+ E+    L +  
Sbjct: 972  YEEVEERYEELKSQREDLEEAKEKLLEVI 1000

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 45/208 (21%), Positives = 97/208 (46%), Gaps = 8/208 (3%)

Query: 30  NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEE----LEIEVS 85
            K+ EL K +  L  E +E++  +++L  E+E        L    AR E     LE  ++
Sbjct: 691 EKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIA 750

Query: 86  RLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER 145
           +L  +L    +E +EL   + E +  L E   ++EELE +++ LK+E     + + EL  
Sbjct: 751 QLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRA 810

Query: 146 NVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEK 205
            + LL       + +     E +  ++   +R +   ++++++L  ++ +  +E    E+
Sbjct: 811 ELTLLNEEAANLRERL----ESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEE 866

Query: 206 TVKEMDERILLWQKEIEEAEKVIAGLKD 233
            ++E++  +     E    E+ +A L+ 
Sbjct: 867 LIEELESELEALLNERASLEEALALLRS 894

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 44.3 bits (105), Expect = 4e-05
 Identities = 55/220 (25%), Positives = 109/220 (49%), Gaps = 15/220 (6%)

Query: 22  DPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELE 81
           D +   S++++ E+  ++  LE E   ++  ++++  ++     +K  LE      +EL+
Sbjct: 783 DLEARLSHSRIPEIQAELSKLEEEVSRIEARLREIEQKLNRLTLEKEYLEK---EIQELQ 839

Query: 82  IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVR 141
            +   L+  + +   E + L  +  EL+  L E    L +LE  +  LKKE+ E E ++R
Sbjct: 840 EQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLR 899

Query: 142 ELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKN 201
           ELER +  LE  ++E+K KR+    E++ KL+  + E+S  +    + E       S ++
Sbjct: 900 ELERKIEELEA-QIEKKRKRL---SELKAKLEALEEELSEIEDPKGEDEEIPEEELSLED 955

Query: 202 SAEKTVKEMDERI-------LLWQKEIEEAEKVIAGLKDK 234
             +  ++ ++E I       +L  +E EE  K +  LK+K
Sbjct: 956 -VQAELQRVEEEIRALEPVNMLAIQEYEEVLKRLDELKEK 994

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 42/206 (20%), Positives = 103/206 (50%), Gaps = 4/206 (1%)

Query: 29  NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQ 88
            N+++ L ++ + L      ++  +++L  ++E   E +  L+ +A    ELE ++  L+
Sbjct: 294 ANEISRLEQQKQILRERLANLERQLEELEAQLE---ELESKLDELAEELAELEEKLEELK 350

Query: 89  HDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG 148
            +L +  +E +EL AE+ EL+  L E   +LE L  +V  L+ +      ++  LE  + 
Sbjct: 351 EELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLE 410

Query: 149 LLEVREMEEKSKRVRVEEEMRE-KLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTV 207
            LE R    + +   + +++ E +L E   E+   ++++++L+ EL   +       + +
Sbjct: 411 RLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREEL 470

Query: 208 KEMDERILLWQKEIEEAEKVIAGLKD 233
           +E ++ +   ++E+ + +  +  L+ 
Sbjct: 471 EEAEQALDAAERELAQLQARLDSLER 496

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 52/190 (27%), Positives = 104/190 (54%), Gaps = 10/190 (5%)

Query: 47  KEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVA 106
           KE+K  I++L   I+ +E  + +++      EE+  E++ +  +L     E ++L  EV 
Sbjct: 172 KEIKRRIERLEKFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEVK 231

Query: 107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL--EVREMEEKSKRVRV 164
           EL+    E   ++EELE+E++ L+  K + E+K+RELE  +  L  E+ E+EEK K ++ 
Sbjct: 232 ELE----ELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVKELKE 287

Query: 165 EEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEA 224
            +E  E+  +       +  ++ ++E  L   + E N  E+ +KE++E+    ++ +EE 
Sbjct: 288 LKEKAEEYIKLSEFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEK----EERLEEL 343

Query: 225 EKVIAGLKDK 234
           +K +  L+ +
Sbjct: 344 KKKLKELEKR 353

Length = 880

>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 43/224 (19%), Positives = 88/224 (39%), Gaps = 25/224 (11%)

Query: 22  DPDQDGSNNKVTELTKKVESLE-----LEN-KEMKGTIKKLTIEIEGSEEDKRILESVAA 75
           D  ++ SN ++ +L   +  L      L +       +++   ++     ++ +++ V  
Sbjct: 35  DLKEELSNERLRKLRSLLTKLSEALDKLRSYLPKLNPLREEKKKVSVKSLEE-LIKDVEE 93

Query: 76  RAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELERE-----VDGLK 130
             E++E E+  L+ ++    +E  EL  E+  L+   G   + L  L          G  
Sbjct: 94  ELEKIEKEIKELEEEISELENEIKELEQEIERLE-PWGNFDLDLSLLLGFKYVSVFVGTV 152

Query: 131 KEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE 190
            E    E K+     NV  +      +K     V   ++E  DE + E+    KK+    
Sbjct: 153 PEDKLEELKLESDVENVEYIS----TDKGYVYVVVVVLKELSDEVEEEL----KKLGFER 204

Query: 191 SELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
            EL     E+ +  + ++E+ E +   +KE E   + +  L  K
Sbjct: 205 LEL----EEEGTPSELIREIKEELEEIEKERESLLEELKELAKK 244

Length = 646

>gnl|CDD|218661 pfam05622, HOOK, HOOK protein

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 60/212 (28%), Positives = 101/212 (47%), Gaps = 30/212 (14%)

Query: 14  DQTTEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESV 73
            Q       P+Q GS  K   L  ++E L+ EN             +E + +D RI    
Sbjct: 224 AQLEGSSLGPNQLGSK-KYNLLQSQLEQLQEEN-----------FRLEAARDDYRI---- 267

Query: 74  AARAEELEIEVSRLQH---DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLK 130
             + EELE E++ LQH   +L +  +E   L  E+  L+    E   K ++LE +V+  K
Sbjct: 268 --KCEELEKELAELQHRNDELTSLAAESQALKDEIDVLR----ESSDKAKKLEAQVETYK 321

Query: 131 KEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE 190
           K K+E    + +L R V LLE R        V++EEE++ K +    ++  +K++V +L 
Sbjct: 322 K-KLED---LNDLRRQVKLLEERNAMYMQNTVQLEEELK-KANAARGQLETYKRQVQELH 376

Query: 191 SELGNCKSEKNSAEKTVKEMDERILLWQKEIE 222
           ++L     + +  E   K ++E++   QKE E
Sbjct: 377 AKLSEESKKADKLEFEYKRLEEKLEALQKEKE 408

This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms. The different members of the human gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three human HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes, whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head. Length = 713

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 57/232 (24%), Positives = 97/232 (41%), Gaps = 22/232 (9%)

Query: 19  DFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAA--- 75
              D D +    +  EL  + E L    +E +   +    E E   ED   LE  A    
Sbjct: 303 GLDDADAEAVEARREELEDRDEELRDRLEECRVAAQAHNEEAESLREDADDLEERAEELR 362

Query: 76  -RAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKV 134
             A ELE E+   +  +     E +EL  E+ EL+   G+  V L   E  ++ L++E+ 
Sbjct: 363 EEAAELESELEEAREAVEDRREEIEELEEEIEELRERFGDAPVDLGNAEDFLEELREERD 422

Query: 135 ESEKKVRELERNVGLLE--VREME---------------EKSKRVRVEEEMREKLDEKDR 177
           E  ++  ELE  +      V E E               E S  V   EE RE+++E + 
Sbjct: 423 ELREREAELEATLRTARERVEEAEALLEAGKCPECGQPVEGSPHVETIEEDRERVEELEA 482

Query: 178 EISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIA 229
           E+   +++V+++E  L   +     AE  ++ ++ER    ++ I E  + I 
Sbjct: 483 ELEDLEEEVEEVEERLERAEDLV-EAEDRIERLEERREDLEELIAERRETIE 533

Length = 880

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 37/165 (22%), Positives = 82/165 (49%), Gaps = 4/165 (2%)

Query: 99  DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEK 158
           +EL  ++AEL++ L E   +LEELE E++ L+KE  E  +++  L +++  LE  E+E+ 
Sbjct: 687 EELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLE-AEVEQL 745

Query: 159 SKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQ 218
            +R+    +   +L+    EI   ++++++ E EL   ++E    E  ++++ E +   +
Sbjct: 746 EERIAQLSKELTELEA---EIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALR 802

Query: 219 KEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQL 263
           + ++E    +  L ++  +         +     E     L  Q+
Sbjct: 803 EALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQI 847

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|144972 pfam01576, Myosin_tail_1, Myosin tail

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 42/174 (24%), Positives = 83/174 (47%), Gaps = 7/174 (4%)

Query: 24  DQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIE 83
           + + +N   +EL KK ++ +    E K  + +L  E++ ++ + R L +   R   L+ E
Sbjct: 364 ELERANAAASELEKKQKNFDKILAEWKRKVDELQAELDTAQREARNLSTELFR---LKNE 420

Query: 84  VSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVREL 143
           +  L+  +     E   L  E+ +L   LGE G  + ELE+    L+ EK E +  + E 
Sbjct: 421 LEELKDQVEALRRENKNLQDEIHDLTDQLGEGGRNVHELEKARRRLEAEKDELQAALEEA 480

Query: 144 ERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK----KVDDLESEL 193
           E  + L E + +  + +  ++  E+  +L EK+ E    +K     ++ L++ L
Sbjct: 481 EAALELEESKVLRAQVELSQIRSEIERRLAEKEEEFENTRKNHQRAIESLQATL 534

The myosin molecule is a multi-subunit complex made up of two heavy chains and four light chains it is a fundamental contractile protein found in all eukaryote cell types. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament. The coiled-coil region provides the structural backbone the thick filament. Length = 859

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 30/120 (25%), Positives = 72/120 (60%), Gaps = 6/120 (5%)

Query: 116 GVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVE-EEMREKLDE 174
            ++LEEL  E++ L++E  E+E+++ EL       E++E+EEK + +R+E  E+ E+++E
Sbjct: 231 VLRLEELREELEELQEELKEAEEELEELTA-----ELQELEEKLEELRLEVSELEEEIEE 285

Query: 175 KDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
             +E+     ++  LE +    +    + E+ ++E++ ++   + +++E  + +A L++K
Sbjct: 286 LQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEK 345

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), Expect = 7e-04
 Identities = 31/118 (26%), Positives = 69/118 (58%), Gaps = 4/118 (3%)

Query: 118 KLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDR 177
           +L+ELE E+  L+ +  + E++++ L+  +  LE    E + +     EE+  +L+E  R
Sbjct: 668 ELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQL----EELERQLEELKR 723

Query: 178 EISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKT 235
           E++  +++++ L+S L   + E    E+ ++E+ ER+   ++E+E  E+ +A LK++ 
Sbjct: 724 ELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEI 781

Length = 1163

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 48/194 (24%), Positives = 87/194 (44%), Gaps = 14/194 (7%)

Query: 33  TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEE-------LEIEVS 85
            +L +++  LE E  E+   I++   + E + E +   + V    EE       LE E+ 
Sbjct: 202 KDLHERLNGLESELAELDEEIERYEEQREQARETRDEADEVLEEHEERREELETLEAEIE 261

Query: 86  RLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEEL--EREVDGLKKEKVESEKKVREL 143
            L+  +  +  E +EL  EV +L+  L E   + ++L  E  +D    E VE+ ++  EL
Sbjct: 262 DLRETIAETEREREELAEEVRDLRERLEELEEERDDLLAEAGLDDADAEAVEARRE--EL 319

Query: 144 ERNVGLLEVREMEEKSKRVRVEEE---MREKLDEKDREISGFKKKVDDLESELGNCKSEK 200
           E     L  R  E +       EE   +RE  D+ +      +++  +LESEL   +   
Sbjct: 320 EDRDEELRDRLEECRVAAQAHNEEAESLREDADDLEERAEELREEAAELESELEEAREAV 379

Query: 201 NSAEKTVKEMDERI 214
               + ++E++E I
Sbjct: 380 EDRREEIEELEEEI 393

Length = 880

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 48/208 (23%), Positives = 90/208 (43%), Gaps = 10/208 (4%)

Query: 30  NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH 89
            ++  L +++  LE E + ++    +L        E  +I E      E L  E+     
Sbjct: 232 QEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIE 291

Query: 90  DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELE---RN 146
            L       +EL  E+ EL+  L      LEELE  ++ LK  +   EK   +LE     
Sbjct: 292 RL-------EELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESE 344

Query: 147 VGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKT 206
           +  L   + E         +E+ E+L+E ++E+    +++  LE  +   K E       
Sbjct: 345 LEELAEEKNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAELSAA 404

Query: 207 VKEMDERILLWQKEIEEAEKVIAGLKDK 234
           ++E+ E +   +KE+EE E+ +  L+++
Sbjct: 405 LEEIQEELEELEKELEELERELEELEEE 432

Length = 908

>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 39.5 bits (93), Expect = 0.001
 Identities = 41/164 (25%), Positives = 73/164 (44%), Gaps = 20/164 (12%)

Query: 36  TKKVESLE------LENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH 89
            KK+ S E      +E  + +    K    +E  EE  ++   +    +E   E+ RL+ 
Sbjct: 24  EKKLGSAEELAKRIIEEAKKEAETLKKEALLEAKEEVHKLRAELERELKERRNELQRLER 83

Query: 90  DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVR-ELERNVG 148
            L+      D     + + +  L +K  +L   E+ +D  ++E  E   + R ELER  G
Sbjct: 84  RLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQREELERISG 143

Query: 149 LL--EVREM----------EEKSKRVR-VEEEMREKLDEKDREI 179
           L   E +E+           E +K ++ +EEE +E+ D+K +EI
Sbjct: 144 LTQEEAKEILLEEVEEEARHEAAKLIKEIEEEAKEEADKKAKEI 187

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|220623 pfam10186, Atg14, UV radiation resistance protein and autophagy-related subunit 14

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 30/160 (18%), Positives = 63/160 (39%), Gaps = 9/160 (5%)

Query: 29  NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQ 88
            N + EL   +  L LEN+E+K  +++  +E   +E+ K   + +       +  +++++
Sbjct: 19  RNSLYELRLDLARLLLENEELKQKVEEA-LEGATNEDGKLAADLLKLEVARKKERLNQIR 77

Query: 89  HDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG 148
             +     E ++    + ELKR L ++   L          K+   + EK   E++R   
Sbjct: 78  ARISQLKEEIEQKRERIEELKRALAQRRSDLS--SASYQLEKRRASQLEKLQDEIKRTRS 135

Query: 149 LLEVREMEEKSKRVRVEEE------MREKLDEKDREISGF 182
            L         KR  +  E      +R  +  +  + S  
Sbjct: 136 KLNALHSLLAEKRSFLCRELAKLFPLRRVIRGRKGDSSSE 175

The Atg14 or Apg14 proteins are hydrophilic proteins with a predicted molecular mass of 40.5 kDa, and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole. Subcellular fractionation indicate that Apg14p and Apg6p are peripherally associated with a membrane structure(s). Apg14p was co-immunoprecipitated with Apg6p, suggesting that they form a stable protein complex. These results imply that Apg6/Vps30p has two distinct functions: in the autophagic process and in the vacuolar protein sorting pathway. Apg14p may be a component specifically required for the function of Apg6/Vps30p through the autophagic pathway. There are 17 auto-phagosomal component proteins which are categorized into six functional units, one of which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The AS-PI3K complex and the Atg2-Atg18 complex are essential for nucleation, and the specific function of the AS-PI3K apparently is to produce phosphatidylinositol 3-phosphate (PtdIns(3)P) at the pre-autophagosomal structure (PAS). The localisation of this complex at the PAS is controlled by Atg14. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. This effect seems to be mediated through direct interaction of the human Atg14 with Beclin 1 in the human phosphatidylinositol 3-kinase class III complex. Length = 307

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 52/187 (27%), Positives = 96/187 (51%), Gaps = 5/187 (2%)

Query: 34  ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILES-VAARAEELEIEVSRLQHDLV 92
           EL +K+E+L+ E +E +  +++L   +   EE K  LE  ++A  EELE     L+ +L 
Sbjct: 327 ELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELA 386

Query: 93  TSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV 152
              +E  E+  E+ ELKR +     +LE L   ++ LK+E  E E ++ EL+  +  L  
Sbjct: 387 ELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELN- 445

Query: 153 REMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDE 212
              EE  +     EE+R++L E +RE++  ++++  LE EL + ++  +  E   +    
Sbjct: 446 ---EELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLEARLDRLEAEQRASQG 502

Query: 213 RILLWQK 219
              + + 
Sbjct: 503 VRAVLEA 509

Length = 1163

>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 38.3 bits (90), Expect = 0.004
 Identities = 48/205 (23%), Positives = 89/205 (43%), Gaps = 47/205 (22%)

Query: 38  KVESLELENKEMKGTIKKL-TIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMS 96
           ++  L  E +  +  I+ L    I+   E + ++ S+ +  EE      ++  + + S++
Sbjct: 99  RISKLSDEEEFFEAEIELLPDEPIDEEREIEALVRSILSEFEEYAKLNKKIPPEELQSLN 158

Query: 97  EGDELG-----------AEVAELKRVLGEKGVKLEELEREVDGLKKEKV--ESEKKVREL 143
             D+ G            ++ E + +L    VK E LE+ +D L+KE    + EK++R+ 
Sbjct: 159 SIDDPGKLADTIAAHLPLKLEEKQEILETLDVK-ERLEKLLDLLEKEIDLLQLEKRIRK- 216

Query: 144 ERNVGLLEVREMEEKSKRVRVEEEMREKL----------DEKDREISGFKKKVDDL---- 189
                  +V+E  EKS+R   E  +RE+L          D+   E+   ++K++ L    
Sbjct: 217 -------KVKEQMEKSQR---EYYLREQLKAIQKELGEDDDDKDEVEELREKIEKLKLPK 266

Query: 190 ------ESELGNCK-SEKNSAEKTV 207
                 E EL   +     SAE TV
Sbjct: 267 EAKEKAEKELKKLETMSPMSAEATV 291

Length = 782

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	282
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	98.97
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	98.83
PRK11637	428	AmiB activator; Provisional	98.61
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.48
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	98.42
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.25
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.23
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	98.21
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	98.21
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	98.2
PRK02224	880	chromosome segregation protein; Provisional	98.15
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	98.08
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	98.07
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	98.02
PRK02224	880	chromosome segregation protein; Provisional	98.0
PHA02562	562	46 endonuclease subunit; Provisional	98.0
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.98
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.94
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	97.94
PRK03918	880	chromosome segregation protein; Provisional	97.9
PRK11637	428	AmiB activator; Provisional	97.87
PHA02562	562	46 endonuclease subunit; Provisional	97.86
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.84
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.73
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	97.69
PRK04778	569	septation ring formation regulator EzrA; Provision	97.67
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.65
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	97.64
PRK01156	895	chromosome segregation protein; Provisional	97.63
PRK04778	569	septation ring formation regulator EzrA; Provision	97.62
KOG1003	205	consensus Actin filament-coating protein tropomyos	97.6
PRK03918	880	chromosome segregation protein; Provisional	97.56
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.48
PRK01156	895	chromosome segregation protein; Provisional	97.47
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	97.45
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	97.44
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	97.37
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	97.36
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	97.34
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	97.33
KOG0964	1200	consensus Structural maintenance of chromosome pro	97.3
KOG0996	1293	consensus Structural maintenance of chromosome pro	97.28
PRK09039	343	hypothetical protein; Validated	97.22
KOG0979	1072	consensus Structural maintenance of chromosome pro	97.21
KOG0933	1174	consensus Structural maintenance of chromosome pro	97.19
PF00038	312	Filament: Intermediate filament protein; InterPro:	97.17
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	97.13
COG1340	294	Uncharacterized archaeal coiled-coil protein [Func	97.11
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	97.1
KOG0971	1243	consensus Microtubule-associated protein dynactin	97.01
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	97.01
PRK04863	1486	mukB cell division protein MukB; Provisional	96.99
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.97
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.94
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	96.9
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	96.89
TIGR03017	444	EpsF chain length determinant protein EpsF. Sequen	96.85
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.82
PF00038	312	Filament: Intermediate filament protein; InterPro:	96.82
KOG0971	1243	consensus Microtubule-associated protein dynactin	96.82
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	96.79
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	96.79
COG4942	420	Membrane-bound metallopeptidase [Cell division and	96.76
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.76
KOG0964	1200	consensus Structural maintenance of chromosome pro	96.76
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	96.71
PF05010	207	TACC: Transforming acidic coiled-coil-containing p	96.69
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	96.68
COG5185	622	HEC1 Protein involved in chromosome segregation, i	96.66
PF05701	522	WEMBL: Weak chloroplast movement under blue light;	96.66
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	96.59
PRK04863	1486	mukB cell division protein MukB; Provisional	96.58
KOG0933	1174	consensus Structural maintenance of chromosome pro	96.57
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.56
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.55
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	96.54
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	96.54
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	96.53
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.52
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	96.51
PRK09039	343	hypothetical protein; Validated	96.49
KOG0018	1141	consensus Structural maintenance of chromosome pro	96.41
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	96.38
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	96.37
KOG4674	1822	consensus Uncharacterized conserved coiled-coil pr	96.16
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	96.12
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	96.12
PF06160	560	EzrA: Septation ring formation regulator, EzrA ; I	96.09
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	96.01
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	95.97
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.89
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	95.86
KOG0018	1141	consensus Structural maintenance of chromosome pro	95.86
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	95.78
COG4372	499	Uncharacterized protein conserved in bacteria with	95.73
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	95.6
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	95.51
KOG1029	1118	consensus Endocytic adaptor protein intersectin [S	95.49
PF14662	193	CCDC155: Coiled-coil region of CCDC155	95.43
PF13514	1111	AAA_27: AAA domain	95.38
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	95.35
KOG4643	1195	consensus Uncharacterized coiled-coil protein [Fun	95.27
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	95.2
PF15290	305	Syntaphilin: Golgi-localised syntaxin-1-binding cl	95.18
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	95.16
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	95.03
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	94.89
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	94.88
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	94.87
TIGR02680	1353	conserved hypothetical protein TIGR02680. Members	94.82
smart00787	312	Spc7 Spc7 kinetochore protein. This domain is foun	94.74
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	94.67
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	94.6
COG5185	622	HEC1 Protein involved in chromosome segregation, i	94.59
COG2433	652	Uncharacterized conserved protein [Function unknow	94.55
PF14662	193	CCDC155: Coiled-coil region of CCDC155	94.53
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	94.52
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	94.49
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	94.34
TIGR03007	498	pepcterm_ChnLen polysaccharide chain length determ	94.28
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	94.26
PF13166	712	AAA_13: AAA domain	94.24
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	94.09
KOG0963	629	consensus Transcription factor/CCAAT displacement	94.07
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	94.04
PF13166	712	AAA_13: AAA domain	93.85
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	93.83
KOG0976	1265	consensus Rho/Rac1-interacting serine/threonine ki	93.73
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	93.68
COG4942	420	Membrane-bound metallopeptidase [Cell division and	93.46
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	93.44
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	93.35
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	93.24
KOG0979	1072	consensus Structural maintenance of chromosome pro	93.16
KOG0978	698	consensus E3 ubiquitin ligase involved in syntaxin	93.16
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	93.16
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	93.15
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	93.15
PRK10869	553	recombination and repair protein; Provisional	93.0
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	92.97
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	92.97
PRK09343	121	prefoldin subunit beta; Provisional	92.96
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	92.87
PF14992	280	TMCO5: TMCO5 family	92.83
KOG1003	205	consensus Actin filament-coating protein tropomyos	92.79
PLN02939	977	transferase, transferring glycosyl groups	92.72
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	92.68
PF15070	617	GOLGA2L5: Putative golgin subfamily A member 2-lik	92.67
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	92.67
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	92.59
COG2433	652	Uncharacterized conserved protein [Function unknow	92.57
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	92.54
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	92.49
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	92.48
KOG0963	629	consensus Transcription factor/CCAAT displacement	92.47
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	92.47
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	92.37
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	92.3
KOG3850	455	consensus Predicted membrane protein [Function unk	92.29
COG4477	570	EzrA Negative regulator of septation ring formatio	92.28
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	92.14
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	92.04
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	92.0
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	91.95
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	91.94
KOG0946	970	consensus ER-Golgi vesicle-tethering protein p115	91.91
PF14915	305	CCDC144C: CCDC144C protein coiled-coil region	91.88
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	91.81
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	91.54
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	91.47
COG4372	499	Uncharacterized protein conserved in bacteria with	91.47
PF01576	859	Myosin_tail_1: Myosin tail; InterPro: IPR002928 Mu	91.42
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	91.4
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	91.36
PF10186	302	Atg14: UV radiation resistance protein and autopha	91.27
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	91.26
KOG1899	861	consensus LAR transmembrane tyrosine phosphatase-i	91.23
PF10186	302	Atg14: UV radiation resistance protein and autopha	91.17
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	90.79
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	90.78
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	90.63
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	90.54
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	90.53
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	90.5
PF05911	769	DUF869: Plant protein of unknown function (DUF869)	90.3
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	90.18
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	90.07
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	89.9
KOG4809	654	consensus Rab6 GTPase-interacting protein involved	89.7
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	89.59
PF09755	310	DUF2046: Uncharacterized conserved protein H4 (DUF	89.45
PF15066	527	CAGE1: Cancer-associated gene protein 1 family	89.4
PF09789	319	DUF2353: Uncharacterized coiled-coil protein (DUF2	89.23
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	89.03
PF06818	202	Fez1: Fez1; InterPro: IPR009638 This family repres	89.01
KOG0980	980	consensus Actin-binding protein SLA2/Huntingtin-in	88.94
KOG4673	961	consensus Transcription factor TMF, TATA element m	88.84
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	88.79
PF13863	126	DUF4200: Domain of unknown function (DUF4200)	88.62
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	88.54
KOG0962	1294	consensus DNA repair protein RAD50, ABC-type ATPas	88.53
PF05622	713	HOOK: HOOK protein; InterPro: IPR008636 This famil	88.53
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	88.26
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	88.18
PF05384	159	DegS: Sensor protein DegS; InterPro: IPR008595 Thi	88.07
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	87.93
PRK15422	79	septal ring assembly protein ZapB; Provisional	87.83
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	87.63
PF02994	370	Transposase_22: L1 transposable element; InterPro:	87.6
PRK00888	105	ftsB cell division protein FtsB; Reviewed	87.55
COG3206	458	GumC Uncharacterized protein involved in exopolysa	87.52
COG1842	225	PspA Phage shock protein A (IM30), suppresses sigm	87.51
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	87.25
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	87.22
PF04912	388	Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamit	87.18
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	87.16
KOG0972	384	consensus Huntingtin interacting protein 1 (Hip1)	87.11
PF15450	531	DUF4631: Domain of unknown function (DUF4631)	86.99
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	86.75
PRK10884	206	SH3 domain-containing protein; Provisional	86.7
COG1730	145	GIM5 Predicted prefoldin, molecular chaperone impl	86.48
PF08647	96	BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR01395	86.36
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	86.22
PRK10929	1109	putative mechanosensitive channel protein; Provisi	86.17
TIGR01000	457	bacteriocin_acc bacteriocin secretion accessory pr	86.11
KOG4673	961	consensus Transcription factor TMF, TATA element m	86.1
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	86.1
KOG4593	716	consensus Mitotic checkpoint protein MAD1 [Cell cy	85.77
PF02994	370	Transposase_22: L1 transposable element; InterPro:	85.56
PRK03947	140	prefoldin subunit alpha; Reviewed	85.52
PRK10884	206	SH3 domain-containing protein; Provisional	85.48
PF07851	330	TMPIT: TMPIT-like protein; InterPro: IPR012926 A n	85.47
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	85.38
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	85.27
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	85.26
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	85.02
TIGR02231	525	conserved hypothetical protein. This family consis	85.0
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	84.75
PF09304	107	Cortex-I_coil: Cortexillin I, coiled coil; InterPr	84.64
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	84.62
PF15294	278	Leu_zip: Leucine zipper	84.43
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	84.41
PF09787	511	Golgin_A5: Golgin subfamily A member 5; InterPro:	84.27
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	84.17
KOG0239	670	consensus Kinesin (KAR3 subfamily) [Cytoskeleton]	84.07
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	83.88
KOG4677	554	consensus Golgi integral membrane protein [Intrace	83.78
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	83.76
PLN03229	762	acetyl-coenzyme A carboxylase carboxyl transferase	83.58
TIGR00634	563	recN DNA repair protein RecN. All proteins in this	83.4
PF05557	722	MAD: Mitotic checkpoint protein; InterPro: IPR0086	83.36
COG4026	290	Uncharacterized protein containing TOPRIM domain,	83.21
cd00632	105	Prefoldin_beta Prefoldin beta; Prefoldin is a hexa	82.52
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	82.51
COG1382	119	GimC Prefoldin, chaperonin cofactor [Posttranslati	82.12
cd00890	129	Prefoldin Prefoldin is a hexameric molecular chape	81.79
KOG3501	114	consensus Molecular chaperone Prefoldin, subunit 1	81.74
PF04728	56	LPP: Lipoprotein leucine-zipper; InterPro: IPR0068	81.42
TIGR02338	110	gimC_beta prefoldin, beta subunit, archaeal. Chape	81.29
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	81.11
KOG4302	660	consensus Microtubule-associated protein essential	80.86
PRK00409	782	recombination and DNA strand exchange inhibitor pr	80.82
PF01920	106	Prefoldin_2: Prefoldin subunit; InterPro: IPR00277	80.62
PF15294	278	Leu_zip: Leucine zipper	80.38
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	80.14
TIGR02231	525	conserved hypothetical protein. This family consis	80.12
COG4026	290	Uncharacterized protein containing TOPRIM domain,	80.03

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=98.97  E-value=7e-08  Score=89.81  Aligned_cols=140  Identities=22%  Similarity=0.299  Sum_probs=112.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH------------------HHh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH------------------DLV   92 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~------------------dl~   92 (282)
                      ++..+..++..+..++..++.+|..+..+|..++      ++|..|...|+.|+|.+|.                  ||+
T Consensus        60 qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~------~~I~~r~~~l~~raRAmq~nG~~t~Yidvil~SkSfsD~I  133 (265)
T COG3883          60 QIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK------ENIVERQELLKKRARAMQVNGTATSYIDVILNSKSFSDLI  133 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHcCChhHHHHHHHccCcHHHHH
Confidence            3334444444444444455555555555555555      6799999999999999998                  777


Q ss_pred             hhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhH
Q 023459           93 TSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKL  172 (282)
Q Consensus        93 ~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl  172 (282)
                      +|+++          |...++.....++.+..+-..|+.....+++++..|.....+++.           .-..|..++
T Consensus       134 sRvtA----------i~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l~al~~e~e~-----------~~~~L~~qk  192 (265)
T COG3883         134 SRVTA----------ISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETLVALQNELET-----------QLNSLNSQK  192 (265)
T ss_pred             HHHHH----------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHH
Confidence            77777          999999999999999999999999999999999999999999965           668899999


Q ss_pred             HHHHHHHHHHHHhHHhHHHhhccch
Q 023459          173 DEKDREISGFKKKVDDLESELGNCK  197 (282)
Q Consensus       173 ~eke~ei~~Lk~~~e~L~~~l~~~k  197 (282)
                      .+++..+..+......+..+...++
T Consensus       193 ~e~~~l~~~~aa~~a~~~~e~a~l~  217 (265)
T COG3883         193 AEKNALIAALAAKEASALGEKAALE  217 (265)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            9999999999988888888877666

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=98.83  E-value=3e-07  Score=98.06  Aligned_cols=200  Identities=19%  Similarity=0.309  Sum_probs=167.0

Q ss_pred             ccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 023459           19 DFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEG   98 (282)
Q Consensus        19 ~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~   98 (282)
                      .|..|-...+  .+..+...|-..+.+...+.++++.....+..++...+.++          ..+..+........+++
T Consensus       272 ~W~~V~~~~~--ql~~~~~~i~~~qek~~~l~~ki~~~~~k~~~~r~k~teie----------a~i~~~~~e~~~~d~Ei  339 (1074)
T KOG0250|consen  272 AWAWVNEVER--QLNNQEEEIKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIE----------AKIGELKDEVDAQDEEI  339 (1074)
T ss_pred             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHH----------HHHHHHHHhhhhhhHHH
Confidence            5888888877  88888899999999999999999999999999998777777          88888888888888999


Q ss_pred             chhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHH
Q 023459           99 DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDRE  178 (282)
Q Consensus        99 ~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~e  178 (282)
                      +.++..+..++.++.+.+..+...+..|..++.....++++|.+++...-..    +      |+...++..++..+..+
T Consensus       340 ~~~r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~~----~------~~~~~e~e~k~~~L~~e  409 (1074)
T KOG0250|consen  340 EEARKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNNE----L------GSELEERENKLEQLKKE  409 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----h------hhhHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999998333    4      78889999999999999


Q ss_pred             HHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccc
Q 023459          179 ISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVN  240 (282)
Q Consensus       179 i~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~  240 (282)
                      +..++..+..|..++++++..-..-+.+...+++.|.++++.++....-+..|+...-.-|+
T Consensus       410 vek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~~k~dkvs  471 (1074)
T KOG0250|consen  410 VEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQLRKKIENISEELKDLKKTKTDKVS  471 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhh
Confidence            99999999999999999988865555555556666666666666666555555554444443

>PRK11637 AmiB activator; Provisional

Probab=98.61  E-value=2.6e-05  Score=76.65  Aligned_cols=154  Identities=13%  Similarity=0.205  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHH-HHHHHHHHHHHHHHHHHH--------HHhhhhcccchhHHHHHHHHHHHhhh
Q 023459           45 ENKEMKGTIKKLTIEIEGSEEDKRILE-SVAARAEELEIEVSRLQH--------DLVTSMSEGDELGAEVAELKRVLGEK  115 (282)
Q Consensus        45 Ei~elkekI~~le~eIe~lr~~~~~le-~i~~r~~~L~ee~~~~q~--------dl~~~~s~~~e~reEm~~LkseIee~  115 (282)
                      +++.+..+|..++.+|..+..+...++ .|..+...|..+++.++.        -|....+ ...+...+.-+.......
T Consensus        90 ~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~~g~~~~l~vLl~a~~-~~~~~r~~~~l~~i~~~d  168 (428)
T PRK11637         90 KLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDAAFRQGEHTGLQLILSGEE-SQRGERILAYFGYLNQAR  168 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHHhcCCC-hhHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333 477777888888888887        2222222 122222222233333446


Q ss_pred             hhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhcc
Q 023459          116 GVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGN  195 (282)
Q Consensus       116 e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~  195 (282)
                      ...+..+......|...+..++..+..++..+.+++.           -+.+|..+..+.+..+..|+.........+..
T Consensus       169 ~~~l~~l~~~~~~L~~~k~~le~~~~~l~~~~~e~~~-----------~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~  237 (428)
T PRK11637        169 QETIAELKQTREELAAQKAELEEKQSQQKTLLYEQQA-----------QQQKLEQARNERKKTLTGLESSLQKDQQQLSE  237 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777777777777777777777777777743           56667777777777777777777776666666


Q ss_pred             chhhhhhhHHHHHHH
Q 023459          196 CKSEKNSAEKTVKEM  210 (282)
Q Consensus       196 ~k~e~~~~e~~~~~~  210 (282)
                      ++.....+...+..+
T Consensus       238 l~~~~~~L~~~I~~l  252 (428)
T PRK11637        238 LRANESRLRDSIARA  252 (428)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            655544444444443

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.48  E-value=6.5e-05  Score=80.45  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          204 EKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       204 e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                      ..++..+...+..++.++..+...
T Consensus       475 ~~~l~~l~~~l~~l~~~~~~l~~~  498 (1164)
T TIGR02169       475 KEEYDRVEKELSKLQRELAEAEAQ  498 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444433

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=98.42  E-value=9.2e-05  Score=79.28  Aligned_cols=61  Identities=15%  Similarity=0.204  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          172 LDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       172 l~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      +.++...+..+...++.+...+..+.......+.++..+...+..+..++..+...+..|.
T Consensus       436 ~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~l~~l~~~~~~l~  496 (1164)
T TIGR02169       436 INELEEEKEDKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEAE  496 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333222244444555555555555555555555444444

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.25  E-value=0.00039  Score=74.22  Aligned_cols=29  Identities=14%  Similarity=0.233  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          205 KTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       205 ~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      ..+..+...+..++.++..+..-+..+.+
T Consensus       908 ~~~~~l~~~l~~l~~~~~~~~~~~~~l~~  936 (1179)
T TIGR02168       908 SKRSELRRELEELREKLAQLELRLEGLEV  936 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.23  E-value=0.00039  Score=76.39  Aligned_cols=54  Identities=30%  Similarity=0.404  Sum_probs=31.4

Q ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           97 EGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        97 ~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++.+++++..+...+......+..+..+|..++.....+...+..+..++..+
T Consensus       377 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~  430 (1163)
T COG1196         377 LFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKEL  430 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555566666666666666666666666665555555

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=98.21  E-value=0.00034  Score=71.02  Aligned_cols=188  Identities=21%  Similarity=0.250  Sum_probs=122.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhh
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGE  114 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee  114 (282)
                      |+...+..-.++..++..-+.+...|.       .++.+..|.+-|++..++++.|+.-..+....+...+......++.
T Consensus       226 l~~~~~~i~~~ie~l~~~n~~l~e~i~-------e~ek~~~~~eslre~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~  298 (581)
T KOG0995|consen  226 LEKYFTSIANEIEDLKKTNRELEEMIN-------EREKDPGKEESLREKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEM  298 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhcCcchHHHHHHHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            333333333344444444444444444       3345566777777999999998887777766666666677777777


Q ss_pred             hhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          115 KGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       115 ~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      +..+|+..+.+++.|.+....+.++|..-  .+...+             =+.|+.+..++.+.+..+..+.+.|..++-
T Consensus       299 l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q--~iS~~d-------------ve~mn~Er~~l~r~l~~i~~~~d~l~k~vw  363 (581)
T KOG0995|consen  299 LKSEIEEKEEEIEKLQKENDELKKQIELQ--GISGED-------------VERMNLERNKLKRELNKIQSELDRLSKEVW  363 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777776666666666532  444443             367778888888888888888888888777


Q ss_pred             cchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--Hhhhh-ccccccccccccccc
Q 023459          195 NCKSEKNSAEKTVKEMDERILLWQKEIEEAEKV--IAGLK-DKTLDGVNGTARDVK  247 (282)
Q Consensus       195 ~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~--~~~~~-~~~~~~~~~~~~~~~  247 (282)
                      +.+.+   .+.-.++++....++...++++.-.  .++++ ++..++++++++|..
T Consensus       364 ~~~l~---~~~~f~~le~~~~~~~~l~~~i~l~~~~~~~n~~~~pe~~~~~~~d~k  416 (581)
T KOG0995|consen  364 ELKLE---IEDFFKELEKKFIDLNSLIRRIKLGIAENSKNLERNPERAATNGVDLK  416 (581)
T ss_pred             hHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcCCccCccccccch
Confidence            66655   4555566666666666666666554  34555 577788888777764

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=98.21  E-value=0.0006  Score=72.76  Aligned_cols=46  Identities=17%  Similarity=0.360  Sum_probs=17.4

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459          103 AEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus       103 eEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      ..+..+...+......+..+...+..++..+..++.++..++..+.
T Consensus       803 ~~l~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~l~~~~~~~~~~l~  848 (1179)
T TIGR02168       803 EALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIE  848 (1179)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333333333333333333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=98.20  E-value=0.0019  Score=59.09  Aligned_cols=34  Identities=21%  Similarity=0.311  Sum_probs=12.5

Q ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          117 VKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       117 ~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..++..+.....++..+..++..|..+...+..+
T Consensus       127 ~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~l  160 (237)
T PF00261_consen  127 QELERAEERAEAAESKIKELEEELKSVGNNLKSL  160 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHh
Confidence            3333333333333333333333333333333333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PRK02224 chromosome segregation protein; Provisional

Probab=98.15  E-value=0.00067  Score=71.83  Aligned_cols=21  Identities=33%  Similarity=0.409  Sum_probs=8.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH
Q 023459          204 EKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       204 e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      +..+...+.+|..+..++.++
T Consensus       376 ~~~l~~~~~~l~~l~~el~el  396 (880)
T PRK02224        376 REAVEDRREEIEELEEEIEEL  396 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444433

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=98.08  E-value=0.00049  Score=74.14  Aligned_cols=201  Identities=15%  Similarity=0.256  Sum_probs=128.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      ++.+|..++......+.++..++.+.++.|..+.....+-.          .++..+..+|.....++..+..++.....
T Consensus       296 k~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d----------~Ei~~~r~~~~~~~re~~~~~~~~~~~~n  365 (1074)
T KOG0250|consen  296 KVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQD----------EEIEEARKDLDDLRREVNDLKEEIREIEN  365 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhh----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777777777888888888888888888887766666          66667777777777666666666666666


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHH-HHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEK-VESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDL  189 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~-~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L  189 (282)
                      .|.+++..+..+++.|..+++.- ..+...+.+.+.++.-|                  ..++..++..+..|+.+.+.+
T Consensus       366 ~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L------------------~~evek~e~~~~~L~~e~~~~  427 (1074)
T KOG0250|consen  366 SIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQL------------------KKEVEKLEEQINSLREELNEV  427 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666665555555 44444444444444444                  456666667777788888888


Q ss_pred             HHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH------HhhhhccccccccccccccccCCCCccccccccc
Q 023459          190 ESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKV------IAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNW  261 (282)
Q Consensus       190 ~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (282)
                      ...+-..+-+....+..+.++.++|.....+++.+.+.      .+|  ..+-..+--|.+-.+.---...||.|+-|
T Consensus       428 ~~~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~~k~dkvs~FG--~~m~~lL~~I~r~~~~f~~~P~GPlG~~V  503 (1074)
T KOG0250|consen  428 KEKAKEEEEEKEHIEGEILQLRKKIENISEELKDLKKTKTDKVSAFG--PNMPQLLRAIERRKRRFQTPPKGPLGKYV  503 (1074)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhcc--hhhHHHHHHHHHHHhcCCCCCCCCcccee
Confidence            77777766665556677777777777777777777653      233  33334444444433211133455666543

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=98.07  E-value=0.0016  Score=71.68  Aligned_cols=111  Identities=23%  Similarity=0.380  Sum_probs=52.5

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHH
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFK  183 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk  183 (282)
                      ....++..+......+..+...+..++..+..++..+..+..++..+           .+....+..++..++..+..++
T Consensus       377 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~~i~~l~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~  445 (1163)
T COG1196         377 LFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDL-----------KEELKELEAELEELQTELEELN  445 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHhhhhhHHHHH
Confidence            44445555555555555555555555555555555555555555555           2233344444444444444444


Q ss_pred             HhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          184 KKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       184 ~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      ..+..|...+..+.+.-.+.++.+......+..+..+++.+.
T Consensus       446 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  487 (1163)
T COG1196         446 EELEELEEQLEELRDRLKELERELAELQEELQRLEKELSSLE  487 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444333333344444444444444443333

>TIGR00606 rad50 rad50

Probab=98.02  E-value=0.0021  Score=71.51  Aligned_cols=196  Identities=12%  Similarity=0.223  Sum_probs=113.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHH----------HHHHHHHHHHHHHHHHHHHHHhhhhcccch
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRIL----------ESVAARAEELEIEVSRLQHDLVTSMSEGDE  100 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~l----------e~i~~r~~~L~ee~~~~q~dl~~~~s~~~e  100 (282)
                      .+..+..++..++.++..+..++..+...+..+..++..+          .++...-..|+.++..+..++....+.   
T Consensus       745 eip~l~~~l~~le~~l~~~~~~le~~~~~l~~~~~~~~~~esL~~~v~~i~r~~~ei~~l~~qie~l~~~l~~~~~~---  821 (1311)
T TIGR00606       745 EIPELRNKLQKVNRDIQRLKNDIEEQETLLGTIMPEEESAKVCLTDVTIMERFQMELKDVERKIAQQAAKLQGSDLD---  821 (1311)
T ss_pred             hchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccc---
Confidence            4566777777777777777777777777776666666555          555677777777777777666644331   


Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREIS  180 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~  180 (282)
                        ..+..+...+......+..+...+..+......++..|..|+.++..+..... ..+.....+.++..+++++..++.
T Consensus       822 --~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~kl-kl~~~l~~r~~le~~L~el~~el~  898 (1311)
T TIGR00606       822 --RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKL-QIGTNLQRRQQFEEQLVELSTEVQ  898 (1311)
T ss_pred             --CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence              13444555555555555555555555555555555555555444444422111 111234566777777777777777


Q ss_pred             HHHHhHHhHHHhhccchhhh-----------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          181 GFKKKVDDLESELGNCKSEK-----------NSAEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       181 ~Lk~~~e~L~~~l~~~k~e~-----------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      ++...+..+..++..+..+-           ...+.....++..+..++..++.+..+...++
T Consensus       899 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  961 (1311)
T TIGR00606       899 SLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIE  961 (1311)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777776665442           33334445555555555555554444443333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK02224 chromosome segregation protein; Provisional

Probab=98.00  E-value=0.0015  Score=69.26  Aligned_cols=28  Identities=32%  Similarity=0.426  Sum_probs=12.0

Q ss_pred             chhHHHHHHHHHHHhhhhhhHHHHHHHH
Q 023459           99 DELGAEVAELKRVLGEKGVKLEELEREV  126 (282)
Q Consensus        99 ~e~reEm~~LkseIee~e~eIeelEkeI  126 (282)
                      ..+..++..+...+..+...++.+..++
T Consensus       275 ~~l~~~i~~~~~~~~~le~e~~~l~~~l  302 (880)
T PRK02224        275 EELAEEVRDLRERLEELEEERDDLLAEA  302 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344444444444444444444444433

>PHA02562 46 endonuclease subunit; Provisional

Probab=98.00  E-value=0.0037  Score=62.64  Aligned_cols=97  Identities=16%  Similarity=0.372  Sum_probs=55.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH--------HHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDK--------RILESVAARAEELEIEVSRLQHDLVTSMSEGDELG  102 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~--------~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~r  102 (282)
                      ++..++.++..+..++..+..++..+...+..++...        ..++.+......|+.++..++..+.+-.+..+.+.
T Consensus       175 ~~~e~~~~i~~l~~~i~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~  254 (562)
T PHA02562        175 KIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPS  254 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHH
Confidence            3445555555555555555555555544444443321        22333455666667777777777776666666656


Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHh
Q 023459          103 AEVAELKRVLGEKGVKLEELEREVD  127 (282)
Q Consensus       103 eEm~~LkseIee~e~eIeelEkeIe  127 (282)
                      +.+..+...+...+..+..+++.+.
T Consensus       255 ~~L~~l~~~~~~~~~~l~~~~~~~~  279 (562)
T PHA02562        255 AALNKLNTAAAKIKSKIEQFQKVIK  279 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666555555544

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.98  E-value=0.0029  Score=64.56  Aligned_cols=104  Identities=22%  Similarity=0.254  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      +..-|..++..+..+..++......++.+...++.....|+          .++...+.....-...++++......+..
T Consensus       137 ka~~lQ~qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~----------~eL~~~~ee~e~L~~~~kel~~~~e~l~~  206 (546)
T PF07888_consen  137 KAQLLQNQLEECQKEKEELLKENEQLEEEVEQLREEVERLE----------AELEQEEEEMEQLKQQQKELTESSEELKE  206 (546)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445666666666666666666666666655553333333          33333333222222223333333333444


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELE  144 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE  144 (282)
                      +.+.+.....+....|..|+..+..+..+..+.+
T Consensus       207 E~~~L~~q~~e~~~ri~~LEedi~~l~qk~~E~e  240 (546)
T PF07888_consen  207 ERESLKEQLAEARQRIRELEEDIKTLTQKEKEQE  240 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444443333

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=97.94  E-value=0.0051  Score=58.42  Aligned_cols=184  Identities=24%  Similarity=0.343  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh-
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG-  113 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe-  113 (282)
                      |..++..+-+++..+..+++.+...+.++++....+-          +++..+-..-.+-.+..+++...+..+....+ 
T Consensus        32 l~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdein----------eev~elK~kR~ein~kl~eL~~~~~~l~e~~~~  101 (294)
T COG1340          32 LRKEASELAEKRDELNAKVRELREKAQELREERDEIN----------EEVQELKEKRDEINAKLQELRKEYRELKEKRNE  101 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            3444444444444444444444444444443333332          44444444333333333334444444444444 


Q ss_pred             --hhhhhHHHHHHHHhhhHHHHH----------HHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHH
Q 023459          114 --EKGVKLEELEREVDGLKKEKV----------ESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISG  181 (282)
Q Consensus       114 --e~e~eIeelEkeIe~LE~e~~----------~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~  181 (282)
                        -....+..++..|..|+....          .+-.+|..|+..+.....  +.+-+.   --.++..+++.+...-.+
T Consensus       102 ~~~~~~~~~~ler~i~~Le~~~~T~~L~~e~E~~lvq~I~~L~k~le~~~k--~~e~~~---~~~el~aei~~lk~~~~e  176 (294)
T COG1340         102 FNLGGRSIKSLEREIERLEKKQQTSVLTPEEERELVQKIKELRKELEDAKK--ALEENE---KLKELKAEIDELKKKARE  176 (294)
T ss_pred             hhccCCCHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHH--HHHHHH---HHHHHHHHHHHHHHHHHH
Confidence              334445555666666654443          233455555555554431  111110   112223333333333333


Q ss_pred             HHHhHHhHHHhhccchhhh---------------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          182 FKKKVDDLESELGNCKSEK---------------------NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       182 Lk~~~e~L~~~l~~~k~e~---------------------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      +.+++..|..+.+.+....                     -+....+.+....+..++++++++.+.|++|..
T Consensus       177 ~~eki~~la~eaqe~he~m~k~~~~~De~Rkeade~he~~ve~~~~~~e~~ee~~~~~~elre~~k~ik~l~~  249 (294)
T COG1340         177 IHEKIQELANEAQEYHEEMIKLFEEADELRKEADELHEEFVELSKKIDELHEEFRNLQNELRELEKKIKALRA  249 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444333321                     556678888888999999999999999998876

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.94  E-value=0.0016  Score=59.50  Aligned_cols=105  Identities=24%  Similarity=0.362  Sum_probs=44.7

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKV  186 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~  186 (282)
                      .....++.....+..++.++...+.+...++.++..|+..|..+           |..=..|...-.........+..++
T Consensus       110 e~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~-----------~~~lk~lE~~~~~~~~re~~~e~~i  178 (237)
T PF00261_consen  110 EAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSV-----------GNNLKSLEASEEKASEREDEYEEKI  178 (237)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHH-----------HHHHHHhhhhhhhhhHHHHHHHHHH
Confidence            33333444444444444444444444444444444444444444           2222233333333333344444555


Q ss_pred             HhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHH
Q 023459          187 DDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIE  222 (282)
Q Consensus       187 e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~  222 (282)
                      ..|...+.+....-...++.+..++..|..+..++.
T Consensus       179 ~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~  214 (237)
T PF00261_consen  179 RDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELE  214 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555544433333333444444444444444433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>PRK03918 chromosome segregation protein; Provisional

Probab=97.90  E-value=0.0089  Score=63.19  Aligned_cols=30  Identities=37%  Similarity=0.472  Sum_probs=14.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          203 AEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       203 ~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      .+.++..+...+.+++..+.++.+.+..|.
T Consensus       403 l~~~i~~l~~~~~~~~~~i~eL~~~l~~L~  432 (880)
T PRK03918        403 IEEEISKITARIGELKKEIKELKKAIEELK  432 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444555555555555555444443

>PRK11637 AmiB activator; Provisional

Probab=97.87  E-value=0.0083  Score=59.09  Aligned_cols=35  Identities=11%  Similarity=0.241  Sum_probs=20.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEE   65 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~   65 (282)
                      ++..+..+|..++.++..+..++..+..+|..+..
T Consensus        48 ~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~   82 (428)
T PRK11637         48 QLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEE   82 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666666666555555555555555543

>PHA02562 46 endonuclease subunit; Provisional

Probab=97.86  E-value=0.0026  Score=63.75  Aligned_cols=33  Identities=27%  Similarity=0.292  Sum_probs=15.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +..++.++..+..+...+..++..++.+|..+.
T Consensus       215 i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~  247 (562)
T PHA02562        215 IARKQNKYDELVEEAKTIKAEIEELTDELLNLV  247 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            444444444444444444444444444444443

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

Probab=97.84  E-value=0.004  Score=57.62  Aligned_cols=30  Identities=23%  Similarity=0.369  Sum_probs=16.3

Q ss_pred             HHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          165 EEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       165 keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      ++.+...+..++.....+..+...|...+.
T Consensus       144 ~~~~e~e~~~i~e~~~~~~~~~~~L~~~l~  173 (239)
T COG1579         144 EARLEEEVAEIREEGQELSSKREELKEKLD  173 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            344445555555555555555555555544

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.73  E-value=0.0064  Score=69.71  Aligned_cols=181  Identities=25%  Similarity=0.386  Sum_probs=90.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHH
Q 023459           41 SLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLE  120 (282)
Q Consensus        41 ~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIe  120 (282)
                      .++.+...+..+|+.++.+|..++.....|-   +-..+|++.++.++.++.........+......+...++.++...+
T Consensus       954 k~~~Ek~~~e~~~~~l~~e~~~~~e~~~kL~---kekk~lEe~~~~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~le 1030 (1930)
T KOG0161|consen  954 KLELEKNAAENKLKNLEEEINSLDENISKLS---KEKKELEERIRELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTLE 1030 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444444443222222   2223366777777777777777666666666666666666666666


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHH--H-HHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccch
Q 023459          121 ELEREVDGLKKEKVESEKKVRELERNVGLLEVR--E-MEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCK  197 (282)
Q Consensus       121 elEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~--~-~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k  197 (282)
                      .-.+....+++.+.+++-.+..+...+.++..+  + .....++-----.|..++++....+.++...+..|...+.++.
T Consensus      1031 ~e~~~r~e~Ek~~rkle~el~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~ 1110 (1930)
T KOG0161|consen 1031 REKRIRMELEKAKRKLEGELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELE 1110 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555555554444444433110  0 0011111112233444455555555555555555555555544


Q ss_pred             hhh-------hhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          198 SEK-------NSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       198 ~e~-------~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      ...       ...++....+...+.+++.++.+.
T Consensus      1111 e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~ 1144 (1930)
T KOG0161|consen 1111 EELEAERASRAKAERQRRDLSEELEELKEELEEQ 1144 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            442       344455555566666666655555

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=97.69  E-value=0.01  Score=68.06  Aligned_cols=67  Identities=22%  Similarity=0.296  Sum_probs=25.3

Q ss_pred             HHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHh
Q 023459           81 EIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNV  147 (282)
Q Consensus        81 ~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl  147 (282)
                      +.+++.+..++......+..+..+-..+...+......+...+....++.+.+..++..+.+++..+
T Consensus       963 e~~~~~l~~e~~~~~e~~~kL~kekk~lEe~~~~l~~~l~~~eek~~~l~k~~~kle~~l~~le~~l 1029 (1930)
T KOG0161|consen  963 ENKLKNLEEEINSLDENISKLSKEKKELEERIRELQDDLQAEEEKAKSLNKAKAKLEQQLDDLEVTL 1029 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444333323333333333333333333333333333333333333333333333333

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.67  E-value=0.0087  Score=61.28  Aligned_cols=131  Identities=17%  Similarity=0.245  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHH----------HHHHHHHHHHHHHHhhHHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKE----------KVESEKKVRELERNVGLLE  151 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e----------~~~~ek~i~~LE~kl~ele  151 (282)
                      +++..++..|..-..++..+...+..+...+.........+..++..+...          ...+++++..++..+..+ 
T Consensus       289 ~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~-  367 (569)
T PRK04778        289 ERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEI-  367 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHH-
Confidence            777888888888888888888888888888888888888888888888877          777777777777777765 


Q ss_pred             HHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHH
Q 023459          152 VREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILL  216 (282)
Q Consensus       152 ~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~  216 (282)
                         .+.-+..-..=..+...+.++...+..+++....+...+..+...+.++...+..+...+..
T Consensus       368 ---~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~  429 (569)
T PRK04778        368 ---TERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHE  429 (569)
T ss_pred             ---HHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               21122222234556666666666666666666666666665555444444444444444433

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.65  E-value=0.0074  Score=65.82  Aligned_cols=157  Identities=26%  Similarity=0.401  Sum_probs=87.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhcccc---hhHHHHHHHHHHHhhh-----h-hhHHHHHHHHhhh--------HHHHHH
Q 023459           73 VAARAEELEIEVSRLQHDLVTSMSEGD---ELGAEVAELKRVLGEK-----G-VKLEELEREVDGL--------KKEKVE  135 (282)
Q Consensus        73 i~~r~~~L~ee~~~~q~dl~~~~s~~~---e~reEm~~LkseIee~-----e-~eIeelEkeIe~L--------E~e~~~  135 (282)
                      .+.+-+.|+.++..+...+.-......   +....+..++.++++.     + ..|+.+...|..+        +.++..
T Consensus       832 ~~~~~~~l~~~i~~~E~~~~k~~~d~~~l~~~~~~ie~l~kE~e~~qe~~~Kk~~i~~lq~~i~~i~~e~~q~qk~kv~~  911 (1293)
T KOG0996|consen  832 LAELIEYLESQIAELEAAVLKKVVDKKRLKELEEQIEELKKEVEELQEKAAKKARIKELQNKIDEIGGEKVQAQKDKVEK  911 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhccCcHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhhchhhHHhHHHHHH
Confidence            344555555555555554333333211   1222233444444444     1 3333333333332        233444


Q ss_pred             HHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh-------hhhHHHHH
Q 023459          136 SEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK-------NSAEKTVK  208 (282)
Q Consensus       136 ~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~-------~~~e~~~~  208 (282)
                      +..+|..|+..+..+.+    --.+-++.-......+.++++.+..+..+.+.|...+..+....       .++..-+.
T Consensus       912 ~~~~~~~l~~~i~k~~~----~i~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~~~~~~k~~E~~~~~~e~~~~~~  987 (1293)
T KOG0996|consen  912 INEQLDKLEADIAKLTV----AIKTSDRNIAKAQKKLSELEREIEDTEKELDDLTEELKGLEEKAAELEKEYKEAEESLK  987 (1293)
T ss_pred             HHHHHHHHHHHHHHhHH----HHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            44555555555555532    11223566667777777777777777777777777776655543       56666677


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          209 EMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       209 ~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      ++..++.+++..+..+.+.+..|+-
T Consensus       988 E~k~~~~~~k~~~e~i~k~~~~lk~ 1012 (1293)
T KOG0996|consen  988 EIKKELRDLKSELENIKKSENELKA 1012 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777888888888888777776

>TIGR00606 rad50 rad50

Probab=97.64  E-value=0.015  Score=64.93  Aligned_cols=99  Identities=16%  Similarity=0.312  Sum_probs=52.3

Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHH--HHHHHHHHHhHHhH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEK--DREISGFKKKVDDL  189 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~ek--e~ei~~Lk~~~e~L  189 (282)
                      +......+..+...+..++.++..+...|..+.+.+..+..           .+..+...+.-+  ..++.+++.++..|
T Consensus       972 L~~~e~el~~~~~~ie~le~e~~~l~~~i~~l~kel~~~~~-----------~kr~l~dnL~~~~~~~~l~el~~eI~~l 1040 (1311)
T TIGR00606       972 LKQKETELNTVNAQLEECEKHQEKINEDMRLMRQDIDTQKI-----------QERWLQDNLTLRKRENELKEVEEELKQH 1040 (1311)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555566666666666666666666665532           344444444444  44555555555555


Q ss_pred             HHhhccc-------------------hhhhhhhHHHHHHHHHHHHHHHHHH
Q 023459          190 ESELGNC-------------------KSEKNSAEKTVKEMDERILLWQKEI  221 (282)
Q Consensus       190 ~~~l~~~-------------------k~e~~~~e~~~~~~e~~I~~l~~e~  221 (282)
                      ..++.++                   ......+...+..++..|..++.++
T Consensus      1041 ~~~~~~~~~~~~~~e~~~l~~~~~~l~~~~a~l~g~~k~le~qi~~l~~eL 1091 (1311)
T TIGR00606      1041 LKEMGQMQVLQMKQEHQKLEENIDLIKRNHVLALGRQKGYEKEIKHFKKEL 1091 (1311)
T ss_pred             HHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5444443                   1111344456666666666666666

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK01156 chromosome segregation protein; Provisional

Probab=97.63  E-value=0.033  Score=59.41  Aligned_cols=28  Identities=7%  Similarity=0.234  Sum_probs=12.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          205 KTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       205 ~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      .++..+...|..+..++.++.+.+..|+
T Consensus       416 ~~~~~l~~~i~~l~~~i~~l~~~~~el~  443 (895)
T PRK01156        416 VKLQDISSKVSSLNQRIRALRENLDELS  443 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444444444444

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=97.62  E-value=0.019  Score=58.87  Aligned_cols=158  Identities=18%  Similarity=0.244  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           71 ESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        71 e~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..+..+-..|..+...+...+......|..+..++..+...++.......++...|..|........+++..+..++..+
T Consensus       351 ~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~i  430 (569)
T PRK04778        351 RQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEI  430 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445666666777778888888889999999999999999999999999999999999999999999999999999877


Q ss_pred             HHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459          151 EVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAG  230 (282)
Q Consensus       151 e~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~  230 (282)
                      ..  .=+++---|+-+....-.......|..|...++.....+.....+-......+..+..+..++..-..-++.+|.-
T Consensus       431 kr--~l~k~~lpgip~~y~~~~~~~~~~i~~l~~~L~~g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy  508 (569)
T PRK04778        431 KR--YLEKSNLPGLPEDYLEMFFEVSDEIEALAEELEEKPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQY  508 (569)
T ss_pred             HH--HHHHcCCCCCcHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            42  3244444667788888899988888888888877555555555444677777888888888888877777777766

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=97.60  E-value=0.033  Score=50.17  Aligned_cols=178  Identities=21%  Similarity=0.299  Sum_probs=124.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDK----RILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVA  106 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~----~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~  106 (282)
                      .+..|+++|..++.+......++.....++..+....    ..+.+|.-|+-.++++...+...+-+...-.+.+.-.+.
T Consensus         5 ~va~lnrri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~e   84 (205)
T KOG1003|consen    5 DVAALNRRIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYE   84 (205)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667777777777777776666666666665444322    345667789999999998888888888888888888888


Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKV  186 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~  186 (282)
                      .+...+.-++..++..+...+.-+..+..++..++.+-+.+.-+.+           ..+.+..+.+..+.+|..+-.+.
T Consensus        85 EVarkL~iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~-----------~ee~~~q~~d~~e~~ik~ltdKL  153 (205)
T KOG1003|consen   85 EVARKLVIIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSA-----------KEEKLEQKEEKYEEELKELTDKL  153 (205)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHH-----------HHHHHhhhHHHHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888855           44566666666666666665533


Q ss_pred             HhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          187 DDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       187 e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      .              +.+.+..+.+++++-|..+..+++.-....++
T Consensus       154 k--------------EaE~rAE~aERsVakLeke~DdlE~kl~~~k~  186 (205)
T KOG1003|consen  154 K--------------EAETRAEFAERRVAKLEKERDDLEEKLEEAKE  186 (205)
T ss_pred             h--------------hhhhhHHHHHHHHHHHcccHHHHHHhhHHHHH
Confidence            2              34444445555555555555555444333333

>PRK03918 chromosome segregation protein; Provisional

Probab=97.56  E-value=0.044  Score=58.03  Aligned_cols=25  Identities=16%  Similarity=0.501  Sum_probs=10.1

Q ss_pred             HHhHHHHHHHHHHHHHhHHhHHHhh
Q 023459          169 REKLDEKDREISGFKKKVDDLESEL  193 (282)
Q Consensus       169 rekl~eke~ei~~Lk~~~e~L~~~l  193 (282)
                      ...+..++..+..++..+..+...+
T Consensus       306 ~~~~~~l~~~~~~l~~~~~~l~~~l  330 (880)
T PRK03918        306 LDELREIEKRLSRLEEEINGIEERI  330 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333444444444444444443333

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.48  E-value=0.02  Score=48.90  Aligned_cols=30  Identities=30%  Similarity=0.409  Sum_probs=13.3

Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          121 ELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       121 elEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+...|..|+.+....+..+.....++...
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~  106 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREA  106 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444444

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PRK01156 chromosome segregation protein; Provisional

Probab=97.47  E-value=0.06  Score=57.48  Aligned_cols=30  Identities=20%  Similarity=0.257  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEG   62 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~   62 (282)
                      ..+..++..++.++..+..+++.+...+..
T Consensus       472 ~~~~~~i~~l~~~i~~l~~~~~~l~~~~~~  501 (895)
T PRK01156        472 NHYNEKKSRLEEKIREIEIEVKDIDEKIVD  501 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555555555444444443

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

Probab=97.45  E-value=0.0087  Score=55.43  Aligned_cols=36  Identities=28%  Similarity=0.468  Sum_probs=13.4

Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHh
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNV  147 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl  147 (282)
                      +.......+.++..+..++.++..+..++...+.++
T Consensus        47 ~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl   82 (239)
T COG1579          47 LEALEIELEDLENQVSQLESEIQEIRERIKRAEEKL   82 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=97.44  E-value=0.026  Score=57.75  Aligned_cols=175  Identities=25%  Similarity=0.345  Sum_probs=79.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      ++....++...|......++.+...+..+++.+........          ++...+....-+.....+.+..+...|..
T Consensus       144 qlE~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~----------ee~e~L~~~~kel~~~~e~l~~E~~~L~~  213 (546)
T PF07888_consen  144 QLEECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEE----------EEMEQLKQQQKELTESSEELKEERESLKE  213 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555555555555555555555554443333          22222222222222334445555555666


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      ...+....|.+++.+|..+..+..+.++.+..+.....+++.           .+.++..++.+.-..+.........+.
T Consensus       214 q~~e~~~ri~~LEedi~~l~qk~~E~e~~~~~lk~~~~elEq-----------~~~eLk~rLk~~~~~~~~~~~~~~~~~  282 (546)
T PF07888_consen  214 QLAEARQRIRELEEDIKTLTQKEKEQEKELDKLKELKAELEQ-----------LEAELKQRLKETVVQLKQEETQAQQLQ  282 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHhhhhhhhHH
Confidence            666666666666666666655555555444444333222222           111111111111111111111111122


Q ss_pred             HhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          191 SELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEK  226 (282)
Q Consensus       191 ~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~  226 (282)
                      .+...++..-+..+..+..++....-|..+++.+..
T Consensus       283 ~e~e~LkeqLr~~qe~lqaSqq~~~~L~~EL~~~~~  318 (546)
T PF07888_consen  283 QENEALKEQLRSAQEQLQASQQEAELLRKELSDAVN  318 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            222222222255566677777777777777766644

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=97.37  E-value=0.021  Score=48.82  Aligned_cols=35  Identities=23%  Similarity=0.323  Sum_probs=13.6

Q ss_pred             hhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          115 KGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       115 ~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      +...|.-++.+++..+.....+..+++....+.+.
T Consensus        78 l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~  112 (143)
T PF12718_consen   78 LNRRIQLLEEELEEAEKKLKETTEKLREADVKAEH  112 (143)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            33333333333333444444444444433333333

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=97.36  E-value=0.089  Score=47.22  Aligned_cols=169  Identities=20%  Similarity=0.316  Sum_probs=89.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHH
Q 023459           44 LENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELE  123 (282)
Q Consensus        44 ~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelE  123 (282)
                      .+|..+.+.+..+..+++.++-+.+.|..+-.|-+---.....-+.+|......   ..+++..++..+-........++
T Consensus        12 ~ki~~L~n~l~elq~~l~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~---h~eEvr~Lr~~LR~~q~~~r~~~   88 (194)
T PF15619_consen   12 HKIKELQNELAELQRKLQELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQR---HNEEVRVLRERLRKSQEQERELE   88 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            355556666666666666666666666655555332222222222333322222   23355556666666666666666


Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh---
Q 023459          124 REVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK---  200 (282)
Q Consensus       124 keIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~---  200 (282)
                      ..+......+-.+...+..|..-...          |.....++|..+++.....+..-...+..|..++.-..+..   
T Consensus        89 ~klk~~~~el~k~~~~l~~L~~L~~d----------knL~eReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~rq  158 (194)
T PF15619_consen   89 RKLKDKDEELLKTKDELKHLKKLSED----------KNLAEREELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFRRQ  158 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHc----------CCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            66666666666666666655543321          11233566666666666666666666666665554332221   


Q ss_pred             --------hhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          201 --------NSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       201 --------~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                              .++...+..+...|..|...+.+-.
T Consensus       159 l~~e~kK~~~~~~~~~~l~~ei~~L~~klkEKe  191 (194)
T PF15619_consen  159 LASEKKKHKEAQEEVKSLQEEIQRLNQKLKEKE  191 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence                    5555666666666666666655544

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=97.34  E-value=0.026  Score=47.28  Aligned_cols=129  Identities=19%  Similarity=0.217  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhh
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEK  115 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~  115 (282)
                      ..++..++.++..+...+......+..++.|.....          ..+...+..+..-+..|...-..+..++..+...
T Consensus         2 ~~e~~~l~~e~~~~~~~~~~~~~~~~~~~~dl~~q~----------~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~   71 (132)
T PF07926_consen    2 ESELSSLQSELQRLKEQEEDAEEQLQSLREDLESQA----------KIAQEAQQKYERELVKHAEDIKELQQLREELQEL   71 (132)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            456777888888888888888888888887777777          6666677766666666777677777777776666


Q ss_pred             hhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhcc
Q 023459          116 GVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGN  195 (282)
Q Consensus       116 e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~  195 (282)
                      ...+..+............       ..+.....              -+..|..++.+.+..+.+|..+..-|+.++..
T Consensus        72 ~~~~~~l~~~~~~a~~~l~-------~~e~sw~~--------------qk~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen   72 QQEINELKAEAESAKAELE-------ESEASWEE--------------QKEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------HHHHhHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            6555555554444444433       32222222              24556667777778888888888888877754

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=97.33  E-value=0.1  Score=55.73  Aligned_cols=111  Identities=21%  Similarity=0.243  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      +-..++..+..++..+...-..+..+|+.++.+..+.+   .+++.|..++.++...+-.+.+-.+.....+..+..+..
T Consensus       298 rk~~E~~~~qt~l~~~~~~~~d~r~hi~~lkesl~~ke---~~~~~Lqsdve~Lr~rle~k~~~l~kk~~~~~~~qeE~~  374 (775)
T PF10174_consen  298 RKKSELEALQTRLETLEEQDSDMRQHIEVLKESLRAKE---QEAEMLQSDVEALRFRLEEKNSQLEKKQAQIEKLQEEKS  374 (775)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH---HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555666666666666677778888876665555   788888888888877666666666666555555555555


Q ss_pred             hhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHh
Q 023459          114 EKGVKLEELEREVDGLKKEKVESEKKVRELERNV  147 (282)
Q Consensus       114 e~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl  147 (282)
                      ....+|..+...++..+.++..+..+|..|+..+
T Consensus       375 ~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l  408 (775)
T PF10174_consen  375 RLQGEIEDLRDMLDKKERKINVLQKKIENLEEQL  408 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555555554444444

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.30  E-value=0.063  Score=58.04  Aligned_cols=163  Identities=20%  Similarity=0.318  Sum_probs=101.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHH----HHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILES----VAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~----i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      +.......+.++..+..+|..++..+.-++.++..+..    |-...--|+-.+..+|..+..-....+.+-..+..+.+
T Consensus       256 ~~~~~~~~~d~~~~~~~~i~ele~~l~~l~~ekeq~~a~~t~~~k~kt~lel~~kdlq~~i~~n~q~r~~~l~~l~~~~~  335 (1200)
T KOG0964|consen  256 YIDALDKVEDESEDLKCEIKELENKLTNLREEKEQLKARETKISKKKTKLELKIKDLQDQITGNEQQRNLALHVLQKVKD  335 (1200)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhhhhHHHHHHHHHH
Confidence            33344445556666666777777777777766666552    22224445556666776555554455556677888888


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHH----HHHHhHHHHHHHHHHHHHhH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEE----EMREKLDEKDREISGFKKKV  186 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~ke----elrekl~eke~ei~~Lk~~~  186 (282)
                      .|.+.+.++.++.-.-..+-.+...+..+|..|+++...|=.|--  +--.+.+++    =++.++..+..-|...+...
T Consensus       336 ki~e~~~EL~~I~Pky~~l~~ee~~~~~rl~~l~~~~~~l~~Kqg--r~sqFssk~eRDkwir~ei~~l~~~i~~~ke~e  413 (1200)
T KOG0964|consen  336 KIEEKKDELSKIEPKYNSLVDEEKRLKKRLAKLEQKQRDLLAKQG--RYSQFSSKEERDKWIRSEIEKLKRGINDTKEQE  413 (1200)
T ss_pred             HHHHHHHHHHHhhhHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhc--cccccCcHHHHHHHHHHHHHHHHHHHhhhhhHH
Confidence            888888888888888888888888888888888887777732111  000011111    24556666666666666555


Q ss_pred             HhHHHhhccchhh
Q 023459          187 DDLESELGNCKSE  199 (282)
Q Consensus       187 e~L~~~l~~~k~e  199 (282)
                      ..|..++.++.++
T Consensus       414 ~~lq~e~~~~e~~  426 (1200)
T KOG0964|consen  414 NILQKEIEDLESE  426 (1200)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.28  E-value=0.068  Score=58.68  Aligned_cols=119  Identities=16%  Similarity=0.228  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhhhHHHHH----HHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIE-GSEEDKRILE----SVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVA  106 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe-~lr~~~~~le----~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~  106 (282)
                      +.....+++....++..+...+......+. ...+.+...+    .|..|+.+++.........+.+-....-..++.+.
T Consensus       329 ~~~~~~ki~~~~~~~~~~~e~lk~~~ek~~~e~~~~~~k~e~~~~~~~e~~~~~kn~~~~~k~~~~~~e~~~vk~~E~lK  408 (1293)
T KOG0996|consen  329 LYESRAKIAEMQEELEKIEEGLKDENEKFDIESNEEVEKNEAVKKEIKERAKELKNKFESLKKKFQDLEREDVKREEKLK  408 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344556666666666666666666666555 2222222222    25667777776666666655555555445555555


Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+.+.+..++..+++....+..+++--......|..++..+..|
T Consensus       409 ~~~~k~kKleke~ek~~~~~~e~e~~pe~~~~~i~~~~~ei~~L  452 (1293)
T KOG0996|consen  409 RLTSKIKKLEKEIEKARRKKSELEKAPEKARIEIQKCQTEIEQL  452 (1293)
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHhCchhhHhHHHHHHHHHHHH
Confidence            55555555555555555555554444444444444444443333

>PRK09039 hypothetical protein; Validated

Probab=97.22  E-value=0.052  Score=52.52  Aligned_cols=51  Identities=14%  Similarity=0.130  Sum_probs=22.5

Q ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       100 e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ++...+..+...+...+....+...++..|...|..+..++..|+..|...
T Consensus       113 ~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~a  163 (343)
T PRK09039        113 AAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDAS  163 (343)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344444444444444444444444444444444444444444444444

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.21  E-value=0.051  Score=58.76  Aligned_cols=116  Identities=18%  Similarity=0.249  Sum_probs=76.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH-----HHhhhhcccchhHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH-----DLVTSMSEGDELGAEV  105 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~-----dl~~~~s~~~e~reEm  105 (282)
                      .+..|.+....|+.........+..++.+|+.+..++..+-   .|... ...++-+..     .+-....+|..++..+
T Consensus       182 eL~~lr~~e~~Le~~~~~~~~~l~~L~~~~~~l~kdVE~~r---er~~~-~~~Ie~l~~k~~~v~y~~~~~ey~~~k~~~  257 (1072)
T KOG0979|consen  182 ELMDLREDEKSLEDKLTTKTEKLNRLEDEIDKLEKDVERVR---ERERK-KSKIELLEKKKKWVEYKKHDREYNAYKQAK  257 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH---HHHHH-HHHHHHHHHhccccchHhhhHHHHHHHHHH
Confidence            67888889999999999999999999999999998874443   33322 234444321     4555555666666666


Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          106 AELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       106 ~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..++..+..+...+..++..+..|+..+.++..+++....-+.+-
T Consensus       258 ~r~k~~~r~l~k~~~pi~~~~eeLe~~~~et~~~~s~~~~~~~e~  302 (1072)
T KOG0979|consen  258 DRAKKELRKLEKEIKPIEDKKEELESEKKETRSKISQKQRELNEA  302 (1072)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhHHhHHHhHHHHHHHHHHHHHHH
Confidence            666666666666666666666666666666666665555444433

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=97.19  E-value=0.079  Score=57.45  Aligned_cols=213  Identities=25%  Similarity=0.284  Sum_probs=98.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHH-HHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILES-VAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELK  109 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~-i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lk  109 (282)
                      .+..+...+.+++++|.+....++.+..+|.-+..+.+-... =..|-.+|+.++..+-+.+.....       ++..-.
T Consensus       742 ~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~keik~~k~~~e~~~~-------~~ek~~  814 (1174)
T KOG0933|consen  742 DLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEIKTAKQRAEESSK-------ELEKRE  814 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
Confidence            466778888888888888888888888888666644333320 112223333333333333333222       333333


Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHH-------HHHHHHHH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDE-------KDREISGF  182 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~e-------ke~ei~~L  182 (282)
                      ..++.+.-+.+++++++..++.....++.+++.|...++.++.+=-    +--++-.....++..       .+.+|..+
T Consensus       815 ~e~e~l~lE~e~l~~e~~~~k~~l~~~~~~~~~l~~e~~~l~~kv~----~~~~~~~~~~~el~~~k~k~~~~dt~i~~~  890 (1174)
T KOG0933|consen  815 NEYERLQLEHEELEKEISSLKQQLEQLEKQISSLKSELGNLEAKVD----KVEKDVKKAQAELKDQKAKQRDIDTEISGL  890 (1174)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----hHHhHHHHHHHHHHHHHHHHHhhhHHHhhh
Confidence            3333333334444444444444444444444444444444422100    001122222223333       33333333


Q ss_pred             HHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-ccccccccccccccccCCCCcc
Q 023459          183 KKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLK-DKTLDGVNGTARDVKLNGDGEE  254 (282)
Q Consensus       183 k~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  254 (282)
                      -...+.+.++....+.+-..++-++..++++-...+.+++.+.+-..-|. ++..=+-.|...|..+...|.-
T Consensus       891 ~~~~e~~~~e~~~~~l~~kkle~e~~~~~~e~~~~~k~v~~l~~k~~wi~~ek~~fgk~gt~yDf~~~~p~~a  963 (1174)
T KOG0933|consen  891 LTSQEKCLSEKSDGELERKKLEHEVTKLESEKANARKEVEKLLKKHEWIGDEKRLFGKKGTDYDFESYDPHEA  963 (1174)
T ss_pred             hhHHHHHHHHhhcccchHHHHHhHHHHhhhhHHHHHHHHHHHHHhccchhHHHHhhcCCCCccccccCCHhHH
Confidence            33333333444433333366666777777777777777776666443333 2222233344444433444443

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

Probab=97.17  E-value=0.2  Score=46.87  Aligned_cols=12  Identities=25%  Similarity=0.454  Sum_probs=5.0

Q ss_pred             HHHHHHHHHHHH
Q 023459           78 EELEIEVSRLQH   89 (282)
Q Consensus        78 ~~L~ee~~~~q~   89 (282)
                      ..|+.++..++.
T Consensus       120 ~~le~~i~~L~e  131 (312)
T PF00038_consen  120 VDLENQIQSLKE  131 (312)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHH
Confidence            334444444443

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

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=97.13  E-value=0.15  Score=52.02  Aligned_cols=140  Identities=21%  Similarity=0.306  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH---H-Hh
Q 023459           83 EVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREM---E-EK  158 (282)
Q Consensus        83 e~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~---~-~~  158 (282)
                      .+.++..+|.+.....+.+.+++..|...++.+..++.....++..+........-.+..|+.++..... ++   . .-
T Consensus       282 ~l~s~~~ELe~ak~~L~~~k~E~~~L~~~vesL~~ELe~~K~el~~lke~e~~a~~~v~~L~~eL~~~r~-eLea~~~~e  360 (522)
T PF05701_consen  282 SLASAKKELEEAKKELEKAKEEASSLRASVESLRSELEKEKEELERLKEREKEASSEVSSLEAELNKTRS-ELEAAKAEE  360 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhHHHHHHHHHH-HHHHHHhhh
Confidence            3444444555555555555555555555555555555555555555555555555555555554443311 00   0 00


Q ss_pred             hhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHH
Q 023459          159 SKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEE  223 (282)
Q Consensus       159 ~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e  223 (282)
                      ++....-..|-..+.++..+....+......+.++..++.+-.++...+..++..+.....++..
T Consensus       361 ~~~k~~~~~l~~~Lqql~~Eae~Ak~ea~~~~~E~~~~k~E~e~~ka~i~t~E~rL~aa~ke~ea  425 (522)
T PF05701_consen  361 EKAKEAMSELPKALQQLSSEAEEAKKEAEEAKEEVEKAKEEAEQTKAAIKTAEERLEAALKEAEA  425 (522)
T ss_pred             cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111223344444444444444444444444444433333344445555555555555554433

Several sequences in this family are described as being myosin heavy chain-like.

>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]

Probab=97.11  E-value=0.16  Score=48.39  Aligned_cols=53  Identities=34%  Similarity=0.413  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKV  134 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~  134 (282)
                      ..++.+.....+-.+..+++.+++..++...+.....+.++-..+.++.....
T Consensus        48 ~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~  100 (294)
T COG1340          48 AKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRN  100 (294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            44555544444444455555555555555555555555555555555555444

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=97.10  E-value=0.32  Score=48.40  Aligned_cols=115  Identities=12%  Similarity=0.133  Sum_probs=58.1

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHH---HhhhhhchHHHHHHhHHHHHHHHHHHHHhH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREME---EKSKRVRVEEEMREKLDEKDREISGFKKKV  186 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~---~~~~~gg~keelrekl~eke~ei~~Lk~~~  186 (282)
                      ..+.+++..+..+...-..=...+..+..+|..++..+......-..   ...--......|...+.+.+..+..++.+.
T Consensus       254 ~~l~~l~~~l~~l~~~y~~~hP~v~~l~~qi~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~  333 (498)
T TIGR03007       254 GRIEALEKQLDALRLRYTDKHPDVIATKREIAQLEEQKEEEGSAKNGGPERGEIANPVYQQLQIELAEAEAEIASLEARV  333 (498)
T ss_pred             HHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHhhccccccCcccccccChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444443333333456666666777776666554110000   000001234556666777777777777666


Q ss_pred             HhHHHhhccchhhh----------hhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          187 DDLESELGNCKSEK----------NSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       187 e~L~~~l~~~k~e~----------~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      ..|...+..++.+-          ..+++++...+.....+..++.++
T Consensus       334 ~~l~~~~~~~~~~~~~~~~~~~el~~L~Re~~~~~~~Y~~l~~r~eea  381 (498)
T TIGR03007       334 AELTARIERLESLLRTIPEVEAELTQLNRDYEVNKSNYEQLLTRRESA  381 (498)
T ss_pred             HHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666555442          445555555555555555554443

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=97.01  E-value=0.22  Score=53.71  Aligned_cols=99  Identities=19%  Similarity=0.271  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH------------HHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHH
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSEEDKR------------ILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAE  104 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~------------~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reE  104 (282)
                      .+-++|+.++..+++++++++-.++-++.+..            .+..|...+.-|++-+-++..-..+..-.++.+..+
T Consensus       325 ERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~ke  404 (1243)
T KOG0971|consen  325 ERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKE  404 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            55566777777777777777776666664432            234466777777777777776444444444454455


Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVE  135 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~  135 (282)
                      |...+++++++....+.+...++..|..+..
T Consensus       405 lE~k~sE~~eL~r~kE~Lsr~~d~aEs~iad  435 (1243)
T KOG0971|consen  405 LEKKNSELEELRRQKERLSRELDQAESTIAD  435 (1243)
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555554444444444444444444443333

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.01  E-value=0.06  Score=57.06  Aligned_cols=140  Identities=18%  Similarity=0.290  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      +-.++.+...|+.++.++..++..+...|.+.+-++.                        +...+.+.++...+-..++
T Consensus       432 iv~~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~t------------------------t~kt~ie~~~~q~e~~ise  487 (1118)
T KOG1029|consen  432 IVYLNAKKKQLQQELETLNFKLQQLSGKLQDVRVDIT------------------------TQKTEIEEVTKQRELMISE  487 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccc------------------------hHHHHHHHhhhHHHHHHHH
Confidence            3344555555555555555555555555555443332                        2233333333334444555


Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHH-------hhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERN-------VGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~k-------l~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      |+++...|.++..-+-.|-.+...+.++++.-..-       +..|+.    -+-+|--+...++++++++.+++..-.+
T Consensus       488 i~qlqarikE~q~kl~~l~~Ekq~l~~qlkq~q~a~~~~~~~~s~L~a----a~~~ke~irq~ikdqldelskE~esk~~  563 (1118)
T KOG1029|consen  488 IDQLQARIKELQEKLQKLAPEKQELNHQLKQKQSAHKETTQRKSELEA----ARRKKELIRQAIKDQLDELSKETESKLN  563 (1118)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhhccCcchHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666666666666666554332       333321    1223333677778888888887777667


Q ss_pred             hHHhHHHhhccchhh
Q 023459          185 KVDDLESELGNCKSE  199 (282)
Q Consensus       185 ~~e~L~~~l~~~k~e  199 (282)
                      +++.+..++.+++..
T Consensus       564 eidi~n~qlkelk~~  578 (1118)
T KOG1029|consen  564 EIDIFNNQLKELKED  578 (1118)
T ss_pred             hhhhHHHHHHHHHHH
Confidence            777776666666554

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.99  E-value=0.34  Score=55.18  Aligned_cols=34  Identities=12%  Similarity=0.214  Sum_probs=20.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK  234 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~  234 (282)
                      .+-..++.++...+.+++.++..+...+..+...
T Consensus       445 enF~aklee~e~qL~elE~kL~~lea~leql~~~  478 (1486)
T PRK04863        445 EEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQA  478 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445566666666666666666666666555553

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=96.97  E-value=0.24  Score=52.30  Aligned_cols=103  Identities=18%  Similarity=0.335  Sum_probs=64.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHH
Q 023459           30 NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELK  109 (282)
Q Consensus        30 ~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lk  109 (282)
                      +.+.+|+.++..|.+++...+.-=.++...|..+......+.          .++..++.+       .+.+...+..|.
T Consensus       418 ~a~~rLE~dvkkLraeLq~~Rq~E~ELRsqis~l~~~Er~lk----------~eL~qlr~e-------ne~Lq~Kl~~L~  480 (697)
T PF09726_consen  418 DAISRLEADVKKLRAELQSSRQSEQELRSQISSLTNNERSLK----------SELSQLRQE-------NEQLQNKLQNLV  480 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhccccchHHH----------HHHHHHHHH-------HHHHHHHHHHHH
Confidence            356778888888888888777777777777766665443333          444444442       223344455566


Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      .....++..+..+|+.+.........+|+++.++...-..
T Consensus       481 ~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~  520 (697)
T PF09726_consen  481 QARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKE  520 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            6666666666666666666666666666666666544333

; GO: 0016021 integral to membrane

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

Probab=96.94  E-value=0.18  Score=51.74  Aligned_cols=36  Identities=17%  Similarity=0.159  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      +.++..|.+++....++++.|+++=-.|..|...|.
T Consensus        41 K~El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr   76 (546)
T KOG0977|consen   41 KKELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLR   76 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455666666666666666666665544444443333

>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []

Probab=96.90  E-value=0.27  Score=52.59  Aligned_cols=58  Identities=19%  Similarity=0.297  Sum_probs=28.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHH-HHHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRIL-ESVAARAEELEIEVSRLQ   88 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~l-e~i~~r~~~L~ee~~~~q   88 (282)
                      .+..+..+.+.+..++..+.+.++..+.+|..+......| +.+..++..|.....++.
T Consensus       365 ~~~~~qeE~~~~~~Ei~~l~d~~d~~e~ki~~Lq~kie~Lee~l~ekd~ql~~~k~Rl~  423 (775)
T PF10174_consen  365 QIEKLQEEKSRLQGEIEDLRDMLDKKERKINVLQKKIENLEEQLREKDRQLDEEKERLS  423 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445555555555555555555555555555444333333 234455555554444444

Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=96.89  E-value=0.33  Score=51.03  Aligned_cols=108  Identities=9%  Similarity=0.168  Sum_probs=58.1

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVD  187 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e  187 (282)
                      ++..+..+...+.++...-..-...+..++.++.++++.+...    .      .+.-..+..+..........|+.++.
T Consensus       293 L~~~l~~l~~~~~~l~~~y~~~hP~v~~l~~qi~~l~~~i~~e----~------~~~~~~~~~~~~~a~~~~~~L~~~l~  362 (754)
T TIGR01005       293 LRERQAELRATIADLSTTMLANHPRVVAAKSSLADLDAQIRSE----L------QKITKSLLMQADAAQARESQLVSDVN  362 (754)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHHHH----H------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333445566666666666665544    2      22333344444554555555555556


Q ss_pred             hHHHhhccchhhh---hhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          188 DLESELGNCKSEK---NSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       188 ~L~~~l~~~k~e~---~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      .++..+..+-...   ..+++++...+.....+..++.++.
T Consensus       363 ~~~~~~~~~~~~~~e~~~L~Re~~~~~~~Y~~ll~r~~e~~  403 (754)
T TIGR01005       363 QLKAASAQAGEQQVDLDALQRDAAAKRQLYESYLTNYRQAA  403 (754)
T ss_pred             HHHHHHHhCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555443333   6777777777777777777777664

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>TIGR03017 EpsF chain length determinant protein EpsF

Probab=96.85  E-value=0.4  Score=46.89  Aligned_cols=111  Identities=8%  Similarity=0.159  Sum_probs=57.3

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      +..++..+...+..+.++......-...+..++.++..++..+...    +      .+....+.............|..
T Consensus       256 i~~l~~~l~~le~~l~~l~~~y~~~hP~v~~l~~~i~~l~~~l~~e----~------~~~~~~~~~~~~~~~~~~~~l~~  325 (444)
T TIGR03017       256 IQNLKTDIARAESKLAELSQRLGPNHPQYKRAQAEINSLKSQLNAE----I------KKVTSSVGTNSRILKQREAELRE  325 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHH----H------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555554444445556666666666666666544    2      22222233333334444444555


Q ss_pred             hHHhHHHhhccchhhh---hhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          185 KVDDLESELGNCKSEK---NSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       185 ~~e~L~~~l~~~k~e~---~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      .++.++..+..+....   ..+++++...+.....+..+..++.
T Consensus       326 ~l~~~~~~~~~l~~~~~~~~~L~r~~~~~~~~y~~ll~r~~e~~  369 (444)
T TIGR03017       326 ALENQKAKVLELNRQRDEMSVLQRDVENAQRAYDAAMQRYTQTR  369 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555544444433332   5566666666666666666666654

Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=96.82  E-value=0.2  Score=42.96  Aligned_cols=53  Identities=32%  Similarity=0.414  Sum_probs=31.0

Q ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459          100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus       100 e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ..+.++..++..++.....+..+..++..|..++..+.+.+.....++.+|+.
T Consensus        49 n~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~  101 (140)
T PF10473_consen   49 NSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELES  101 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444555566666666666666666666666666666666666666666643

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

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

Probab=96.82  E-value=0.43  Score=44.57  Aligned_cols=43  Identities=23%  Similarity=0.313  Sum_probs=18.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh
Q 023459           71 ESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        71 e~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      ..+..-.+.|.-++..+..++.+....++........+...+.
T Consensus        64 d~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~  106 (312)
T PF00038_consen   64 DDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELE  106 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3344444445555555544444433333333333333333333

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

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=96.82  E-value=0.49  Score=51.18  Aligned_cols=200  Identities=22%  Similarity=0.317  Sum_probs=124.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      .+..|..++..|..++++=+.++..++.--..++.-...=-+|-..-++|..++.+..+..-+....-+....+|+.+-.
T Consensus       232 QvrdLtEkLetlR~kR~EDk~Kl~ElekmkiqleqlqEfkSkim~qqa~Lqrel~raR~e~keaqe~ke~~k~emad~ad  311 (1243)
T KOG0971|consen  232 QVRDLTEKLETLRLKRAEDKAKLKELEKMKIQLEQLQEFKSKIMEQQADLQRELKRARKEAKEAQEAKERYKEEMADTAD  311 (1243)
T ss_pred             HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35566666677776777667777666665444443333334577778888899988888888887788888889999988


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchH-HHHHHhHHHHHHHHHHHHHhHHhH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVE-EEMREKLDEKDREISGFKKKVDDL  189 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~k-eelrekl~eke~ei~~Lk~~~e~L  189 (282)
                      -|+...=.-+=.+...+.|..+...+..++.+|+..+.-|.. ||+++   ||+- -.---+..+++..+..|+..+=.|
T Consensus       312 ~iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKa-Emeek---G~~~~~~ss~qfkqlEqqN~rLKdalVrL  387 (1243)
T KOG0971|consen  312 AIEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKA-EMEEK---GSDGQAASSYQFKQLEQQNARLKDALVRL  387 (1243)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhc---CCCCcccchHHHHHHHHHHHHHHHHHHHH
Confidence            888877777777777888888888888888888887776622 34333   5543 222223444444444444333333


Q ss_pred             HH--------------hhccchhh-------hhhhHHHHHHHHHHHHHHHHHHHHH---HHHHhhhhcc
Q 023459          190 ES--------------ELGNCKSE-------KNSAEKTVKEMDERILLWQKEIEEA---EKVIAGLKDK  234 (282)
Q Consensus       190 ~~--------------~l~~~k~e-------~~~~e~~~~~~e~~I~~l~~e~~e~---~~~~~~~~~~  234 (282)
                      ++              ++..++++       +..+.+++..+++.|.+|+.+++-.   +-|+--|-++
T Consensus       388 RDlsA~ek~d~qK~~kelE~k~sE~~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAlGAE~MV~qLtdk  456 (1243)
T KOG0971|consen  388 RDLSASEKQDHQKLQKELEKKNSELEELRRQKERLSRELDQAESTIADLKEQVDAALGAEEMVEQLTDK  456 (1243)
T ss_pred             HhcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHhh
Confidence            22              22222222       2444566777777777777776642   4455444443

>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues

Probab=96.79  E-value=0.12  Score=49.58  Aligned_cols=143  Identities=20%  Similarity=0.300  Sum_probs=90.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      .+..|.+++-.|+.++..++.+...+..+...+.                 +.-..+   +.+.+....+++..|..|..
T Consensus       161 ~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~E-----------------ekEqqL---v~dcv~QL~~An~qia~Lse  220 (306)
T PF04849_consen  161 QLEALQEKLKSLEEENEQLRSEASQLKTETDTYE-----------------EKEQQL---VLDCVKQLSEANQQIASLSE  220 (306)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcc-----------------HHHHHH---HHHHHHHhhhcchhHHHHHH
Confidence            5788999999999999999999999998888777                 333333   34445555667777777777


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      ++.....+......+|..|-..+..+       +.++..+           +-..++|...+..       .+.....|.
T Consensus       221 ELa~k~Ee~~rQQEEIt~Llsqivdl-------Q~r~k~~-----------~~EnEeL~q~L~~-------ske~Q~~L~  275 (306)
T PF04849_consen  221 ELARKTEENRRQQEEITSLLSQIVDL-------QQRCKQL-----------AAENEELQQHLQA-------SKESQRQLQ  275 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHH-----------hhhHHHHHHHHHH-------HHHHHHHHH
Confidence            77777777666666666665555544       4444444           1122333333333       455555566


Q ss_pred             HhhccchhhhhhhHHHHHHHHHHHHHHH
Q 023459          191 SELGNCKSEKNSAEKTVKEMDERILLWQ  218 (282)
Q Consensus       191 ~~l~~~k~e~~~~e~~~~~~e~~I~~l~  218 (282)
                      .++.++++...++-.-..+.+..++.++
T Consensus       276 aEL~elqdkY~E~~~mL~EaQEElk~lR  303 (306)
T PF04849_consen  276 AELQELQDKYAECMAMLHEAQEELKTLR  303 (306)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            6666666665444444455544444444

HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].

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

Probab=96.79  E-value=0.39  Score=53.48  Aligned_cols=182  Identities=19%  Similarity=0.291  Sum_probs=82.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      .|..++..++..+.........++..+..+...          -..+...+...+..+.........++.+...++..+.
T Consensus       604 ~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  673 (1201)
T PF12128_consen  604 ELRERLEQAEDQLQSAEERQEELEKQLKQINKK----------IEELKREITQAEQELKQAEQDLQRLKNEREQLKQEIE  673 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444444444444444333322          2223344444444444444444555555555555554


Q ss_pred             hh-hhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH-HHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHH
Q 023459          114 EK-GVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE-VREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLES  191 (282)
Q Consensus       114 e~-e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele-~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~  191 (282)
                      .. ......++..+..++..++.+...+..+...+...- ...++-+....-....+..+++.+..++...+.....-..
T Consensus       674 ~~~~~~~~~~~~~l~~l~~~l~~~~~e~~~~~~~~~~~~~e~~~e~~~~~~~~~~~~d~~i~~i~~~i~~~~~~~~~~~~  753 (1201)
T PF12128_consen  674 EAKEERKEQIEEQLNELEEELKQLKQELEELLEELKEQLKELRNELKAQWQELEAELDEQIEQIKQEIAAAKQEAKEQLK  753 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 333455666666666666666665555555443321 1112223333444455555555555555555444444333


Q ss_pred             hhccchhhh----hhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          192 ELGNCKSEK----NSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       192 ~l~~~k~e~----~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      .+..-.+.+    .-=...+..+...|..+..++..++
T Consensus       754 ~le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie  791 (1201)
T PF12128_consen  754 ELEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIE  791 (1201)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            333221111    0001344555555555555544443

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=96.76  E-value=0.6  Score=46.63  Aligned_cols=13  Identities=23%  Similarity=0.253  Sum_probs=6.7

Q ss_pred             hhhcccccccccc
Q 023459          230 GLKDKTLDGVNGT  242 (282)
Q Consensus       230 ~~~~~~~~~~~~~  242 (282)
                      .++-+..-||+|-
T Consensus       294 ~~~G~l~~PV~G~  306 (420)
T COG4942         294 ALRGQLAWPVTGR  306 (420)
T ss_pred             cccCCcCCCCCCc
Confidence            3444555566553

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=96.76  E-value=0.47  Score=48.76  Aligned_cols=143  Identities=17%  Similarity=0.302  Sum_probs=104.7

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHH----------HHHHHHHHHHHHH
Q 023459           75 ARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKK----------EKVESEKKVRELE  144 (282)
Q Consensus        75 ~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~----------e~~~~ek~i~~LE  144 (282)
                      ..-..+.+++..++..|..-+.+.+.+...+..+...+......-..+..+++.+..          ....+++++..++
T Consensus       278 ~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~  357 (560)
T PF06160_consen  278 EENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELE  357 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHH
Confidence            334444588888888888888888888888888888888888888888888876653          3455666666666


Q ss_pred             HHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHH
Q 023459          145 RNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEI  221 (282)
Q Consensus       145 ~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~  221 (282)
                      .....+..    .=+.....=-.+...+.+....+..+.+....+...+..+...+..+...+..++..|...+..+
T Consensus       358 ~~~~~~~~----~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR~l  430 (560)
T PF06160_consen  358 KRYEDLEE----RIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLREIKRRL  430 (560)
T ss_pred             HHHHHHHH----HHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666621    11222345567888888888889999999999988888887777777777777776666665553

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]

Probab=96.76  E-value=0.28  Score=53.26  Aligned_cols=28  Identities=25%  Similarity=0.317  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          206 TVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       206 ~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      +...++.+|..+..++.++.+....+++
T Consensus       869 el~~l~~~i~~~~a~~~~~~~~lE~~~~  896 (1200)
T KOG0964|consen  869 ELKTLQDSIDKKKAEIKEIKKELEKAKN  896 (1200)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444433

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.71  E-value=0.15  Score=47.94  Aligned_cols=153  Identities=20%  Similarity=0.265  Sum_probs=93.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhH-----------
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELG-----------  102 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~r-----------  102 (282)
                      .+..+|..|..++..+..++.+++.+|+.+..+.+.++   .-=..|++++..-+.-|-.|..+.+.-.           
T Consensus        49 ~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~---~eI~~~~~~I~~r~~~l~~raRAmq~nG~~t~Yidvil~  125 (265)
T COG3883          49 NIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQ---KEIAELKENIVERQELLKKRARAMQVNGTATSYIDVILN  125 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHHHHHc
Confidence            34455555555555555555566666666665555555   3333444444444444444443322110           


Q ss_pred             -HHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHH
Q 023459          103 -AEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISG  181 (282)
Q Consensus       103 -eEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~  181 (282)
                       .....|-+++..+...+.--.+-|+..+.+...++.+-..++.++..+           ..+..++..++..++.+..+
T Consensus       126 SkSfsD~IsRvtAi~~iv~aDk~ile~qk~dk~~Le~kq~~l~~~~e~l-----------~al~~e~e~~~~~L~~qk~e  194 (265)
T COG3883         126 SKSFSDLISRVTAISVIVDADKKILEQQKEDKKSLEEKQAALEDKLETL-----------VALQNELETQLNSLNSQKAE  194 (265)
T ss_pred             cCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHH
Confidence             123455666777777777777778888888888888888888888888           33666777777776666666


Q ss_pred             HHHhHHhHHHhhccchhhh
Q 023459          182 FKKKVDDLESELGNCKSEK  200 (282)
Q Consensus       182 Lk~~~e~L~~~l~~~k~e~  200 (282)
                      ++.-+-.+.........+.
T Consensus       195 ~~~l~~~~aa~~a~~~~e~  213 (265)
T COG3883         195 KNALIAALAAKEASALGEK  213 (265)
T ss_pred             HHHHHHHHHHHHHHhHHHH
Confidence            6666666666666555553

>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules

Probab=96.69  E-value=0.47  Score=43.17  Aligned_cols=194  Identities=21%  Similarity=0.254  Sum_probs=101.6

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHH
Q 023459           29 NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE-SVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAE  107 (282)
Q Consensus        29 ~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le-~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~  107 (282)
                      |.-+..+..++...+.++..+..++..+.........=...++ .|+..-++.+.........+..-..+.+.+.+.+..
T Consensus         8 d~~~~~~~~e~~~~E~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e~~~~~~~~~~~i~~~~~erdq~~~dL~s   87 (207)
T PF05010_consen    8 DAAIKKVQEEVAEKEEEEQELKKKYEELHKENQEMRKIMEEYEKTIAQMIEEKQKQKELSEAEIQKLLKERDQAYADLNS   87 (207)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHhhHHHHHHHHHH
Confidence            4445555555444444444444444444443322221111111 122222222222222223344444445555555666


Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVD  187 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e  187 (282)
                      +..-+..+=..-+....-|.++......+.+.+.+...++...+.+=       .-+|.-..+++..-..+|..++....
T Consensus        88 ~E~sfsdl~~ryek~K~vi~~~k~NEE~Lkk~~~ey~~~l~~~eqry-------~aLK~hAeekL~~ANeei~~v~~~~~  160 (207)
T PF05010_consen   88 LEKSFSDLHKRYEKQKEVIEGYKKNEETLKKCIEEYEERLKKEEQRY-------QALKAHAEEKLEKANEEIAQVRSKHQ  160 (207)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            66655555555555555555555555555555555555555443210       12456666777777777777776554


Q ss_pred             hHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          188 DLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       188 ~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      .=..-+   +..-+..+-++.+++.+|.++.++..++-++..-|=
T Consensus       161 ~e~~aL---qa~lkk~e~~~~SLe~~LeQK~kEn~ELtkICDeLI  202 (207)
T PF05010_consen  161 AELLAL---QASLKKEEMKVQSLEESLEQKTKENEELTKICDELI  202 (207)
T ss_pred             HHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            432222   222244567788999999999999999988776553

The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=96.68  E-value=0.39  Score=50.14  Aligned_cols=108  Identities=24%  Similarity=0.337  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh--------hcccc-hhHHH
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTS--------MSEGD-ELGAE  104 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~--------~s~~~-e~reE  104 (282)
                      .|..+.+.+..++..+..++..+..+.+....          |-..|+..+..+...+...        .++.+ .+.++
T Consensus        19 ~lk~e~a~~qqr~~qmseev~~L~eEk~~~~~----------~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E   88 (617)
T PF15070_consen   19 QLKEESAQWQQRMQQMSEEVRTLKEEKEHDIS----------RVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAE   88 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHH
Confidence            34455555555555555555555555544443          3334446666666533321        22222 35566


Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      +..|..+++.+...+...-.+-..|..-....+.+|.+|+..+..+.
T Consensus        89 ~~~L~kElE~L~~qlqaqv~~ne~Ls~L~~EqEerL~ELE~~le~~~  135 (617)
T PF15070_consen   89 AEHLRKELESLEEQLQAQVENNEQLSRLNQEQEERLAELEEELERLQ  135 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67777777777777766666666676666677777777777777663

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=96.66  E-value=0.46  Score=48.18  Aligned_cols=181  Identities=16%  Similarity=0.202  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhh
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKG  116 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e  116 (282)
                      .....+..++..++...+.+...|.+++       .|..--..|++.-+.++.|.+--.+....++..+.+--..++.+.
T Consensus       264 ~~~~~i~~~i~~lk~~n~~l~e~i~ea~-------k~s~~i~~l~ek~r~l~~D~nk~~~~~~~mk~K~~~~~g~l~kl~  336 (622)
T COG5185         264 KFVHIINTDIANLKTQNDNLYEKIQEAM-------KISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLEKLK  336 (622)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcchHHHHHH
Confidence            3334444455555555555555444433       455566677788899998877766665555555555555566666


Q ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccc
Q 023459          117 VKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNC  196 (282)
Q Consensus       117 ~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~  196 (282)
                      .+|+..+.+|..|.+.+..+..+++.  +.|.-.+.             +.|..+..++.+++..++-+.+.|.+.+.+-
T Consensus       337 ~eie~kEeei~~L~~~~d~L~~q~~k--q~Is~e~f-------------e~mn~Ere~L~reL~~i~~~~~~L~k~V~~~  401 (622)
T COG5185         337 SEIELKEEEIKALQSNIDELHKQLRK--QGISTEQF-------------ELMNQEREKLTRELDKINIQSDKLTKSVKSR  401 (622)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHh--cCCCHHHH-------------HHHHHHHHHHHHHHHHhcchHHHHHHHHHhH
Confidence            66666555555555555555555442  23333322             5667777778888888888877777766532


Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccccc
Q 023459          197 KSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDV  246 (282)
Q Consensus       197 k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~~~~  246 (282)
                      +   .+.+.-+++++.-+.++.--..++..+-    -...-.+||..+..
T Consensus       402 ~---leaq~~~~slek~~~~~~sl~~~i~~~~----~~i~~~~nd~~l~i  444 (622)
T COG5185         402 K---LEAQGIFKSLEKTLRQYDSLIQNITRSR----SQIGHNVNDSSLKI  444 (622)
T ss_pred             H---HHHHHHHHHHHHHHHHHHHHHHHhcccH----HHHhhcCCCCceee
Confidence            2   2233444444444444333333332220    01234456665555

>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function

Probab=96.66  E-value=0.64  Score=47.42  Aligned_cols=32  Identities=19%  Similarity=0.182  Sum_probs=16.2

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      ..+...+......|.....++.-..+.+...+
T Consensus       396 ~~~k~E~e~~ka~i~t~E~rL~aa~ke~eaaK  427 (522)
T PF05701_consen  396 EKAKEEAEQTKAAIKTAEERLEAALKEAEAAK  427 (522)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444455555555555555555555555444

Several sequences in this family are described as being myosin heavy chain-like.

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=96.59  E-value=1.3  Score=50.26  Aligned_cols=78  Identities=14%  Similarity=0.214  Sum_probs=38.4

Q ss_pred             hhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          115 KGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       115 ~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      ....++.++.++...+.+....+.++..+..++..++.  .     -+..-+++..++.+....+..+...+..+...+.
T Consensus       880 a~~~le~ae~~l~~~~~e~~~~~~e~~~a~~~l~~l~e--~-----l~~~~eel~a~L~e~r~rL~~l~~el~~~~~~~~  952 (1353)
T TIGR02680       880 QRARAARAESDAREAAEDAAEARAEAEEASLRLRTLEE--S-----VGAMVDEIRARLAETRAALASGGRELPRLAEALA  952 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--H-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444555555555555555555555555554422  1     0112345555555555555555555555555555


Q ss_pred             cchhh
Q 023459          195 NCKSE  199 (282)
Q Consensus       195 ~~k~e  199 (282)
                      .....
T Consensus       953 ~a~~~  957 (1353)
T TIGR02680       953 TAEEA  957 (1353)
T ss_pred             HHHHH
Confidence            44444

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>PRK04863 mukB cell division protein MukB; Provisional

Probab=96.58  E-value=0.4  Score=54.66  Aligned_cols=22  Identities=9%  Similarity=0.223  Sum_probs=8.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 023459          205 KTVKEMDERILLWQKEIEEAEK  226 (282)
Q Consensus       205 ~~~~~~e~~I~~l~~e~~e~~~  226 (282)
                      ..+..++..+..+...+....+
T Consensus       456 ~qL~elE~kL~~lea~leql~~  477 (1486)
T PRK04863        456 EELLSLEQKLSVAQAAHSQFEQ  477 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333

>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]

Probab=96.57  E-value=0.6  Score=50.95  Aligned_cols=61  Identities=25%  Similarity=0.280  Sum_probs=37.4

Q ss_pred             HHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           90 DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        90 dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...++.+...++..++...+..+++-..+.+..+.+...|.-+...+++.+...++.+..+
T Consensus       781 ~~~~re~rlkdl~keik~~k~~~e~~~~~~ek~~~e~e~l~lE~e~l~~e~~~~k~~l~~~  841 (1174)
T KOG0933|consen  781 AKANRERRLKDLEKEIKTAKQRAEESSKELEKRENEYERLQLEHEELEKEISSLKQQLEQL  841 (1174)
T ss_pred             hhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455555556666666666666666666666666666666666666666666665555555

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=96.56  E-value=0.4  Score=41.10  Aligned_cols=105  Identities=23%  Similarity=0.271  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhh
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEK  115 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~  115 (282)
                      ..+.-..+.+-..++..|..++.+++.....+..+.          .++...+..+.+-....+.+..++..|..++..+
T Consensus         9 ~~kLK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~----------~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l   78 (140)
T PF10473_consen    9 EEKLKESESEKDSLEDHVESLERELEMSQENKECLI----------LDAENSKAEIETLEEELEELTSELNQLELELDTL   78 (140)
T ss_pred             HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444555555555554444433333          3333333333333333334444444455555555


Q ss_pred             hhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          116 GVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       116 e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..+...+.+.......++..++....++...|...
T Consensus        79 ~sEk~~L~k~lq~~q~kv~eLE~~~~~~~~~l~~~  113 (140)
T PF10473_consen   79 RSEKENLDKELQKKQEKVSELESLNSSLENLLQEK  113 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            55555555555555555555555555555555554

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

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

Probab=96.55  E-value=0.64  Score=44.47  Aligned_cols=16  Identities=13%  Similarity=0.254  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHHHHHHH
Q 023459          211 DERILLWQKEIEEAEK  226 (282)
Q Consensus       211 e~~I~~l~~e~~e~~~  226 (282)
                      ...|..++.+++-+++
T Consensus       275 ~~Ev~~Lk~~~~~Le~  290 (325)
T PF08317_consen  275 RSEVKRLKAKVDALEK  290 (325)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3445555555555544

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

Probab=96.54  E-value=0.11  Score=49.59  Aligned_cols=15  Identities=40%  Similarity=0.565  Sum_probs=7.6

Q ss_pred             HHHHHHHHHHHHHHH
Q 023459           75 ARAEELEIEVSRLQH   89 (282)
Q Consensus        75 ~r~~~L~ee~~~~q~   89 (282)
                      .+.+.|..++..++.
T Consensus       184 ~~~~~L~~e~~~Lk~  198 (325)
T PF08317_consen  184 ERKAELEEELENLKQ  198 (325)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444455555554

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=96.54  E-value=0.14  Score=54.12  Aligned_cols=44  Identities=23%  Similarity=0.238  Sum_probs=17.9

Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELE  144 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE  144 (282)
                      ++.++..++.+.+.+...+..+......=+.-+..+|+++.++.
T Consensus       458 lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~  501 (697)
T PF09726_consen  458 LKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEER  501 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444443333333333333333333333

; GO: 0016021 integral to membrane

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=96.53  E-value=0.83  Score=45.40  Aligned_cols=42  Identities=7%  Similarity=0.163  Sum_probs=24.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccc
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTAR  244 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~~  244 (282)
                      .....++...+.++..++..+..+...+.-.  ...-|++|+=.
T Consensus       287 ~~~~~~l~~~~~~l~~~~~~l~~a~~~l~~~--~I~AP~dG~V~  328 (457)
T TIGR01000       287 AKVKQEITDLNQKLLELESKIKSLKEDSQKG--VIKAPEDGVLH  328 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--EEECCCCeEEE
Confidence            3455566666666666666655555444322  34568888843

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.52  E-value=0.82  Score=52.74  Aligned_cols=194  Identities=23%  Similarity=0.287  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHH-------
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAE-------  104 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reE-------  104 (282)
                      +..+..++..++.+...+..+-..+..++..++.....+.          .+-..+.+++..-....+.++..       
T Consensus        54 ~~~~ekK~~~l~q~~~~~~~q~~~~~~e~s~l~~~L~~~~----------~~~~~l~~~~~~~~~~~~~l~~~~se~~~q  123 (1822)
T KOG4674|consen   54 LSELEKKILRLEQRLSDLSRQAKLLRNELSDLRNELEQLS----------SERSNLSWEIDALKLENSQLRRAKSELQEQ  123 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh----------hhHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence            5556666666666666666666666666666654444443          33333333332222222223333       


Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH----------HHhhhhhchHHHHHHhHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREM----------EEKSKRVRVEEEMREKLDE  174 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~----------~~~~~~gg~keelrekl~e  174 (282)
                      -+.+...++...++|+.+..++..|...++.+..++.+++.++.+.-....          -|++=--..-.-|..++..
T Consensus       124 kr~l~~~le~~~~ele~l~~~n~~l~~ql~ss~~~~~e~e~r~~e~~s~~vs~q~k~~rl~QEksll~s~~~wL~~eL~~  203 (1822)
T KOG4674|consen  124 KRQLMELLERQKAELEALESENKDLNDQLKSSTKTLSELEARLQETQSEDVSSQLKEERLEQEKSLLESENKWLSRELSK  203 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            333344445555566666666666666666666666666666655421111          0111111111122222333


Q ss_pred             HHHHHHHHHHh----HHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 023459          175 KDREISGFKKK----VDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKT  235 (282)
Q Consensus       175 ke~ei~~Lk~~----~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~  235 (282)
                      +......+..+    +..|...|.+++.....++..++.+...+.++...+..+..-+++|++.+
T Consensus       204 ~~ekll~~~re~s~~~~~L~~~L~~~~~~~~~~q~~~~~l~q~~~eLs~~ie~~~~~ls~~k~t~  268 (1822)
T KOG4674|consen  204 VNEKLLSLRREHSIEVEQLEEKLSDLKESLAELQEKNKSLKQQNEELSKKIESLNLELSKLKDTA  268 (1822)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            33333333333    44444555555554466666666666666666666666666777777643

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=96.51  E-value=0.63  Score=50.77  Aligned_cols=49  Identities=16%  Similarity=0.170  Sum_probs=22.2

Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      .++..+.+-+-.++...+..++...|..|.+.+..-...+..|...+.+
T Consensus       465 e~e~~~q~ls~~~Q~~~et~el~~~iknlnk~L~~r~~elsrl~a~~~e  513 (1195)
T KOG4643|consen  465 ENEELDQLLSLQDQLEAETEELLNQIKNLNKSLNNRDLELSRLHALKNE  513 (1195)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444333333

>PRK09039 hypothetical protein; Validated

Probab=96.49  E-value=0.17  Score=48.99  Aligned_cols=72  Identities=22%  Similarity=0.263  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           79 ELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        79 ~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++.++..+...+......+.+..-.+..|...|+.++..+..++..|..++...+..+.+|..|..+|...
T Consensus       113 ~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a  184 (343)
T PRK09039        113 AAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVA  184 (343)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555566666666666666666667777777777777777777677666666666666666666666665

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=96.41  E-value=0.41  Score=52.37  Aligned_cols=34  Identities=18%  Similarity=0.214  Sum_probs=19.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      .+.++..+++.+.+++..+...+...+.+|...+
T Consensus       228 ~i~k~~~els~~~~ei~~~~~~~d~~e~ei~~~k  261 (1141)
T KOG0018|consen  228 CIEKANDELSRLNAEIPKLKERMDKKEREIRVRK  261 (1141)
T ss_pred             hHhhhhHHHHHHhhhhHHHHhhhhHHHHHHHHHH
Confidence            4555555666666655555555555555555444

>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]

Probab=96.38  E-value=0.34  Score=49.85  Aligned_cols=91  Identities=23%  Similarity=0.329  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           35 LTKKVESLELENKEMKGTIKKLTI---EIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~---eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      +..+|+.|+.....+.+.|.+++.   .++.++          .+.+-|...+...+.-+..-.+.-+.+...|..++++
T Consensus       233 i~~~ie~l~~~n~~l~e~i~e~ek~~~~~eslr----------e~~~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~E  302 (581)
T KOG0995|consen  233 IANEIEDLKKTNRELEEMINEREKDPGKEESLR----------EKKARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSE  302 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHH----------HHHHHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            455666666666666655553332   333333          2333333666666655555555555566666666666


Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVE  135 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~  135 (282)
                      +...+.+++.+..+..+|+..+..
T Consensus       303 ie~kEeE~e~lq~~~d~Lk~~Ie~  326 (581)
T KOG0995|consen  303 IEEKEEEIEKLQKENDELKKQIEL  326 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHh
Confidence            666666666666666666665543

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=96.37  E-value=0.62  Score=43.01  Aligned_cols=54  Identities=26%  Similarity=0.329  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH   89 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~   89 (282)
                      ..+...+..|..++..+..+....-.....+.   ..++++-.|+..|...+..+..
T Consensus        48 ~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~---~~t~~t~~~a~~L~~~i~~l~~  101 (264)
T PF06008_consen   48 DPLEKELESLEQDVENLQEKATKVSRKAQQLN---NNTERTLQRAQDLEQFIQNLQD  101 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444444444444444443333333333   1223333444444444444443

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]

Probab=96.16  E-value=1.8  Score=50.01  Aligned_cols=195  Identities=22%  Similarity=0.325  Sum_probs=106.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH-------
Q 023459           31 KVTELTKKVESLELENKEMKGTIKK--------------LTIEIEGSEEDKRILESVAARAEELEIEVSRLQH-------   89 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~--------------le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~-------   89 (282)
                      .+..+...+..|..++..++..+..              +...|+.++.....|+   +|.-.|..-+.....       
T Consensus       655 ~~~~l~e~~~~l~~ev~~ir~~l~k~~~~~~fA~ekle~L~~~ie~~K~e~~tL~---er~~~l~~~i~~~~q~~~~~s~  731 (1822)
T KOG4674|consen  655 NLKKLQEDFDSLQKEVTAIRSQLEKLKNELNLAKEKLENLEKNLELTKEEVETLE---ERNKNLQSTISKQEQTVHTLSQ  731 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555444444              3444555555554444   333333332222221       


Q ss_pred             HHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHH
Q 023459           90 DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMR  169 (282)
Q Consensus        90 dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelr  169 (282)
                      +|....+-+..+..++..|+.+-.-....-..+..+...|..+...+.-.+.+++.-...++.-+++       .+..+.
T Consensus       732 eL~~a~~k~~~le~ev~~LKqE~~ll~~t~~rL~~e~~~l~~e~~~L~~~l~~lQt~~~~~e~s~~~-------~k~~~e  804 (1822)
T KOG4674|consen  732 ELLSANEKLEKLEAELSNLKQEKLLLKETEERLSQELEKLSAEQESLQLLLDNLQTQKNELEESEMA-------TKDKCE  804 (1822)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
Confidence            4444444444455555555555555555566667777778888888888888888877777553331       234444


Q ss_pred             HhHHHHHHHHHHHHHhHHhHHHhhccchhhh------------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459          170 EKLDEKDREISGFKKKVDDLESELGNCKSEK------------------NSAEKTVKEMDERILLWQKEIEEAEKVIAGL  231 (282)
Q Consensus       170 ekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~------------------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~  231 (282)
                      .++.++...+..|+.+......++-++....                  ...-..+......|..|..++.++++.|...
T Consensus       805 ~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~le~k~~eL~k~l~~~  884 (1822)
T KOG4674|consen  805 SRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIAKLEIKLSELEKRLKSA  884 (1822)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5566666665555544444333333332221                  3444566666666666677777777766666


Q ss_pred             hccc
Q 023459          232 KDKT  235 (282)
Q Consensus       232 ~~~~  235 (282)
                      ..++
T Consensus       885 ~~~~  888 (1822)
T KOG4674|consen  885 KTQL  888 (1822)
T ss_pred             HHHH
Confidence            5544

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=96.12  E-value=2.2  Score=47.61  Aligned_cols=124  Identities=15%  Similarity=0.169  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      |..|..+|.+.-+.+..+..=|.+....|.+...=+.-+.+-.+++..++..+..++.-|.....++..+..-|....+.
T Consensus      1513 i~~L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~ 1592 (1758)
T KOG0994|consen 1513 IQQLTGEIQERVASLPNVDAILSRTKGDIARAENLQSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRD 1592 (1758)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            44444444444444444443333333344333322222333345566777777777778888888888899999999999


Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREM  155 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~  155 (282)
                      +....+.+.++..+....|........++.+|+.++.+|..+-+
T Consensus      1593 ~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~ 1636 (1758)
T KOG0994|consen 1593 IRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELKHKAA 1636 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999965443

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

Probab=96.12  E-value=1.6  Score=44.96  Aligned_cols=120  Identities=21%  Similarity=0.310  Sum_probs=79.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------------------hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEI-------------------EGSEEDKRILESVAARAEELEIEVSRLQHDL   91 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eI-------------------e~lr~~~~~le~i~~r~~~L~ee~~~~q~dl   91 (282)
                      .|..|+.+++.|-.++.-++.+=..|+..|                   ..+..-.+.++.+++..+.|+.++..+.+++
T Consensus        43 El~~LNDRLA~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl~~e~  122 (546)
T KOG0977|consen   43 ELQELNDRLAVYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIEITKLREEL  122 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            455566666555555555555444444444                   2233344666778888888888888888888


Q ss_pred             hhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           92 VTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        92 ~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+-..-+.+.-.........+......+..++.++.-+...++.++..+..|.....-|
T Consensus       123 ~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl  181 (546)
T KOG0977|consen  123 KELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRL  181 (546)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            88777777776677777777777777777777777777777777776666666555444

>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site

Probab=96.09  E-value=2.1  Score=44.10  Aligned_cols=194  Identities=19%  Similarity=0.286  Sum_probs=118.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      +..+...+..+......+..++..+...-.=-..+......+..+=..|......+...+.+....|..+.+.+..+...
T Consensus       308 ~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~~~~~~~~i~~~~~~yS~i~~~l~~~~~~  387 (560)
T PF06160_consen  308 LKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKRYEDLEERIEEQQVPYSEIQEELEEIEEQ  387 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHH
Confidence            33444455555555555555555554422111122333333445555566666667777888888888888899999999


Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLES  191 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~  191 (282)
                      +.........+...+.+|........+++..+...+.....  .=+++.=-|+=+....-+......|..+....+....
T Consensus       388 l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR--~lek~nLPGlp~~y~~~~~~~~~~i~~l~~~L~~~pi  465 (560)
T PF06160_consen  388 LEEIEEEQEEINESLQSLRKDEKEAREKLQKLKQKLREIKR--RLEKSNLPGLPEDYLDYFFDVSDEIEELSDELNQVPI  465 (560)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence            99999999999999999999988888888888888888743  2233333455566666666666666666655555444


Q ss_pred             hhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          192 ELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       192 ~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                      .+..+...-..+...+..+.....++-....=.+.+
T Consensus       466 nm~~v~~~l~~a~~~v~~L~~~t~~li~~A~L~E~~  501 (560)
T PF06160_consen  466 NMDEVNKQLEEAEDDVETLEEKTEELIDNATLAEQL  501 (560)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444333332444444555544444444444434443

EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=96.01  E-value=0.33  Score=51.49  Aligned_cols=145  Identities=23%  Similarity=0.268  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459           70 LESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus        70 le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      -..|..|...|+........++.......+.+++....|..++++..+..+.+.+.++.+-.......-.+..-|++...
T Consensus       560 r~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~  639 (717)
T PF10168_consen  560 REEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKK  639 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            35566777777766666555555554444444444444444444444444444444333333222222222222222222


Q ss_pred             HHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh-----------hhhHHHHHHHHHHHHHHH
Q 023459          150 LEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK-----------NSAEKTVKEMDERILLWQ  218 (282)
Q Consensus       150 le~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~-----------~~~e~~~~~~e~~I~~l~  218 (282)
                      .    +          +.|..++..+...|++++.+.+....++..-++..           .....-+.+.-..|.++-
T Consensus       640 E----L----------~~~~~~l~~l~~si~~lk~k~~~Q~~~i~~~~~~~~~s~~L~~~Q~~~I~~iL~~~~~~I~~~v  705 (717)
T PF10168_consen  640 E----L----------ERMKDQLQDLKASIEQLKKKLDYQQRQIESQKSPKKKSIVLSESQKRTIKEILKQQGEEIDELV  705 (717)
T ss_pred             H----H----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccCCCccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2    1          34444555555555556655555555444222221           233344555555566666


Q ss_pred             HHHHHHHHHH
Q 023459          219 KEIEEAEKVI  228 (282)
Q Consensus       219 ~e~~e~~~~~  228 (282)
                      +++..+.+.+
T Consensus       706 ~~ik~i~~~~  715 (717)
T PF10168_consen  706 KQIKNIKKIV  715 (717)
T ss_pred             HHHHHHHHhh
Confidence            6555555543

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=95.97  E-value=2.6  Score=44.72  Aligned_cols=89  Identities=15%  Similarity=0.225  Sum_probs=43.2

Q ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHH
Q 023459           97 EGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKD  176 (282)
Q Consensus        97 ~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke  176 (282)
                      .|..++.++..+...+..+......+...|..|+.....+......+...+..+.+           ..+..+.+..+..
T Consensus       497 ~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~~~l~~el~~~~~-----------~le~~kk~~~e~~  565 (698)
T KOG0978|consen  497 KHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNESKLIKELTTLTQ-----------SLEMLKKKAQEAK  565 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhhhHHHHHHHHH-----------HHHHHHHHHHHHH
Confidence            34444445555555555555555555555555555555555555444444444432           3444444455555


Q ss_pred             HHHHHHHHhHHhHHHhhccc
Q 023459          177 REISGFKKKVDDLESELGNC  196 (282)
Q Consensus       177 ~ei~~Lk~~~e~L~~~l~~~  196 (282)
                      +....|+.+.+..+..+-++
T Consensus       566 ~~~~~Lq~~~ek~~~~le~i  585 (698)
T KOG0978|consen  566 QSLEDLQIELEKSEAKLEQI  585 (698)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            55555554444444444433

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=95.89  E-value=0.95  Score=43.30  Aligned_cols=33  Identities=18%  Similarity=0.296  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDK   67 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~   67 (282)
                      +..+...+.+++..+..++..+..++..++.+.
T Consensus       135 ~~~~~~~~~~~~~~l~~~i~~~~~~i~~~~~~l  167 (423)
T TIGR01843       135 FESRKSTLRAQLELILAQIKQLEAELAGLQAQL  167 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555555555555444333

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

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

Probab=95.86  E-value=0.81  Score=51.06  Aligned_cols=31  Identities=6%  Similarity=0.283  Sum_probs=16.2

Q ss_pred             ccccccccCCCchhhHHHHHHHHHHHHHHHHHH
Q 023459           17 TEDFFDPDQDGSNNKVTELTKKVESLELENKEM   49 (282)
Q Consensus        17 ~~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~el   49 (282)
                      ++.||.=...-.  .+..++.++..+......+
T Consensus       228 i~~W~~~~~~~~--~~~~~r~~~~~l~~~~~~l  258 (1201)
T PF12128_consen  228 IDDWLRDIRASQ--GFEKVRPEFDKLQQQYRQL  258 (1201)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Confidence            778887222222  4455566665555544433

>KOG0018 consensus Structural maintenance of chromosome protein 1 (sister chromatid cohesion complex Cohesin, subunit SMC1) [Cell cycle control, cell division, chromosome partitioning]

Probab=95.86  E-value=0.91  Score=49.83  Aligned_cols=37  Identities=11%  Similarity=0.125  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDK   67 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~   67 (282)
                      .|.+++..|..+...++....+|.....+.-.+..+.
T Consensus       235 els~~~~ei~~~~~~~d~~e~ei~~~k~e~~ki~re~  271 (1141)
T KOG0018|consen  235 ELSRLNAEIPKLKERMDKKEREIRVRKKERGKIRREL  271 (1141)
T ss_pred             HHHHHhhhhHHHHhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444443333333

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=95.78  E-value=0.31  Score=48.88  Aligned_cols=126  Identities=17%  Similarity=0.190  Sum_probs=78.2

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhh
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKR  161 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~  161 (282)
                      .++.+-...+.+.++++..  +++...+..+.....+..++..+...+++.++.++.++..+..++.......+      
T Consensus       328 sqleSqr~y~e~~~~e~~q--sqlen~k~~~e~~~~e~~~l~~~~~~~e~~kk~~e~k~~q~q~k~~k~~kel~------  399 (493)
T KOG0804|consen  328 SQLESQRKYYEQIMSEYEQ--SQLENQKQYYELLITEADSLKQESSDLEAEKKIVERKLQQLQTKLKKCQKELK------  399 (493)
T ss_pred             hhhhHHHHHHHHHHHHHHH--HHHHhHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH------
Confidence            4444555555666666555  66777777777777788888888888888888888888888888877722111      


Q ss_pred             hchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459          162 VRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAG  230 (282)
Q Consensus       162 gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~  230 (282)
                                  ....+...|.+...-....+.++   +....+.+.+++.+|.+|+.+++++.-.+.+
T Consensus       400 ------------~~~E~n~~l~knq~vw~~kl~~~---~e~~~~~~~s~d~~I~dLqEQlrDlmf~le~  453 (493)
T KOG0804|consen  400 ------------EEREENKKLIKNQDVWRGKLKEL---EEREKEALGSKDEKITDLQEQLRDLMFFLEA  453 (493)
T ss_pred             ------------HHHHHHHHHHhhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhHheehhh
Confidence                        11122222222222222222111   1334566788899999999999998766554

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=95.73  E-value=1.5  Score=43.56  Aligned_cols=117  Identities=11%  Similarity=0.176  Sum_probs=80.6

Q ss_pred             HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHH
Q 023459           59 EIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEK  138 (282)
Q Consensus        59 eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek  138 (282)
                      ++++++++..++.          +++...+.......++.+.++.|+.....+-............+......+...+.+
T Consensus        75 qlddi~~qlr~~r----------tel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n~~kAqQ~lar~t~  144 (499)
T COG4372          75 QLDDIRPQLRALR----------TELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQNLAKAQQELARLTK  144 (499)
T ss_pred             hHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555          777777777777777777788888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccc
Q 023459          139 KVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNC  196 (282)
Q Consensus       139 ~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~  196 (282)
                      +-.+|..+++.+    .       .-..++..++..+-.+-+.|..-...|+++..++
T Consensus       145 Q~q~lqtrl~~l----~-------~qr~ql~aq~qsl~a~~k~LQ~s~~Qlk~~~~~L  191 (499)
T COG4372         145 QAQDLQTRLKTL----A-------EQRRQLEAQAQSLQASQKQLQASATQLKSQVLDL  191 (499)
T ss_pred             HHHHHHHHHHHH----H-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888    2       2334455555555555555554455555544444

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=95.60  E-value=2.3  Score=40.73  Aligned_cols=43  Identities=14%  Similarity=0.230  Sum_probs=23.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccccc
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARD  245 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~~~  245 (282)
                      .+....+...+..+..++.++..+..-+.  +-+..-|++|+=..
T Consensus       242 ~~~~~~l~~~~~~l~~~~~~l~~~~~~l~--~~~i~AP~dG~V~~  284 (423)
T TIGR01843       242 EEVLEELTEAQARLAELRERLNKARDRLQ--RLIIRSPVDGTVQS  284 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hcEEECCCCcEEEE
Confidence            33444555556666666655555443222  22456789997543

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=95.51  E-value=3.2  Score=43.23  Aligned_cols=38  Identities=13%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKR   68 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~   68 (282)
                      ++..|..++..+..+...+..++..++.+++.+.....
T Consensus       210 ~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~  247 (650)
T TIGR03185       210 EIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLE  247 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555666666666555555555555555555554443

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

>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=95.49  E-value=1.4  Score=47.17  Aligned_cols=127  Identities=18%  Similarity=0.242  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459           73 VAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus        73 i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      .-++..-|..++..|...+..-....+.++-.+...+..|+.....++-...+|..|...+++++.++-.|-.....|.-
T Consensus       435 ~nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l~~Ekq~l~~  514 (1118)
T KOG1029|consen  435 LNAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKLAPEKQELNH  514 (1118)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence            44555555577777776666666666666666777777777777777776777777777777777766666555555421


Q ss_pred             --HHHHHhhhhh-chHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhh
Q 023459          153 --REMEEKSKRV-RVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSE  199 (282)
Q Consensus       153 --~~~~~~~~~g-g~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e  199 (282)
                        |-+.-.++-- +-+.+|......++.-+..++.+.+.|..+.....++
T Consensus       515 qlkq~q~a~~~~~~~~s~L~aa~~~ke~irq~ikdqldelskE~esk~~e  564 (1118)
T KOG1029|consen  515 QLKQKQSAHKETTQRKSELEAARRKKELIRQAIKDQLDELSKETESKLNE  564 (1118)
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence              1111111111 1145666677777777777888877777766655444

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=95.43  E-value=1.9  Score=38.87  Aligned_cols=130  Identities=16%  Similarity=0.216  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhh
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKR  161 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~  161 (282)
                      ..+.++|+-+.    .+..+.+++..++.-...++..-..+-+.-..++++...+...|..|+..-+.+           
T Consensus        50 ~q~~s~Qqal~----~aK~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl-----------  114 (193)
T PF14662_consen   50 KQLKSLQQALQ----KAKALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKL-----------  114 (193)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH-----------
Confidence            66666664333    334455666666666666666666666666666666666666666666655555           


Q ss_pred             hchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHH-------HHHHHHHHHHHHHHH
Q 023459          162 VRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMD-------ERILLWQKEIEEAEK  226 (282)
Q Consensus       162 gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e-------~~I~~l~~e~~e~~~  226 (282)
                      -+-.+.+..+..++-.+...|+.++-..+.-+......-.+.++.+.++.       .-+.+++-++..++-
T Consensus       115 ~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~e~l~~~~da~l~e~t~~i~eL~~~ieEy~~~teeLR~e~s~LEe  186 (193)
T PF14662_consen  115 LAERDGLKKRSKELATEKATLQRQLCEFESLICQRDAILSERTQQIEELKKTIEEYRSITEELRLEKSRLEE  186 (193)
T ss_pred             HHhhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            23445555666666666666666665555444332222133333333333       334444445444443

>PF13514 AAA_27: AAA domain

Probab=95.38  E-value=5.7  Score=44.02  Aligned_cols=38  Identities=37%  Similarity=0.483  Sum_probs=22.7

Q ss_pred             hhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          113 GEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       113 ee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +.+...+..+..++..++.++..+...+..++..+..+
T Consensus       892 ~~l~~~l~~l~~~l~~l~~~~~~l~~~~~~~~~~l~~l  929 (1111)
T PF13514_consen  892 DELEAELEELEEELEELEEELEELQEERAELEQELEAL  929 (1111)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44555555566666666666666666666666666655

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=95.35  E-value=2  Score=38.62  Aligned_cols=117  Identities=18%  Similarity=0.192  Sum_probs=77.4

Q ss_pred             ccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 023459           19 DFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEG   98 (282)
Q Consensus        19 ~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~   98 (282)
                      |+-||.+++- .-|..|+.+|+.+..........+..+..+..++..-...+.          .++..++..+..    |
T Consensus        17 YYndIT~~NL-~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~----------~e~~eL~k~L~~----y   81 (201)
T PF13851_consen   17 YYNDITLNNL-ELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAE----------EEVEELRKQLKN----Y   81 (201)
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH----------HHHHHHHHHHHH----H
Confidence            4445555542 467777788887777777777777777777777776665555          555555555544    3


Q ss_pred             chhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           99 DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        99 ~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +.-+..+..+++.+......+..+.-+-+-|+.....++....+|..+....
T Consensus        82 ~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~  133 (201)
T PF13851_consen   82 EKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESA  133 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345556666777777777777777777777777777777777776666655

>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]

Probab=95.27  E-value=6  Score=43.61  Aligned_cols=115  Identities=22%  Similarity=0.235  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHH
Q 023459           35 LTKKVESLELENKEMKGTI-------KKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAE  107 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI-------~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~  107 (282)
                      |..++..|+.+++......       +.+..+.+.+.........-..|...+.+...++.++.......+.++...+..
T Consensus       413 Ls~k~e~Leeri~ql~qq~~eled~~K~L~~E~ekl~~e~~t~~~s~~rq~~e~e~~~q~ls~~~Q~~~et~el~~~ikn  492 (1195)
T KOG4643|consen  413 LSKKHEILEERINQLLQQLAELEDLEKKLQFELEKLLEETSTVTRSLSRQSLENEELDQLLSLQDQLEAETEELLNQIKN  492 (1195)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444443333       333344444444444455555666666666666665555554444444444444


Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      +...+..-..++.-+...+..++...+...-+...+-+++..
T Consensus       493 lnk~L~~r~~elsrl~a~~~elkeQ~kt~~~qye~~~~k~ee  534 (1195)
T KOG4643|consen  493 LNKSLNNRDLELSRLHALKNELKEQYKTCDIQYELLSNKLEE  534 (1195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444333333333333333333333333333333333333

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=95.20  E-value=2.2  Score=38.29  Aligned_cols=32  Identities=41%  Similarity=0.597  Sum_probs=17.9

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          119 LEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       119 IeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+++...+..++......+++|..|+.++.-.
T Consensus       120 ReeL~~kL~~~~~~l~~~~~ki~~Lek~leL~  151 (194)
T PF15619_consen  120 REELQRKLSQLEQKLQEKEKKIQELEKQLELE  151 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555555555555555555555555444

>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp

Probab=95.18  E-value=0.17  Score=47.92  Aligned_cols=91  Identities=19%  Similarity=0.247  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh-------hcccchhHHHHHHH
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTS-------MSEGDELGAEVAEL  108 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~-------~s~~~e~reEm~~L  108 (282)
                      +--|-.|.+++.+....+...+.+|+.|+                 .++.+|+.|||+-       .-+.-++|.|+.+|
T Consensus        67 EV~iRHLkakLkes~~~l~dRetEI~eLk-----------------sQL~RMrEDWIEEECHRVEAQLALKEARkEIkQL  129 (305)
T PF15290_consen   67 EVCIRHLKAKLKESENRLHDRETEIDELK-----------------SQLARMREDWIEEECHRVEAQLALKEARKEIKQL  129 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45577888899999999999999999888                 8999999999873       33445555556666


Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHH
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVREL  143 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~L  143 (282)
                      +..|+..++.+.+..+.|...=.+|.--++++..|
T Consensus       130 kQvieTmrssL~ekDkGiQKYFvDINiQN~KLEsL  164 (305)
T PF15290_consen  130 KQVIETMRSSLAEKDKGIQKYFVDINIQNKKLESL  164 (305)
T ss_pred             HHHHHHHHhhhchhhhhHHHHHhhhhhhHhHHHHH
Confidence            66655555555555555555555554444444333

>smart00787 Spc7 Spc7 kinetochore protein

Probab=95.16  E-value=1.1  Score=42.94  Aligned_cols=76  Identities=26%  Similarity=0.248  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhh----hcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           75 ARAEELEIEVSRLQHDLVTS----MSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        75 ~r~~~L~ee~~~~q~dl~~~----~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+-..|..++..++....+.    .++...+++++..+...+......+.+++.+...+...+.....++..+...|.++
T Consensus       179 ~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~a  258 (312)
T smart00787      179 DRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEA  258 (312)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444555555555421111    12233333444444444444444444444444444444444444444444444333

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

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=95.03  E-value=5.1  Score=44.86  Aligned_cols=36  Identities=22%  Similarity=0.255  Sum_probs=24.5

Q ss_pred             hHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhh
Q 023459          164 VEEEMREKLDEKDREISGFKKKVDDLESELGNCKSE  199 (282)
Q Consensus       164 ~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e  199 (282)
                      ......+-+.+++..|..|++..+.+...+...+..
T Consensus       617 ~~~~~~e~~~~l~~~i~sL~~~~~~~~~~l~k~~el  652 (1317)
T KOG0612|consen  617 QRTEISEIIAELKEEISSLEETLKAGKKELLKVEEL  652 (1317)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHhhhhHHHHHHHH
Confidence            444555666777777777777777777777666554

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

Probab=94.89  E-value=0.97  Score=37.78  Aligned_cols=84  Identities=26%  Similarity=0.275  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      |..+..++..+..++..+...-+.+..+|-.+......+.....+-..|+.++..+++-..+...-+.+-.++..+|+.+
T Consensus        25 lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~D  104 (120)
T PF12325_consen   25 LRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRAD  104 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            44444444444444444444444444555555544444444555555555555555554444433333333334444443


Q ss_pred             Hhhh
Q 023459          112 LGEK  115 (282)
Q Consensus       112 Iee~  115 (282)
                      +.++
T Consensus       105 v~Dl  108 (120)
T PF12325_consen  105 VQDL  108 (120)
T ss_pred             HHHH
Confidence            3333

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

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=94.88  E-value=6.2  Score=42.76  Aligned_cols=92  Identities=20%  Similarity=0.260  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHH----HHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKR----ILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAE  107 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~----~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~  107 (282)
                      +..++.+|..|+.....+..+...+..-|..+..|++    -|+....|...|++++....+++.....+...-..++..
T Consensus       101 lk~~~sQiriLQn~c~~lE~ekq~lQ~ti~~~q~d~ke~etelE~~~srlh~le~eLsAk~~eIf~~~~~L~nk~~~lt~  180 (1265)
T KOG0976|consen  101 LKHHESQIRILQNKCLRLEMEKQKLQDTIQGAQDDKKENEIEIENLNSRLHKLEDELSAKAHDIFMIGEDLHDKNEELNE  180 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHhH
Confidence            3344445555555544444444455555544444333    344455666677777777777666655555555555555


Q ss_pred             HHHHHhhhhhhHHHHH
Q 023459          108 LKRVLGEKGVKLEELE  123 (282)
Q Consensus       108 LkseIee~e~eIeelE  123 (282)
                      +.+.+..+-.++....
T Consensus       181 ~~~q~~tkl~e~~~en  196 (1265)
T KOG0976|consen  181 FNMEFQTKLAEANREK  196 (1265)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            6555555544444433

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.87  E-value=3.4  Score=44.47  Aligned_cols=65  Identities=28%  Similarity=0.407  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh
Q 023459           39 VESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        39 I~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      .+.+..-...++.-|.+++..|+.++.+.+.+.          -+...+...+.+..+.|..+....+-|+..+.
T Consensus       652 ~e~l~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~----------~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg  716 (970)
T KOG0946|consen  652 HEELDDIQQKYKGLIRELDYQIENLKQMEKELQ----------VENEELEEEVQDFISEHSQLKDQLDLLKNQLG  716 (970)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            344444444555555555555555554444444          44444444444444444445555555554444

>TIGR02680 conserved hypothetical protein TIGR02680

Probab=94.82  E-value=5.4  Score=45.36  Aligned_cols=90  Identities=22%  Similarity=0.233  Sum_probs=41.9

Q ss_pred             HHHHHHhhhhhhhHHHHHHHHHHHHHHHH-HHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHH
Q 023459           54 KKLTIEIEGSEEDKRILESVAARAEELEI-EVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKE  132 (282)
Q Consensus        54 ~~le~eIe~lr~~~~~le~i~~r~~~L~e-e~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e  132 (282)
                      +++...++.+.....+|..|...=..... .+...-..++.....++.       +...+......++....++..++..
T Consensus       233 ~~~~~~le~l~~~~~~l~~i~~~y~~y~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~  305 (1353)
T TIGR02680       233 DEYRDELERLEALERALRNFLQRYRRYARTMLRRRATRLRSAQTQYDQ-------LSRDLGRARDELETAREEERELDAR  305 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444433333222222 222333345554444444       4444444555555555555555555


Q ss_pred             HHHHHHHHHHHHHHhhHH
Q 023459          133 KVESEKKVRELERNVGLL  150 (282)
Q Consensus       133 ~~~~ek~i~~LE~kl~el  150 (282)
                      +..++..+..++.++..+
T Consensus       306 ~~~le~~~~~l~~~~~~l  323 (1353)
T TIGR02680       306 TEALEREADALRTRLEAL  323 (1353)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            555555555555555555

Members of this protein family belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria). Proteins in this family average over 1400 amino acids in length.

>smart00787 Spc7 Spc7 kinetochore protein

Probab=94.74  E-value=4.2  Score=39.10  Aligned_cols=27  Identities=30%  Similarity=0.420  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           45 ENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        45 Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      +..-+..=...+...++.++.|...|.
T Consensus       138 R~kllegLk~~L~~~~~~l~~D~~~L~  164 (312)
T smart00787      138 RMKLLEGLKEGLDENLEGLKEDYKLLM  164 (312)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444555556666665554444

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

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=94.67  E-value=6.3  Score=41.17  Aligned_cols=30  Identities=30%  Similarity=0.399  Sum_probs=15.1

Q ss_pred             HHHHhHHHHHHHHHHHHHhHHhHHHhhccc
Q 023459          167 EMREKLDEKDREISGFKKKVDDLESELGNC  196 (282)
Q Consensus       167 elrekl~eke~ei~~Lk~~~e~L~~~l~~~  196 (282)
                      .++.++.++..++..-.+.+..|..++..+
T Consensus       451 ~~r~~~k~~~~e~~~Kee~~~qL~~e~e~~  480 (594)
T PF05667_consen  451 ELREEIKEIEEEIRQKEELYKQLVKELEKL  480 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            444455555445444445555555555544

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=94.60  E-value=1.8  Score=37.74  Aligned_cols=33  Identities=24%  Similarity=0.439  Sum_probs=17.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +..+...+..+..++......+..+..++..++
T Consensus        83 ~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~  115 (191)
T PF04156_consen   83 LSELQQQLQQLQEELDQLQERIQELESELEKLK  115 (191)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555555555555444

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]

Probab=94.59  E-value=4.5  Score=41.27  Aligned_cols=34  Identities=21%  Similarity=0.307  Sum_probs=16.1

Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKV  134 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~  134 (282)
                      +-..|.++..+|+..+.+|..+...+.+|...+.
T Consensus       328 ~~g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~  361 (622)
T COG5185         328 WPGKLEKLKSEIELKEEEIKALQSNIDELHKQLR  361 (622)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            3334444444555555555555555444444443

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.55  E-value=0.91  Score=47.24  Aligned_cols=45  Identities=22%  Similarity=0.324  Sum_probs=20.8

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          106 AELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       106 ~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ......+...+..++.++.++..|+..+.+++..|..|+.++..+
T Consensus       418 ~~~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~  462 (652)
T COG2433         418 TVYEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERF  462 (652)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444443

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=94.53  E-value=3.5  Score=37.24  Aligned_cols=161  Identities=19%  Similarity=0.208  Sum_probs=74.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHH
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVL  112 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseI  112 (282)
                      .+|..+...|...+..+.+--..+..+|..++...+.+.-.-..+..|++++..+-...-+-...+..+-+.-..++.+.
T Consensus        18 ~~L~~en~kL~~~ve~~ee~na~L~~e~~~L~~q~~s~Qqal~~aK~l~eEledLk~~~~~lEE~~~~L~aq~rqlEkE~   97 (193)
T PF14662_consen   18 QKLADENAKLQRSVETAEEGNAQLAEEITDLRKQLKSLQQALQKAKALEEELEDLKTLAKSLEEENRSLLAQARQLEKEQ   97 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555666666666666666666666666666665555544445555555555555544444333333333344444444


Q ss_pred             hhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHH--HHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          113 GEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVRE--MEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       113 ee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~--~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      ..+...+..+..+-..+-.....+.++..+|-.+...|.++=  -      -.+--....-+.+....|.+|..-+..+.
T Consensus        98 q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql~~~------e~l~~~~da~l~e~t~~i~eL~~~ieEy~  171 (193)
T PF14662_consen   98 QSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQLCEF------ESLICQRDAILSERTQQIEELKKTIEEYR  171 (193)
T ss_pred             HHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHHHHH------HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            444444444433333333333333333333332222221100  0      01223333445555555555555555555


Q ss_pred             Hhhccchhh
Q 023459          191 SELGNCKSE  199 (282)
Q Consensus       191 ~~l~~~k~e  199 (282)
                      .-..+++.+
T Consensus       172 ~~teeLR~e  180 (193)
T PF14662_consen  172 SITEELRLE  180 (193)
T ss_pred             HHHHHHHHH
Confidence            444444444

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=94.52  E-value=2.9  Score=36.33  Aligned_cols=153  Identities=20%  Similarity=0.275  Sum_probs=73.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--------hhhhhhHHHH-HHHHHHHHHHHHHHHHHHHHHhhhhcccchh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEI--------EGSEEDKRIL-ESVAARAEELEIEVSRLQHDLVTSMSEGDEL  101 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eI--------e~lr~~~~~l-e~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~  101 (282)
                      .+.++.-....+...+..+...+...+.--        +.+..+...+ +.|..|..+|.    ++..-....+-...-+
T Consensus         7 ~i~~~Rl~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqLkien~~l~~kIeERn~eL~----~Lk~~~~~~v~~L~h~   82 (177)
T PF13870_consen    7 EISKLRLKNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQLKIENQQLNEKIEERNKELL----KLKKKIGKTVQILTHV   82 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence            566666666777777777777766666522        2222222222 34666666554    2222222222222334


Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH-------HHHHHHhhhhhchHHHHHHhHHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE-------VREMEEKSKRVRVEEEMREKLDE  174 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele-------~~~~~~~~~~gg~keelrekl~e  174 (282)
                      ++.+..+...+......+......+..+...+..+......+......+.       +-.+      -.+=+.....+.+
T Consensus        83 keKl~~~~~~~~~l~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~~~~~~~~~P~l------l~Dy~~~~~~~~~  156 (177)
T PF13870_consen   83 KEKLHFLSEELERLKQELKDREEELAKLREELYRVKKERDKLRKQNKKLRQQGGLLGVPAL------LRDYDKTKEEVEE  156 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHH------HHHHHHHHHHHHH
Confidence            44444444444444444444444444444444444444444444444441       1111      0122344555555


Q ss_pred             HHHHHHHHHHhHHhHHHhh
Q 023459          175 KDREISGFKKKVDDLESEL  193 (282)
Q Consensus       175 ke~ei~~Lk~~~e~L~~~l  193 (282)
                      +...|..++.+++.+...+
T Consensus       157 l~~~i~~l~rk~~~l~~~i  175 (177)
T PF13870_consen  157 LRKEIKELERKVEILEMRI  175 (177)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            6666666666666555443

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=94.49  E-value=2.5  Score=35.33  Aligned_cols=28  Identities=21%  Similarity=0.553  Sum_probs=14.4

Q ss_pred             HHHHHHhHHHHHHHHHHHHHhHHhHHHh
Q 023459          165 EEEMREKLDEKDREISGFKKKVDDLESE  192 (282)
Q Consensus       165 keelrekl~eke~ei~~Lk~~~e~L~~~  192 (282)
                      +.....+...++.++..++..++.|..+
T Consensus        93 e~sw~~qk~~le~e~~~~~~r~~dL~~Q  120 (132)
T PF07926_consen   93 EASWEEQKEQLEKELSELEQRIEDLNEQ  120 (132)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555555555555443

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=94.34  E-value=8.2  Score=40.73  Aligned_cols=39  Identities=8%  Similarity=0.120  Sum_probs=15.9

Q ss_pred             HHHhHHhHHHhhccchhhh---hhhHHHHHHHHHHHHHHHHH
Q 023459          182 FKKKVDDLESELGNCKSEK---NSAEKTVKEMDERILLWQKE  220 (282)
Q Consensus       182 Lk~~~e~L~~~l~~~k~e~---~~~e~~~~~~e~~I~~l~~e  220 (282)
                      .+.....|...+.+++..-   ...+.++..++++..-.++-
T Consensus       350 a~~~~~~L~~~l~~~~~~~~~~~~~~~e~~~L~Re~~~~~~~  391 (754)
T TIGR01005       350 AQARESQLVSDVNQLKAASAQAGEQQVDLDALQRDAAAKRQL  391 (754)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHHH
Confidence            3333444444444443332   23334444444444444443

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily

Probab=94.28  E-value=4.1  Score=40.62  Aligned_cols=30  Identities=20%  Similarity=0.300  Sum_probs=14.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEI   60 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eI   60 (282)
                      .+..+..++..++.++..+...+..+...+
T Consensus       205 ~l~~l~~~l~~~~~~l~~~~a~~~~l~~~l  234 (498)
T TIGR03007       205 EISEAQEELEAARLELNEAIAQRDALKRQL  234 (498)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            344444455555555555555555544443

Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=94.26  E-value=8.1  Score=40.38  Aligned_cols=29  Identities=24%  Similarity=0.371  Sum_probs=12.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      ..++.+|..+++.+...|..+..++..+.
T Consensus       327 ~~el~~l~~~l~~l~~~i~~~~~~~~~l~  355 (594)
T PF05667_consen  327 EQELEELQEQLDELESQIEELEAEIKMLK  355 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444444

>PF13166 AAA_13: AAA domain

Probab=94.24  E-value=8  Score=40.20  Aligned_cols=24  Identities=13%  Similarity=0.343  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          205 KTVKEMDERILLWQKEIEEAEKVI  228 (282)
Q Consensus       205 ~~~~~~e~~I~~l~~e~~e~~~~~  228 (282)
                      ..+..++..|.+++.++......+
T Consensus       438 ~~~~~~~~~i~~l~~~~~~~~~~~  461 (712)
T PF13166_consen  438 EEIKKIEKEIKELEAQLKNTEPAA  461 (712)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHH
Confidence            333444444444444444333333

>TIGR00634 recN DNA repair protein RecN

Probab=94.09  E-value=3.6  Score=42.11  Aligned_cols=82  Identities=21%  Similarity=0.284  Sum_probs=44.5

Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH---hHHh
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK---KVDD  188 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~---~~e~  188 (282)
                      +......++++-.++..+-..+.--...+..++.++..+    ..-+.|.|..-+++...+.++..++..+..   .++.
T Consensus       275 l~~~~~~l~d~~~~l~~~~~~l~~dp~~L~ele~RL~~l----~~LkrKyg~s~e~l~~~~~~l~~eL~~l~~~~~~le~  350 (563)
T TIGR00634       275 VGNALTEVEEATRELQNYLDELEFDPERLNEIEERLAQI----KRLKRKYGASVEEVLEYAEKIKEELDQLDDSDESLEA  350 (563)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH----HHHHHHhCCCHHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            333333344444444444444433345566677777766    334556677777777777777777776653   3444


Q ss_pred             HHHhhccch
Q 023459          189 LESELGNCK  197 (282)
Q Consensus       189 L~~~l~~~k  197 (282)
                      |..++..++
T Consensus       351 L~~el~~l~  359 (563)
T TIGR00634       351 LEEEVDKLE  359 (563)
T ss_pred             HHHHHHHHH
Confidence            444444333

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=94.07  E-value=8.9  Score=40.14  Aligned_cols=29  Identities=28%  Similarity=0.516  Sum_probs=12.9

Q ss_pred             HHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          166 EEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       166 eelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      +.....+..++.+|..|-..+..++..+.
T Consensus       281 ~~~~~~L~~kd~~i~~L~~di~~~~~S~~  309 (629)
T KOG0963|consen  281 DALGSVLNQKDSEIAQLSNDIERLEASLV  309 (629)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444443

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=94.04  E-value=0.015  Score=62.55  Aligned_cols=78  Identities=22%  Similarity=0.295  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459           75 ARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus        75 ~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      .....|+.++..++.++-+..+....+.+.+......+..+..++..-......++..+..++.+|++|..+|.++|.
T Consensus       658 ~~kr~le~~i~~l~~eleE~~~~~~~~~ek~kka~~~~~~l~~eL~~Eq~~~~~le~~k~~LE~q~keLq~rl~e~E~  735 (859)
T PF01576_consen  658 EEKRKLEAEIQQLEEELEEEQSEAEAAEEKAKKAQAQAAQLAEELRQEQDHNQHLEKEKKALERQVKELQARLEEAEQ  735 (859)
T ss_dssp             ------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344446688888888888888888888888888999999999999998999999999999999999999999999976

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>PF13166 AAA_13: AAA domain

Probab=93.85  E-value=9.4  Score=39.67  Aligned_cols=57  Identities=23%  Similarity=0.384  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459          174 EKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAG  230 (282)
Q Consensus       174 eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~  230 (282)
                      .....+..+...+..+...+..++......+.++..++.++..-..=+..+...+..
T Consensus       414 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~iN~~L~~  470 (712)
T PF13166_consen  414 EYQKEIKELEKEINSLEKKLKKAKEEIKKIEKEIKELEAQLKNTEPAADRINEELKR  470 (712)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            333444444444444444444444333445555566665554433334444443333

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=93.83  E-value=3  Score=36.26  Aligned_cols=28  Identities=14%  Similarity=0.294  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      .++..++..+..+..++..+...+..+.
T Consensus        81 ~e~~~~~~~l~~l~~el~~l~~~~~~~~  108 (191)
T PF04156_consen   81 GELSELQQQLQQLQEELDQLQERIQELE  108 (191)
T ss_pred             hhHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>KOG0976 consensus Rho/Rac1-interacting serine/threonine kinase Citron [Signal transduction mechanisms]

Probab=93.73  E-value=12  Score=40.59  Aligned_cols=100  Identities=18%  Similarity=0.159  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHH
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVL  112 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseI  112 (282)
                      ..|.+.+..++......+.+|.-+......+..++.+|.          .-+..+|.|+-+...+.++.+.++..+...+
T Consensus        88 riyRrdv~llEddlk~~~sQiriLQn~c~~lE~ekq~lQ----------~ti~~~q~d~ke~etelE~~~srlh~le~eL  157 (1265)
T KOG0976|consen   88 RIYRRDVNLLEDDLKHHESQIRILQNKCLRLEMEKQKLQ----------DTIQGAQDDKKENEIEIENLNSRLHKLEDEL  157 (1265)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            457888899999999999999999999999999998888          8888889999999999999999999999888


Q ss_pred             hhhhhhHHHHHHHHhhhHHHHHHHHHHHHH
Q 023459          113 GEKGVKLEELEREVDGLKKEKVESEKKVRE  142 (282)
Q Consensus       113 ee~e~eIeelEkeIe~LE~e~~~~ek~i~~  142 (282)
                      .....+|--+.+++.+--..+..++.+...
T Consensus       158 sAk~~eIf~~~~~L~nk~~~lt~~~~q~~t  187 (1265)
T KOG0976|consen  158 SAKAHDIFMIGEDLHDKNEELNEFNMEFQT  187 (1265)
T ss_pred             hhhhHHHHHHHHHHhhhhhHHhHHHHHHHH
Confidence            888888887777776666666655554433

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

Probab=93.68  E-value=12  Score=40.19  Aligned_cols=74  Identities=20%  Similarity=0.416  Sum_probs=47.7

Q ss_pred             HHHhHHHHHHHHH----------HHHHhHHhHHHhhccchhhh-hhhHHHHHHHHHHHHH----------HHHHHHHHHH
Q 023459          168 MREKLDEKDREIS----------GFKKKVDDLESELGNCKSEK-NSAEKTVKEMDERILL----------WQKEIEEAEK  226 (282)
Q Consensus       168 lrekl~eke~ei~----------~Lk~~~e~L~~~l~~~k~e~-~~~e~~~~~~e~~I~~----------l~~e~~e~~~  226 (282)
                      +..+++.++++|.          +|+++++.|+.++...-+-| ..+-.+|..++.+|++          |+....++.+
T Consensus       647 ~k~KIe~L~~eIkkkIe~av~ss~LK~k~E~Lk~Evaka~~~pd~~~k~kieal~~qik~~~~~a~~~~~lkek~e~l~~  726 (762)
T PLN03229        647 LQEKIESLNEEINKKIERVIRSSDLKSKIELLKLEVAKASKTPDVTEKEKIEALEQQIKQKIAEALNSSELKEKFEELEA  726 (762)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHHHHHHHhccHhHHHHHHHHHH
Confidence            3566666666665          68899999999987655555 4444667777666654          4555666666


Q ss_pred             HHhhhhcccccccccc
Q 023459          227 VIAGLKDKTLDGVNGT  242 (282)
Q Consensus       227 ~~~~~~~~~~~~~~~~  242 (282)
                      -|...-+.+. +.||-
T Consensus       727 e~~~~~~~~~-~~~g~  741 (762)
T PLN03229        727 ELAAARETAA-ESNGS  741 (762)
T ss_pred             HHHHhhcccc-cccCC
Confidence            6666555444 45543

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=93.46  E-value=9.3  Score=38.35  Aligned_cols=10  Identities=20%  Similarity=0.245  Sum_probs=5.4

Q ss_pred             ccccchhhHH
Q 023459          257 SRLNWQLPLA  266 (282)
Q Consensus       257 ~~~~~~~~~~  266 (282)
                      ..-++.|||-
T Consensus       295 ~~G~l~~PV~  304 (420)
T COG4942         295 LRGQLAWPVT  304 (420)
T ss_pred             ccCCcCCCCC
Confidence            3444567763

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=93.44  E-value=3.5  Score=33.44  Aligned_cols=98  Identities=27%  Similarity=0.237  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHH
Q 023459           47 KEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREV  126 (282)
Q Consensus        47 ~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeI  126 (282)
                      ..+...|.....++....      ..+..|...|...-..++.+++.......+-..........+............+|
T Consensus        10 ~~~~~~l~~kr~e~~~~~------~~~~~~e~~L~~~e~~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k~~ei   83 (126)
T PF13863_consen   10 FLVQLALDTKREEIERRE------EQLKQREEELEKKEQELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEKEAEI   83 (126)
T ss_pred             HHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444454444      45556666666666667776666655555556666666666666666666777777


Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          127 DGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       127 e~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..|...+..+...+..++..+...
T Consensus        84 ~~l~~~l~~l~~~~~k~e~~l~~~  107 (126)
T PF13863_consen   84 KKLKAELEELKSEISKLEEKLEEY  107 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777777777766666655

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=93.35  E-value=5.8  Score=35.67  Aligned_cols=92  Identities=23%  Similarity=0.340  Sum_probs=62.8

Q ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHH
Q 023459          100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREI  179 (282)
Q Consensus       100 e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei  179 (282)
                      .+++++..++......+..+.++..+...|..+.+..+..+..|...+..-+-      .| . .=..++..+...+.++
T Consensus        31 sLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~k------dK-~-~L~~~k~rl~~~ek~l  102 (201)
T PF13851_consen   31 SLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEK------DK-Q-SLQNLKARLKELEKEL  102 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH------HH-H-HHHHHHHHHHHHHHHH
Confidence            45667777777777777777777777777777777777777777777777632      11 0 2234566666777777


Q ss_pred             HHHHHhHHhHHHhhccchhh
Q 023459          180 SGFKKKVDDLESELGNCKSE  199 (282)
Q Consensus       180 ~~Lk~~~e~L~~~l~~~k~e  199 (282)
                      ..|+-+.+.|...+..+..+
T Consensus       103 ~~Lk~e~evL~qr~~kle~E  122 (201)
T PF13851_consen  103 KDLKWEHEVLEQRFEKLEQE  122 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            77777777777666666555

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=93.24  E-value=7  Score=37.87  Aligned_cols=80  Identities=20%  Similarity=0.293  Sum_probs=59.6

Q ss_pred             chHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh----------------------------hhhHHHHHHHHHHH
Q 023459          163 RVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK----------------------------NSAEKTVKEMDERI  214 (282)
Q Consensus       163 g~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~----------------------------~~~e~~~~~~e~~I  214 (282)
                      ..++.+..+++.....+.+|.-.+..+..+++++..+.                            ..+=-+...+...|
T Consensus       126 ~ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~~L~g~~~rivDIDaLi~ENRyL~erl  205 (319)
T PF09789_consen  126 HEREDLVEQLEKLREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNYILNGDENRIVDIDALIMENRYLKERL  205 (319)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcccHHHHHHHHHHHHHHH
Confidence            56777888888888888888887777777777766551                            11224667888999


Q ss_pred             HHHHHHHHHHHHHHhhhhccccc--cccccc
Q 023459          215 LLWQKEIEEAEKVIAGLKDKTLD--GVNGTA  243 (282)
Q Consensus       215 ~~l~~e~~e~~~~~~~~~~~~~~--~~~~~~  243 (282)
                      ..+++|..-+.-.|.-.+. +.+  ..+|+-
T Consensus       206 ~q~qeE~~l~k~~i~KYK~-~le~k~~~~~~  235 (319)
T PF09789_consen  206 KQLQEEKELLKQTINKYKS-ALERKRKKGII  235 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHHhhcccccc
Confidence            9999999999999988887 444  556653

>KOG0979 consensus Structural maintenance of chromosome protein SMC5/Spr18, SMC superfamily [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=93.16  E-value=16  Score=40.30  Aligned_cols=145  Identities=21%  Similarity=0.310  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-----HHhhhh------cccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHH
Q 023459           69 ILESVAARAEELEIEVSRLQH-----DLVTSM------SEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESE  137 (282)
Q Consensus        69 ~le~i~~r~~~L~ee~~~~q~-----dl~~~~------s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~e  137 (282)
                      +|.++.++-..|+..+.++..     +.++-+      -.|...+.++..++...+..+.++..+.+++..++..+.+++
T Consensus       203 ~l~~L~~~~~~l~kdVE~~rer~~~~~~Ie~l~~k~~~v~y~~~~~ey~~~k~~~~r~k~~~r~l~k~~~pi~~~~eeLe  282 (1072)
T KOG0979|consen  203 KLNRLEDEIDKLEKDVERVRERERKKSKIELLEKKKKWVEYKKHDREYNAYKQAKDRAKKELRKLEKEIKPIEDKKEELE  282 (1072)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchHhhhHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHH
Confidence            334444566666688887775     333333      356677888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHH
Q 023459          138 KKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLW  217 (282)
Q Consensus       138 k~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l  217 (282)
                      ..+.++..++...-. ++          .+-..++-++-..+......+..+...+-.+++....+++.+......|.++
T Consensus       283 ~~~~et~~~~s~~~~-~~----------~e~~~k~~~~~ek~~~~~~~v~~~~~~le~lk~~~~~rq~~i~~~~k~i~~~  351 (1072)
T KOG0979|consen  283 SEKKETRSKISQKQR-EL----------NEALAKVQEKFEKLKEIEDEVEEKKNKLESLKKAAEKRQKRIEKAKKMILDA  351 (1072)
T ss_pred             hHHHhHHHHHHHHHH-HH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888777621 11          1111222222222222233333333333333333355666677777777777


Q ss_pred             HHHHHHH
Q 023459          218 QKEIEEA  224 (282)
Q Consensus       218 ~~e~~e~  224 (282)
                      +.++...
T Consensus       352 q~el~~~  358 (1072)
T KOG0979|consen  352 QAELQET  358 (1072)
T ss_pred             Hhhhhhc
Confidence            7765543

>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]

Probab=93.16  E-value=14  Score=39.43  Aligned_cols=135  Identities=16%  Similarity=0.189  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHh
Q 023459           79 ELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEK  158 (282)
Q Consensus        79 ~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~  158 (282)
                      ...+++..+...+-.+...+=.+-.+.......+..+......++..|..+......+...|..|+.++.-+-.-.    
T Consensus       465 d~Qeqn~kL~~el~ekdd~nfklm~e~~~~~q~~k~L~~ek~~l~~~i~~l~~~~~~~~~~i~~leeq~~~lt~~~----  540 (698)
T KOG0978|consen  465 DMQEQNQKLLQELREKDDKNFKLMSERIKANQKHKLLREEKSKLEEQILTLKASVDKLELKIGKLEEQERGLTSNE----  540 (698)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhh----
Confidence            3445555555555555555555555566666666677777777777777777777777777777777777762200    


Q ss_pred             hhhhchHHHH---HHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHH
Q 023459          159 SKRVRVEEEM---REKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKE  220 (282)
Q Consensus       159 ~~~gg~keel---rekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e  220 (282)
                         +++..++   ...+....+.+.++....+.|...+........+.+..+..+..+|..+...
T Consensus       541 ---~~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k  602 (698)
T KOG0978|consen  541 ---SKLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFK  602 (698)
T ss_pred             ---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               1222221   2233334444444444444444444433333344444444444444444443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.16  E-value=0.6  Score=41.39  Aligned_cols=69  Identities=28%  Similarity=0.381  Sum_probs=17.7

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..+..++.++.+.-..-.+....+..+...+..+...+......|..|+..+..++.++.+++..+.+.
T Consensus        74 ~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek  142 (194)
T PF08614_consen   74 QKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEK  142 (194)
T ss_dssp             ----------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444444444444444445666666666666666666666666666666666666555555

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=93.15  E-value=3.7  Score=40.81  Aligned_cols=98  Identities=18%  Similarity=0.286  Sum_probs=61.5

Q ss_pred             hHHHHHHHHhhhHHHHHHHHHHHH-HHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccc
Q 023459          118 KLEELEREVDGLKKEKVESEKKVR-ELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNC  196 (282)
Q Consensus       118 eIeelEkeIe~LE~e~~~~ek~i~-~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~  196 (282)
                      ++.++......|+..+..+...+. ++.--...|    .|||.+--++++++.+-++=-..+|..|+.....++..++  
T Consensus       220 el~eik~~~~~L~~~~e~Lk~~~~~e~~~~~~~L----qEEr~R~erLEeqlNd~~elHq~Ei~~LKqeLa~~EEK~~--  293 (395)
T PF10267_consen  220 ELREIKESQSRLEESIEKLKEQYQREYQFILEAL----QEERYRYERLEEQLNDLTELHQNEIYNLKQELASMEEKMA--  293 (395)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH--
Confidence            333333344444444444443222 333334444    5677777788888888887777788888777777766655  


Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          197 KSEKNSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       197 k~e~~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                          =++..+.+.+...|...++++..|+
T Consensus       294 ----Yqs~eRaRdi~E~~Es~qtRisklE  318 (395)
T PF10267_consen  294 ----YQSYERARDIWEVMESCQTRISKLE  318 (395)
T ss_pred             ----HHHHHHHhHHHHHHHHHHHHHHHHH
Confidence                4456677777777777888877777

Its function is unknown.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=93.15  E-value=2.4  Score=40.68  Aligned_cols=26  Identities=4%  Similarity=0.082  Sum_probs=17.4

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEK  226 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~  226 (282)
                      .+...+..++...+.-..+++..+.+
T Consensus       109 ~~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen  109 IEFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34445566777777777777777766

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PRK10869 recombination and repair protein; Provisional

Probab=93.00  E-value=8.8  Score=39.51  Aligned_cols=59  Identities=14%  Similarity=0.191  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHH---HhHHhHHHhhccchhh
Q 023459          137 EKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFK---KKVDDLESELGNCKSE  199 (282)
Q Consensus       137 ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk---~~~e~L~~~l~~~k~e  199 (282)
                      ...+..++.++..+    ..=+.|=|..=+++-.-.+++..++..|.   .....|..++..+.++
T Consensus       295 p~~l~~ie~Rl~~l----~~L~rKyg~~~~~~~~~~~~l~~eL~~L~~~e~~l~~Le~e~~~l~~~  356 (553)
T PRK10869        295 PNRLAELEQRLSKQ----ISLARKHHVSPEELPQHHQQLLEEQQQLDDQEDDLETLALAVEKHHQQ  356 (553)
T ss_pred             HHHHHHHHHHHHHH----HHHHHHhCCCHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHH
Confidence            34556666666666    22345556666666666666666665554   3344444444444443

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=92.97  E-value=3.7  Score=33.79  Aligned_cols=47  Identities=21%  Similarity=0.343  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459           40 ESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH   89 (282)
Q Consensus        40 ~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~   89 (282)
                      +.|++...++...+..++..|+.++....-|  |+.|+ .|+..+..++.
T Consensus         5 ~~l~as~~el~n~La~Le~slE~~K~S~~eL--~kqkd-~L~~~l~~L~~   51 (107)
T PF09304_consen    5 EALEASQNELQNRLASLERSLEDEKTSQGEL--AKQKD-QLRNALQSLQA   51 (107)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHHHHHH--HHHHH-HHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHhhHHHH--HHhHH-HHHHHHHHHHH
Confidence            4455555556666666666666555444333  22222 24455555544

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=92.97  E-value=5.7  Score=34.50  Aligned_cols=110  Identities=21%  Similarity=0.269  Sum_probs=62.6

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhH-------HHHHHHHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKL-------DEKDREIS  180 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl-------~eke~ei~  180 (282)
                      ++-+.......|++=..++..|.......=..+.+...++..+..           .-..++.++       ..++.++.
T Consensus        47 Lkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~~-----------~~~~l~~~l~~~~~~~~~~r~~l~  115 (177)
T PF13870_consen   47 LKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLSE-----------ELERLKQELKDREEELAKLREELY  115 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555556666666666677777777777777777777777776621           122233333       33333333


Q ss_pred             HHHHhHHhHHHhhccchhh------h------hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          181 GFKKKVDDLESELGNCKSE------K------NSAEKTVKEMDERILLWQKEIEEAEKVI  228 (282)
Q Consensus       181 ~Lk~~~e~L~~~l~~~k~e------~------~~~e~~~~~~e~~I~~l~~e~~e~~~~~  228 (282)
                      .++..+..+......++..      |      ..+...+..+..+|..|+..+..+..-|
T Consensus       116 ~~k~~r~k~~~~~~~l~~~~~~~~~P~ll~Dy~~~~~~~~~l~~~i~~l~rk~~~l~~~i  175 (177)
T PF13870_consen  116 RVKKERDKLRKQNKKLRQQGGLLGVPALLRDYDKTKEEVEELRKEIKELERKVEILEMRI  175 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            4444444444444444333      2      4455666777777777777776665543

>PRK09343 prefoldin subunit beta; Provisional

Probab=92.96  E-value=3  Score=34.54  Aligned_cols=41  Identities=24%  Similarity=0.298  Sum_probs=30.9

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..+..++..++.++.+|..|++....+++++.+++..|..+
T Consensus        71 e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~l  111 (121)
T PRK09343         71 KVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEM  111 (121)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555666666788888888888888888888888887

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=92.87  E-value=20  Score=40.62  Aligned_cols=122  Identities=24%  Similarity=0.351  Sum_probs=63.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHh-hhhcccchhHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLV-TSMSEGDELGAEVAELK  109 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~-~~~s~~~e~reEm~~Lk  109 (282)
                      +|...+.+..+|+.++..+..+|..+...+..+......+.....+.-.|.+++..+...+- --...-.......+.+.
T Consensus       231 ki~~~ke~v~e~e~e~~~~~~~i~ei~~~~~el~k~~~~~~~l~~e~~~l~~~~~~l~~~i~~~~~~t~~~l~~~~~n~~  310 (1294)
T KOG0962|consen  231 KIEKSKEEVSELENELGPIEAKIEEIEKSLKELEKLLKQVKLLDSEHKNLKKQISRLREKILKIFDGTDEELGELLSNFE  310 (1294)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHhHH
Confidence            55566666666666666666666666666666665554444444555555555555444221 00111122333344444


Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ..+...+......+.++..++.....+......+...++.+..
T Consensus       311 ~~~~~~~~~~~~~e~~~~~l~~e~~~l~~~k~~~~~~~~~lq~  353 (1294)
T KOG0962|consen  311 ERLEEMGEKLRELEREISDLNEERSSLIQLKTELDLEQSELQA  353 (1294)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555555555555555555555533

>PF14992 TMCO5: TMCO5 family

Probab=92.83  E-value=3.7  Score=39.06  Aligned_cols=124  Identities=25%  Similarity=0.324  Sum_probs=66.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      +..+|-.....+-..|++....|.++..+|....       .++.|..++.                            .
T Consensus        12 d~Q~ldE~Nq~lL~ki~~~E~~iq~Le~Eit~~~-------~~~~~~e~e~----------------------------~   56 (280)
T PF14992_consen   12 DEQRLDEANQSLLQKIQEKEGAIQSLEREITKMD-------HIADRSEEED----------------------------I   56 (280)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------cccCchhHHh----------------------------h
Confidence            5566666666666666666666666666655443       3444433332                            2


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      .+......+.+++-+.+.|+.+-+.+-+.|.+|.+++.+.+.+ .      +-.+..+...+...+..+..+......++
T Consensus        57 ~~~~~e~~l~~le~e~~~LE~~ne~l~~~~~elq~k~~e~~~~-~------~~e~~~~~~~lq~sk~~lqql~~~~~~qE  129 (280)
T PF14992_consen   57 ISEERETDLQELELETAKLEKENEHLSKSVQELQRKQDEQETN-V------QCEDPQLSQSLQFSKNKLQQLLESCASQE  129 (280)
T ss_pred             hhhchHHHHHHHHhhhHHHhhhhHhhhhhhhhhhhhhccccCC-C------CCCccchhcccHHhhhhHHHHHHHHHHHH
Confidence            2233333455566667778877777878888888887776542 2      33334344444444444444444444444


Q ss_pred             Hhhccc
Q 023459          191 SELGNC  196 (282)
Q Consensus       191 ~~l~~~  196 (282)
                      .++..+
T Consensus       130 ~ei~kv  135 (280)
T PF14992_consen  130 KEIAKV  135 (280)
T ss_pred             HHHHHH
Confidence            333333

>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]

Probab=92.79  E-value=7.4  Score=35.37  Aligned_cols=121  Identities=12%  Similarity=0.180  Sum_probs=91.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHH----HHHHHHHHHHHHHHHHHHhhhhcccchhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESV----AARAEELEIEVSRLQHDLVTSMSEGDELGAEVA  106 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i----~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~  106 (282)
                      +|.-|..+....+.+...+..++...+..-+......++|+..    ..+-..++.++....|--.+.+..|+++--.+.
T Consensus        12 ri~~leeele~aqErl~~a~~KL~Eaeq~~dE~er~~Kv~enr~~kdEE~~e~~e~qLkEAk~iaE~adrK~eEVarkL~   91 (205)
T KOG1003|consen   12 RIQLLEEELDRAQERLATALQKLEEAEQAADESERGMKVIENRAQKLEEKMEAQEAQLKEAKHIAEKADRKYEEVARKLV   91 (205)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777888888888888888888887777666555555555543    345556778888888877778888888888888


Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      =+...++......+--+..+..|+.+...+...+..|...-..+.
T Consensus        92 iiE~dLE~~eeraE~~Es~~~eLeEe~~~~~~nlk~l~~~ee~~~  136 (205)
T KOG1003|consen   92 IIEGELERAEERAEAAESQSEELEEDLRILDSNLKSLSAKEEKLE  136 (205)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHh
Confidence            888888888888888888888888888888777777777766663

>PLN02939 transferase, transferring glycosyl groups

Probab=92.72  E-value=15  Score=40.51  Aligned_cols=158  Identities=26%  Similarity=0.324  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHHHHHHhhh-----------hcccchhHHHHHHHHHHHhhhhhh---HHHHHHHHhhhHHHHHHHHHHHH
Q 023459           76 RAEELEIEVSRLQHDLVTS-----------MSEGDELGAEVAELKRVLGEKGVK---LEELEREVDGLKKEKVESEKKVR  141 (282)
Q Consensus        76 r~~~L~ee~~~~q~dl~~~-----------~s~~~e~reEm~~LkseIee~e~e---IeelEkeIe~LE~e~~~~ek~i~  141 (282)
                      +.++|++++..+.+.+..+           ..+.+.++++-.-++..|..++..   +.++++.+-.|+++..-++..++
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  274 (977)
T PLN02939        195 HVEILEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEENMLLKDDIQFLKAELIEVAETEERVFKLEKERSLLDASLR  274 (977)
T ss_pred             cchhhHHHHHHHhhhhhccccccccccccHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            5567888888888766544           234455666666677777766654   45667778888999999999999


Q ss_pred             HHHHHhhHHHHHHHHHhhhhhchHHH-HHHhHHHHHHHH-----------------HHHHHhHHhHHHhhccchhhh---
Q 023459          142 ELERNVGLLEVREMEEKSKRVRVEEE-MREKLDEKDREI-----------------SGFKKKVDDLESELGNCKSEK---  200 (282)
Q Consensus       142 ~LE~kl~ele~~~~~~~~~~gg~kee-lrekl~eke~ei-----------------~~Lk~~~e~L~~~l~~~k~e~---  200 (282)
                      +||.++..-    .+--+|-+.++-+ +=++.+.++..+                 .+|..+++.|+..|.+..-.+   
T Consensus       275 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  350 (977)
T PLN02939        275 ELESKFIVA----QEDVSKLSPLQYDCWWEKVENLQDLLDRATNQVEKAALVLDQNQDLRDKVDKLEASLKEANVSKFSS  350 (977)
T ss_pred             HHHHHHHhh----hhhhhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhhHhhhhH
Confidence            999888665    2222232333322 233333333333                 345556666665555432221   


Q ss_pred             --------------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccc
Q 023459          201 --------------NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLD  237 (282)
Q Consensus       201 --------------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~  237 (282)
                                    ...+.-..++.+.|+--+..+.+..-.+..|++....
T Consensus       351 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  401 (977)
T PLN02939        351 YKVELLQQKLKLLEERLQASDHEIHSYIQLYQESIKEFQDTLSKLKEESKK  401 (977)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence                          1122233344455555566666666666667665544

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=92.68  E-value=16  Score=39.05  Aligned_cols=94  Identities=20%  Similarity=0.225  Sum_probs=50.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      +-..|..+|..|+.++..++..+....++.+++..-                        ..+-....+.+..+...++.
T Consensus        28 ~E~~~~~~i~~l~~elk~~~~~~~~~~~e~~rl~~~------------------------~~~~~~~~~~~e~~~~~lr~   83 (717)
T PF09730_consen   28 KEAYLQQRILELENELKQLRQELSNVQAENERLSQL------------------------NQELRKECEDLELERKRLRE   83 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------------HHHHHHHHHHHHHHHHHHHH
Confidence            344566666666666666666666665555555411                        11111122233334444555


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      +|.+.+..-.-+-.+...||.+-=.++++|..|.+---
T Consensus        84 e~ke~K~rE~rll~dyselEeENislQKqvs~Lk~sQv  121 (717)
T PF09730_consen   84 EIKEYKFREARLLQDYSELEEENISLQKQVSVLKQSQV  121 (717)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhHH
Confidence            55555555555666666677766677777766665443

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5

Probab=92.67  E-value=15  Score=38.60  Aligned_cols=77  Identities=25%  Similarity=0.312  Sum_probs=47.1

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKV  186 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~  186 (282)
                      .|+..+.++.+..-.+.++-..|......-++..+.|..+++.++.           .-..|++++..++.++..|..+.
T Consensus       164 eLK~QL~Elq~~Fv~ltne~~elt~~lq~Eq~~~keL~~kl~~l~~-----------~l~~~~e~le~K~qE~~~Lq~q~  232 (617)
T PF15070_consen  164 ELKEQLAELQDAFVKLTNENMELTSALQSEQHVKKELQKKLGELQE-----------KLHNLKEKLELKSQEAQSLQEQR  232 (617)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhHhhHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHhhhHHHHHHHHHH
Confidence            4455555555555555555555566666666666677777776632           33556677777777777777766


Q ss_pred             HhHHHhhc
Q 023459          187 DDLESELG  194 (282)
Q Consensus       187 e~L~~~l~  194 (282)
                      ..+...|+
T Consensus       233 dq~~~~Lq  240 (617)
T PF15070_consen  233 DQYLGHLQ  240 (617)
T ss_pred             HHHHHHHH
Confidence            66554444

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=92.67  E-value=18  Score=40.81  Aligned_cols=115  Identities=13%  Similarity=0.169  Sum_probs=69.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhh
Q 023459           38 KVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGV  117 (282)
Q Consensus        38 eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~  117 (282)
                      +|..|-.+|++.-..|..++.=|.+.+.|+.-++.+..++..-..++..++....+-+.+.+++..-.......|.....
T Consensus      1512 qi~~L~~~I~e~v~sL~nVd~IL~~T~~di~ra~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~ 1591 (1758)
T KOG0994|consen 1512 QIQQLTGEIQERVASLPNVDAILSRTKGDIARAENLQSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADR 1591 (1758)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            34445555555555555666666666666655554444444444444444444444444455555555666666666666


Q ss_pred             hHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459          118 KLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus       118 eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      .|.-....+..+..+-...+..+..--+++++|+.
T Consensus      1592 ~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~ 1626 (1758)
T KOG0994|consen 1592 DIRLAQQLLAKVQEETAAAEKLATSATQQLGELET 1626 (1758)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777777777777777777777753

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

Probab=92.59  E-value=4.5  Score=36.02  Aligned_cols=121  Identities=25%  Similarity=0.288  Sum_probs=76.0

Q ss_pred             ccccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459           17 TEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMS   96 (282)
Q Consensus        17 ~~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s   96 (282)
                      +=||.=   ...  ....+...+..|..++..++.++..++..|+.+...+..-+   .|...|. ++..+..       
T Consensus        54 n~YWsF---ps~--~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~---eR~~~l~-~l~~l~~-------  117 (188)
T PF03962_consen   54 NYYWSF---PSQ--AKQKRQNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESE---EREELLE-ELEELKK-------  117 (188)
T ss_pred             eEEEec---ChH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccH---HHHHHHH-HHHHHHH-------
Confidence            667733   222  45678888889999999999999999888887765543332   3333332 2222222       


Q ss_pred             ccchhHHHHHHHHHHHh----hhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHH
Q 023459           97 EGDELGAEVAELKRVLG----EKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMRE  170 (282)
Q Consensus        97 ~~~e~reEm~~LkseIe----e~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelre  170 (282)
                             +...|...+.    -.-..++.+..++..+..........|--|..-+...    .      |.+...++.
T Consensus       118 -------~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~anrwTDNI~~l~~~~~~k----~------~~~~~~i~k  178 (188)
T PF03962_consen  118 -------ELKELKKELEKYSENDPEKIEKLKEEIKIAKEAANRWTDNIFSLKSYLKKK----F------GMDEEDIRK  178 (188)
T ss_pred             -------HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHh----c------CCCHHHHHH
Confidence                   2222222222    2345677777777777778888888888877777765    4      667666663

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

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=92.57  E-value=1.3  Score=46.20  Aligned_cols=34  Identities=35%  Similarity=0.546  Sum_probs=22.3

Q ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          117 VKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       117 ~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++...+..|..|+.++.+-.+.+..|+++|..+
T Consensus       474 rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~l  507 (652)
T COG2433         474 REIRARDRRIERLEKELEEKKKRVEELERKLAEL  507 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455556666666666666677777777776666

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=92.54  E-value=8.8  Score=40.96  Aligned_cols=147  Identities=18%  Similarity=0.264  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDK----RILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~----~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      ++.++..|..+...--.++..+..++..++...    ..++.|.+|-+.|.+++..+...+....-.  -..+| .++..
T Consensus       563 i~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~--LS~AE-r~~~~  639 (717)
T PF10168_consen  563 IQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPV--LSEAE-REFKK  639 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC--CCHHH-HHHHH
Confidence            444444444444443334444444443333222    234567777777778888777655443211  11222 33444


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHh--hhhhchHHHHHHhHHHHHHHHHHHHHhHHh
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEK--SKRVRVEEEMREKLDEKDREISGFKKKVDD  188 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~--~~~gg~keelrekl~eke~ei~~Lk~~~e~  188 (282)
                      ++......+..+...|+.++.+....+.       ++.....  ...+  .--..-+..+++-+.+--.+|.++-++++.
T Consensus       640 EL~~~~~~l~~l~~si~~lk~k~~~Q~~-------~i~~~~~--~~~~s~~L~~~Q~~~I~~iL~~~~~~I~~~v~~ik~  710 (717)
T PF10168_consen  640 ELERMKDQLQDLKASIEQLKKKLDYQQR-------QIESQKS--PKKKSIVLSESQKRTIKEILKQQGEEIDELVKQIKN  710 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhcccc--ccCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444443333332       2221100  0000  000112345556666666666666666666


Q ss_pred             HHHhh
Q 023459          189 LESEL  193 (282)
Q Consensus       189 L~~~l  193 (282)
                      ++..+
T Consensus       711 i~~~~  715 (717)
T PF10168_consen  711 IKKIV  715 (717)
T ss_pred             HHHhh
Confidence            66544

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=92.49  E-value=3.5  Score=33.35  Aligned_cols=42  Identities=21%  Similarity=0.310  Sum_probs=28.4

Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...+..++..++.++..|..|++.+..+++++.+++..+..+
T Consensus        66 ~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~  107 (110)
T TIGR02338        66 EEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEA  107 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555666667777777777777777777777777665

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=92.48  E-value=2.2  Score=33.96  Aligned_cols=80  Identities=35%  Similarity=0.397  Sum_probs=55.9

Q ss_pred             HHHHHH--HHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhh---hHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 023459           71 ESVAAR--AEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGV---KLEELEREVDGLKKEKVESEKKVRELER  145 (282)
Q Consensus        71 e~i~~r--~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~---eIeelEkeIe~LE~e~~~~ek~i~~LE~  145 (282)
                      +.+..|  ...+=.++-.+...+.+.....+.++.+...+...|.....   ..+++..+...+...++.++.++..++.
T Consensus        16 ~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~   95 (108)
T PF02403_consen   16 ENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEE   95 (108)
T ss_dssp             HHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444  33444566666667777777777777778888877777665   5777777777777777777777777777


Q ss_pred             HhhHH
Q 023459          146 NVGLL  150 (282)
Q Consensus       146 kl~el  150 (282)
                      .+..+
T Consensus        96 ~l~~~  100 (108)
T PF02403_consen   96 ELNEL  100 (108)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77665

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]

Probab=92.47  E-value=16  Score=38.38  Aligned_cols=34  Identities=18%  Similarity=0.134  Sum_probs=18.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      ...+|..++..++.++...+.+-..+...+++++
T Consensus       122 e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~  155 (629)
T KOG0963|consen  122 ENEELKEELEEVNNELADLKTQQVTVRNLKERLR  155 (629)
T ss_pred             hHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHH
Confidence            4556666666666666655555444444444333

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=92.47  E-value=2.4  Score=40.63  Aligned_cols=48  Identities=31%  Similarity=0.455  Sum_probs=25.6

Q ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          103 AEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       103 eEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .....+..++..++.+...+.+++..|+.+...+...+..|+.....+
T Consensus        43 ~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l   90 (314)
T PF04111_consen   43 EDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEEL   90 (314)
T ss_dssp             H--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555555555555555555555555555555555555555555

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.37  E-value=11  Score=39.16  Aligned_cols=71  Identities=21%  Similarity=0.174  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           80 LEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        80 L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      |.+.+..+|.++.++++..-.+++.|..|.+-+......+..++=-++.-+.++...+.++..-......-
T Consensus       343 LkEkv~~lq~~l~eke~sl~dlkehassLas~glk~ds~Lk~leIalEqkkEec~kme~qLkkAh~~~dda  413 (654)
T KOG4809|consen  343 LKEKVNALQAELTEKESSLIDLKEHASSLASAGLKRDSKLKSLEIALEQKKEECSKMEAQLKKAHNIEDDA  413 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhHhh
Confidence            33788888888888888877888888888888877777777776666666666666666665554444433

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.30  E-value=16  Score=38.13  Aligned_cols=31  Identities=19%  Similarity=0.244  Sum_probs=21.1

Q ss_pred             HhHHHHHHHHHHHHHhHHhHHHhhccchhhh
Q 023459          170 EKLDEKDREISGFKKKVDDLESELGNCKSEK  200 (282)
Q Consensus       170 ekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~  200 (282)
                      ..-.+++.++-.|++.+..|+....+...-+
T Consensus       170 seYSELEEENIsLQKqVs~LR~sQVEyEglk  200 (772)
T KOG0999|consen  170 SEYSELEEENISLQKQVSNLRQSQVEYEGLK  200 (772)
T ss_pred             HHHHHHHHhcchHHHHHHHHhhhhhhhhHHH
Confidence            4456777777777777777777766654443

>KOG3850 consensus Predicted membrane protein [Function unknown]

Probab=92.29  E-value=7.3  Score=38.79  Aligned_cols=107  Identities=18%  Similarity=0.246  Sum_probs=59.9

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      ++.|-.++.+.+....-++..++.|+..++.      +..=-...|    .|||=+--+++++|..-.+=-..+|..|+.
T Consensus       262 l~aileeL~eIk~~q~~Leesye~Lke~~kr------dy~fi~etL----QEERyR~erLEEqLNdlteLqQnEi~nLKq  331 (455)
T KOG3850|consen  262 LDAILEELREIKETQALLEESYERLKEQIKR------DYKFIAETL----QEERYRYERLEEQLNDLTELQQNEIANLKQ  331 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHH----HHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence            4444444444444445555555544443322      222223344    556666677888888777777778888887


Q ss_pred             hHHhHHHhhccchhhh-hhhHHHHHHHHHHHHHHHHHH
Q 023459          185 KVDDLESELGNCKSEK-NSAEKTVKEMDERILLWQKEI  221 (282)
Q Consensus       185 ~~e~L~~~l~~~k~e~-~~~e~~~~~~e~~I~~l~~e~  221 (282)
                      +...++..+.=.-.+. ++.++-+.+.++.|.-+...+
T Consensus       332 ElasmeervaYQsyERaRdIqEalEscqtrisKlEl~q  369 (455)
T KOG3850|consen  332 ELASMEERVAYQSYERARDIQEALESCQTRISKLELQQ  369 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777666655222222 555555666666665544433

>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]

Probab=92.28  E-value=16  Score=37.89  Aligned_cols=132  Identities=14%  Similarity=0.264  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHH----------HHHHHHHHHHHHHHhhHHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKE----------KVESEKKVRELERNVGLLE  151 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e----------~~~~ek~i~~LE~kl~ele  151 (282)
                      +.+..++.-|.--..++..+..-+.-+...+...+..-.-+..+|+.+...          ...+++.|+.+..-+..+ 
T Consensus       288 e~ie~lYd~lE~EveA~~~V~~~~~~l~~~l~k~ke~n~~L~~Eie~V~~sY~l~e~e~~~vr~~e~eL~el~~~~~~i-  366 (570)
T COG4477         288 EKIESLYDLLEREVEAKNVVEENLPILPDYLEKAKENNEHLKEEIERVKESYRLAETELGSVRKFEKELKELESVLDEI-  366 (570)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHH-
Confidence            666777766666666666666666667776666666666666666655432          344455555555554444 


Q ss_pred             HHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHH
Q 023459          152 VREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLW  217 (282)
Q Consensus       152 ~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l  217 (282)
                         .+.-...--.=-.+...+...+..+..++++...+...|..+...+.++...+..+.+.|...
T Consensus       367 ---~~~~~~~~~~yS~lq~~l~~~~~~l~~i~~~q~~~~e~L~~LrkdEl~Are~l~~~~~~l~ei  429 (570)
T COG4477         367 ---LENIEAQEVAYSELQDNLEEIEKALTDIEDEQEKVQEHLTSLRKDELEARENLERLKSKLHEI  429 (570)
T ss_pred             ---HHHhhcccccHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               110011011223455566666666666666666666666666555555555555554444433

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=92.14  E-value=12  Score=36.10  Aligned_cols=29  Identities=17%  Similarity=0.174  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHhhhhcccccccccc
Q 023459          214 ILLWQKEIEEAEKVIAGLKDKTLDGVNGT  242 (282)
Q Consensus       214 I~~l~~e~~e~~~~~~~~~~~~~~~~~~~  242 (282)
                      +.+..++..--+|+|..+++....+|.-+
T Consensus       237 LddA~~K~~~kek~ViniQ~~f~d~~~~L  265 (305)
T PF14915_consen  237 LDDAHNKADNKEKTVINIQDQFQDIVKKL  265 (305)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33334433344556666666555555443

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

Probab=92.04  E-value=3.7  Score=34.34  Aligned_cols=39  Identities=21%  Similarity=0.223  Sum_probs=28.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRI   69 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~   69 (282)
                      -+.+|...|-.++.++..++.++..+...=+.++.+.-.
T Consensus        17 ~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~   55 (120)
T PF12325_consen   17 LVERLQSQLRRLEGELASLQEELARLEAERDELREEIVK   55 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567788888888888888888888777777777744433

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

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=92.00  E-value=22  Score=38.91  Aligned_cols=9  Identities=11%  Similarity=0.099  Sum_probs=4.3

Q ss_pred             hhhHHHHhh
Q 023459          262 QLPLAAVTA  270 (282)
Q Consensus       262 ~~~~~~~~~  270 (282)
                      .-|++-+.+
T Consensus       586 ~~~il~~~~  594 (980)
T KOG0980|consen  586 NDPILDGSL  594 (980)
T ss_pred             ccHHHHHHH
Confidence            445555443

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=91.95  E-value=4.6  Score=34.80  Aligned_cols=68  Identities=32%  Similarity=0.518  Sum_probs=44.9

Q ss_pred             hHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          118 KLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       118 eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      ++..+..+|..|..+...+...++.|+..+..+..         --.-++|...+.++..++..|..++..|+..-.
T Consensus        73 el~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~---------~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~  140 (169)
T PF07106_consen   73 ELAELDAEIKELREELAELKKEVKSLEAELASLSS---------EPTNEELREEIEELEEEIEELEEKLEKLRSGSK  140 (169)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            44555555666666666666666666666666622         124466788888888888888888888877443

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=91.94  E-value=4.8  Score=39.46  Aligned_cols=90  Identities=19%  Similarity=0.318  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRV  111 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lkse  111 (282)
                      +.....-...+..-...++..+.++...|...      |++|..|..-|..++..+..++-.....+.++...+......
T Consensus       222 leqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~------lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~  295 (359)
T PF10498_consen  222 LEQMKQHKKSIESALPETKSQLDKLQQDISKT------LEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEG  295 (359)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence            33444444445555556666666666666644      499999999999888887776666555544444444444444


Q ss_pred             HhhhhhhHHHHHHHHh
Q 023459          112 LGEKGVKLEELEREVD  127 (282)
Q Consensus       112 Iee~e~eIeelEkeIe  127 (282)
                      +......+..+..+++
T Consensus       296 V~~~t~~L~~IseeLe  311 (359)
T PF10498_consen  296 VSERTRELAEISEELE  311 (359)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444444444433333

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.91  E-value=15  Score=39.74  Aligned_cols=203  Identities=18%  Similarity=0.182  Sum_probs=99.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH----HHHHHHHHHHHHHH---HHHHHHhhhhcccchh
Q 023459           29 NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE----SVAARAEELEIEVS---RLQHDLVTSMSEGDEL  101 (282)
Q Consensus        29 ~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le----~i~~r~~~L~ee~~---~~q~dl~~~~s~~~e~  101 (282)
                      |+.+.+|+.-|..+..++..+++....++.+.+.+.+...-..    ...+.-..|+.++.   ..+.++.+-......-
T Consensus       656 ~~~~~kyK~lI~~lD~~~e~lkQ~~~~l~~e~eeL~~~vq~~~s~hsql~~q~~~Lk~qLg~~~~~~~~~~q~~e~~~t~  735 (970)
T KOG0946|consen  656 DDIQQKYKGLIRELDYQIENLKQMEKELQVENEELEEEVQDFISEHSQLKDQLDLLKNQLGIISSKQRDLLQGAEASKTQ  735 (970)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHhHHHhccCC
Confidence            4467778888888888888888888888888777776554442    12233333333333   2222333333333444


Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISG  181 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~  181 (282)
                      .+++..+..++........-+.++...-...+........+=+...+.+-.  +      -|+++    ++-+.....++
T Consensus       736 ~eel~a~~~e~k~l~~~q~~l~~~L~k~~~~~es~k~~~~~a~~~~~~~~~--~------~~~qe----qv~El~~~l~e  803 (970)
T KOG0946|consen  736 NEELNAALSENKKLENDQELLTKELNKKNADIESFKATQRSAELSQGSLND--N------LGDQE----QVIELLKNLSE  803 (970)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhhcccchhhh--h------hhhHH----HHHHHHHhhhh
Confidence            555555555555555555555444444444444444444433333333311  1      12222    22222222333


Q ss_pred             HHHhHHhHHHhhccchhhh-------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccccccc
Q 023459          182 FKKKVDDLESELGNCKSEK-------NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTA  243 (282)
Q Consensus       182 Lk~~~e~L~~~l~~~k~e~-------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~  243 (282)
                      .......+..++..++...       .....-+..+..-=..+-++...+++-...|+++.-.+-|||.
T Consensus       804 ~~~~l~~~q~e~~~~keq~~t~~~~tsa~a~~le~m~~~~~~la~e~~~ieq~ls~l~~~~k~~~nli~  872 (970)
T KOG0946|consen  804 ESTRLQELQSELTQLKEQIQTLLERTSAAADSLESMGSTEKNLANELKLIEQKLSNLQEKIKFGNNLIK  872 (970)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhccccchhhHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            3333333333333333221       2222223333333333445555566666668888888887774

>PF14915 CCDC144C: CCDC144C protein coiled-coil region

Probab=91.88  E-value=12  Score=35.90  Aligned_cols=190  Identities=16%  Similarity=0.200  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcccchhHHHHHHHHH
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH----DLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~----dl~~~~s~~~e~reEm~~Lks  110 (282)
                      |..+|+.|..++..++..-...+....   .|.   +.+....+.|...+.--..    -+..-......+.++-.-|.+
T Consensus         4 Lq~eia~LrlEidtik~q~qekE~ky~---edi---ei~Kekn~~Lqk~lKLneE~ltkTi~qy~~QLn~L~aENt~L~S   77 (305)
T PF14915_consen    4 LQDEIAMLRLEIDTIKNQNQEKEKKYL---EDI---EILKEKNDDLQKSLKLNEETLTKTIFQYNGQLNVLKAENTMLNS   77 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHH---HHH---HHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHhH
Confidence            455666666666655554333322211   111   2222333333333333222    222223334445666667777


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      .++..+...+-++.+|+++....+..-.....-..--..+|.-=.-+++.=.++++.|.-.+..+...+.-|-.+...-.
T Consensus        78 kLe~EKq~kerLEtEiES~rsRLaaAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskae  157 (305)
T PF14915_consen   78 KLEKEKQNKERLETEIESYRSRLAAAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAE  157 (305)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHH
Confidence            77777777788888888777776655444333333333333211234555577888888888877777777766666666


Q ss_pred             Hhhccchhhh-------hhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459          191 SELGNCKSEK-------NSAEKTVKEMDERILLWQKEIEEAEKVIAG  230 (282)
Q Consensus       191 ~~l~~~k~e~-------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~  230 (282)
                      +....++++-       ++..--+...++.+.+.+-++.+|+.|...
T Consensus       158 sK~nsLe~elh~trdaLrEKtL~lE~~QrdL~Qtq~q~KE~e~m~qn  204 (305)
T PF14915_consen  158 SKFNSLEIELHHTRDALREKTLALESVQRDLSQTQCQIKEIEHMYQN  204 (305)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666666663       333334556667777777777777666543

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=91.81  E-value=6.7  Score=39.71  Aligned_cols=28  Identities=32%  Similarity=0.465  Sum_probs=16.7

Q ss_pred             HHHHHhHHHHHHHHHHHHHhHHhHHHhh
Q 023459          166 EEMREKLDEKDREISGFKKKVDDLESEL  193 (282)
Q Consensus       166 eelrekl~eke~ei~~Lk~~~e~L~~~l  193 (282)
                      +...+.+..++..|.+|++++.+|.--+
T Consensus       424 e~~~~~~~s~d~~I~dLqEQlrDlmf~l  451 (493)
T KOG0804|consen  424 EREKEALGSKDEKITDLQEQLRDLMFFL  451 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHheeh
Confidence            3344556666677777776666665433

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=91.54  E-value=0.054  Score=56.90  Aligned_cols=32  Identities=25%  Similarity=0.385  Sum_probs=0.0

Q ss_pred             HHHHHHHH---HHhhhhcccchhHHHHHHHHHHHh
Q 023459           82 IEVSRLQH---DLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        82 ee~~~~q~---dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      .++..++.   ++......+..++++|+.++...+
T Consensus       274 ~ei~~L~q~~~eL~~~A~~a~~LrDElD~lR~~a~  308 (713)
T PF05622_consen  274 KEIDELRQENEELQAEAREARALRDELDELREKAD  308 (713)
T ss_dssp             -----------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            44444443   333344455555666666655433

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=91.47  E-value=6.1  Score=31.53  Aligned_cols=43  Identities=19%  Similarity=0.328  Sum_probs=28.1

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ....+..++..++.++..|..++..+..+++++.+++.+|.++
T Consensus        61 ~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~  103 (105)
T cd00632          61 KEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA  103 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444555566666666666677777777777777777776665

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]

Probab=91.47  E-value=17  Score=36.50  Aligned_cols=104  Identities=11%  Similarity=0.197  Sum_probs=60.5

Q ss_pred             ccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccch
Q 023459           21 FDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDE  100 (282)
Q Consensus        21 ~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e  100 (282)
                      |..|.+-.  .+..+..++...+.+...++.+-.....++...+.++++.+   .+-..+.......+.++---..-++.
T Consensus        74 fqlddi~~--qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~---~~~~~a~~n~~kAqQ~lar~t~Q~q~  148 (499)
T COG4372          74 FQLDDIRP--QLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVR---QELAAARQNLAKAQQELARLTKQAQD  148 (499)
T ss_pred             hhHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666  67777777777777777777777777778888888776665   44444445555555444443333444


Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhh
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGL  129 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~L  129 (282)
                      +..++..|......+......+...-..|
T Consensus       149 lqtrl~~l~~qr~ql~aq~qsl~a~~k~L  177 (499)
T COG4372         149 LQTRLKTLAEQRRQLEAQAQSLQASQKQL  177 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444444444433333333

>PF01576 Myosin_tail_1: Myosin tail; InterPro: IPR002928 Muscle contraction is caused by sliding between the thick and thin filaments of the myofibril

Probab=91.42  E-value=0.057  Score=58.15  Aligned_cols=70  Identities=16%  Similarity=0.216  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           81 EIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        81 ~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..++..++..+.+-......+...+..+..+++.+...+++-......+...+..+...|.++..++...
T Consensus       242 ~~qLeelk~~leeEtr~k~~L~~~l~~le~e~~~L~eqleeE~e~k~~l~~qlsk~~~El~~~k~K~e~e  311 (859)
T PF01576_consen  242 ESQLEELKRQLEEETRAKQALEKQLRQLEHELEQLREQLEEEEEAKSELERQLSKLNAELEQWKKKYEEE  311 (859)
T ss_dssp             ----------------------------------------------------------------------
T ss_pred             HHHHHhhHHHHHhHhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3555555555555444555555556666666666666666655566666666666666666665555543

Myosin is a major component of thick filaments and exists as a hexamer of 2 heavy chains [], 2 alkali light chains, and 2 regulatory light chains. The heavy chain can be subdivided into the N-terminal globular head and the C-terminal coiled-coil rod-like tail, although some forms have a globular region in their C-terminal. There are many cell-specific isoforms of myosin heavy chains, coded for by a multi-gene family []. Myosin interacts with actin to convert chemical energy, in the form of ATP, to mechanical energy []. The 3-D structure of the head portion of myosin has been determined [] and a model for actin-myosin complex has been constructed []. This family consists of the coiled-coil myosin heavy chain tail region. The coiled-coil is composed of the tail from two molecules of myosin. These can then assemble into the macromolecular thick filament []. The coiled-coil region provides the structural backbone of the thick filament [].; GO: 0003774 motor activity, 0016459 myosin complex; PDB: 2LNK_C 3ZWH_Q.

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=91.40  E-value=29  Score=39.20  Aligned_cols=31  Identities=13%  Similarity=0.083  Sum_probs=12.3

Q ss_pred             hHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          164 VEEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       164 ~keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      ..+.+......+...+.........+..+|-
T Consensus       750 ~~~~~~~~vl~Lq~~LEqe~~~r~~~~~eLs  780 (1317)
T KOG0612|consen  750 SKDQLITEVLKLQSMLEQEISKRLSLQRELK  780 (1317)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhhhHHHhh
Confidence            3344444444444444433333333333333

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=91.36  E-value=14  Score=39.84  Aligned_cols=53  Identities=23%  Similarity=0.321  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSM   95 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~   95 (282)
                      ..+..+...++.+...+...+..++..++.++.+..-++          ..++.++..+....
T Consensus       592 ~el~eelE~le~eK~~Le~~L~~~~d~lE~~~~qL~E~E----------~~L~eLq~eL~~~k  644 (769)
T PF05911_consen  592 KELEEELEKLESEKEELEMELASCQDQLESLKNQLKESE----------QKLEELQSELESAK  644 (769)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH
Confidence            344555555555555555555555555555554443333          55555555554433

The function of this family is unknown.

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=91.27  E-value=11  Score=34.27  Aligned_cols=26  Identities=4%  Similarity=0.170  Sum_probs=12.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          208 KEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       208 ~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      ..+...+...+..+=....-|+.+..
T Consensus       136 ~~l~~~l~~~r~~l~~~l~~ifpI~~  161 (302)
T PF10186_consen  136 SQLQSQLARRRRQLIQELSEIFPIEQ  161 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCcee
Confidence            33444444444444444445677754

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

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

Probab=91.26  E-value=8.2  Score=32.57  Aligned_cols=26  Identities=19%  Similarity=0.470  Sum_probs=10.2

Q ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459          123 EREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus       123 EkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      ..++..+...+..++.++..+++++.
T Consensus        65 ~~d~~~l~~~~~rL~~~~~~~ere~~   90 (151)
T PF11559_consen   65 RSDIERLQNDVERLKEQLEELERELA   90 (151)
T ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333344444444333

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

>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]

Probab=91.23  E-value=11  Score=39.74  Aligned_cols=39  Identities=23%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhhhhhhhHHH
Q 023459           31 KVTELTKKVESLELENKEMKG-------TIKKLTIEIEGSEEDKRI   69 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elke-------kI~~le~eIe~lr~~~~~   69 (282)
                      ++.+|+...+.|.-+...+.+       +|++++-=|+.-+....+
T Consensus       112 rLaRLe~dkesL~LQvsvLteqVeaQgEKIrDLE~cie~kr~kLna  157 (861)
T KOG1899|consen  112 RLARLEMDKESLQLQVSVLTEQVEAQGEKIRDLETCIEEKRNKLNA  157 (861)
T ss_pred             HHHHHhcchhhheehHHHHHHHHHHhhhhHHHHHHHHHHHHhhhch
Confidence            677777666666555555444       445555545444433333

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=91.17  E-value=12  Score=34.20  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=11.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459           39 VESLELENKEMKGTIKKLTIEIEGS   63 (282)
Q Consensus        39 I~~LE~Ei~elkekI~~le~eIe~l   63 (282)
                      +..+...+..+......+..+|+.+
T Consensus        22 L~~~~~~l~~~~~~~~~l~~~i~~~   46 (302)
T PF10186_consen   22 LLELRSELQQLKEENEELRRRIEEI   46 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444443

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=90.79  E-value=23  Score=36.94  Aligned_cols=39  Identities=23%  Similarity=0.279  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      ..+..++..++.++..+..++..+..++..++.....+.
T Consensus       205 ~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~  243 (650)
T TIGR03185       205 SSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQ  243 (650)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555555555555554444443

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

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=90.78  E-value=0.46  Score=45.96  Aligned_cols=71  Identities=21%  Similarity=0.286  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ..+..++..+.+-.+....+...+....+-|..+...+..+.-+|.+|+..+...--.|.+|++++..+|.
T Consensus        84 stV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe~RV~~LEs  154 (326)
T PF04582_consen   84 STVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLESRVKALES  154 (326)
T ss_dssp             ----------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHHHHHHHHhc
Confidence            56666666666666666666666666777777777777777777777777777777777777777777753

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

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

Probab=90.63  E-value=11  Score=32.94  Aligned_cols=15  Identities=33%  Similarity=0.523  Sum_probs=6.5

Q ss_pred             HHHHHHHHHHHHhhh
Q 023459           80 LEIEVSRLQHDLVTS   94 (282)
Q Consensus        80 L~ee~~~~q~dl~~~   94 (282)
                      |...+..+..++.++
T Consensus        32 l~~~~~~~~~~~vtk   46 (177)
T PF07798_consen   32 LNDSLEKVAQDLVTK   46 (177)
T ss_pred             HHHHHHHHHHHHHhH
Confidence            334444444444443

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=90.54  E-value=16  Score=34.70  Aligned_cols=137  Identities=20%  Similarity=0.220  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLG  113 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIe  113 (282)
                      +|.........++++...--+.++++++.--      ..|..|.-.|+++.-++..+++.-...          +...+.
T Consensus        24 ~ykq~f~~~reEl~EFQegSrE~EaelesqL------~q~etrnrdl~t~nqrl~~E~e~~Kek----------~e~q~~   87 (333)
T KOG1853|consen   24 EYKQHFLQMREELNEFQEGSREIEAELESQL------DQLETRNRDLETRNQRLTTEQERNKEK----------QEDQRV   87 (333)
T ss_pred             HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHH
Confidence            3455566666677777766666666665332      334455555555555555544433222          333333


Q ss_pred             hhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhh
Q 023459          114 EKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESEL  193 (282)
Q Consensus       114 e~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l  193 (282)
                      +--..+..++.+...+.+-+..+.+-|++||+.-..||.      .||.     .---+...+..+.+-=+...-|+++|
T Consensus        88 q~y~q~s~Leddlsqt~aikeql~kyiReLEQaNDdLEr------akRa-----ti~sleDfeqrLnqAIErnAfLESEL  156 (333)
T KOG1853|consen   88 QFYQQESQLEDDLSQTHAIKEQLRKYIRELEQANDDLER------AKRA-----TIYSLEDFEQRLNQAIERNAFLESEL  156 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHH------hhhh-----hhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence            444556677778888888888888888888888888843      2222     22334444444444555556666666


Q ss_pred             ccch
Q 023459          194 GNCK  197 (282)
Q Consensus       194 ~~~k  197 (282)
                      .+.+
T Consensus       157 dEke  160 (333)
T KOG1853|consen  157 DEKE  160 (333)
T ss_pred             hHHH
Confidence            5443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=90.53  E-value=3  Score=36.91  Aligned_cols=38  Identities=32%  Similarity=0.490  Sum_probs=11.8

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER  145 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~  145 (282)
                      ++..+......|..+..++..|+.++..++..|+....
T Consensus       107 l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k  144 (194)
T PF08614_consen  107 LEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNK  144 (194)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=90.50  E-value=17  Score=40.32  Aligned_cols=19  Identities=32%  Similarity=0.282  Sum_probs=12.5

Q ss_pred             HHHHHHHhhhhhhhHHHHH
Q 023459           53 IKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        53 I~~le~eIe~lr~~~~~le   71 (282)
                      ++++..+|++|+.|+.|+.
T Consensus       406 lKd~~~EIerLK~dl~AaR  424 (1041)
T KOG0243|consen  406 LKDLYEEIERLKRDLAAAR  424 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHhH
Confidence            5667777777776655544

>PF05911 DUF869: Plant protein of unknown function (DUF869); InterPro: IPR008587 This family consists of a number of sequences found in plants

Probab=90.30  E-value=24  Score=38.17  Aligned_cols=108  Identities=25%  Similarity=0.300  Sum_probs=46.9

Q ss_pred             hhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          115 KGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       115 ~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      ++..+.++.+.+..+..+-..+-+.+..-..-|.+|    .+.++.-...=..|...++-.++++..|+=++-.|..+|.
T Consensus        90 le~~l~e~~~~l~~~~~e~~~l~~~l~~~~~~i~~l----~~~~~~~e~~~~~l~~~l~~~eken~~Lkye~~~~~kele  165 (769)
T PF05911_consen   90 LEAKLAELSKRLAESAAENSALSKALQEKEKLIAEL----SEEKSQAEAEIEDLMARLESTEKENSSLKYELHVLSKELE  165 (769)
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH----HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444    2222221112234445555555555555554444444443


Q ss_pred             cchhhh--------hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          195 NCKSEK--------NSAEKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       195 ~~k~e~--------~~~e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                       ..+++        .-..++--+.=+.|.-|.-|=+++.-|
T Consensus       166 -ir~~E~~~~~~~ae~a~kqhle~vkkiakLEaEC~rLr~l  205 (769)
T PF05911_consen  166 -IRNEEREYSRRAAEAASKQHLESVKKIAKLEAECQRLRAL  205 (769)
T ss_pred             -HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             22222        111233333445566666666666544

The function of this family is unknown.

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=90.18  E-value=2.1  Score=36.92  Aligned_cols=49  Identities=24%  Similarity=0.317  Sum_probs=30.3

Q ss_pred             ccccccccCCC--chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 023459           17 TEDFFDPDQDG--SNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEE   65 (282)
Q Consensus        17 ~~~W~dv~~~e--~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~   65 (282)
                      -=||++=+...  .+..+..+..+|..|..++..+...+..+..++..+..
T Consensus        57 kiY~~~Q~~~~~~s~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~  107 (169)
T PF07106_consen   57 KIYFANQDELEVPSPEELAELDAEIKELREELAELKKEVKSLEAELASLSS  107 (169)
T ss_pred             EEEeeCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34666644433  23356677777777777777777776666666666553

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=90.07  E-value=30  Score=37.11  Aligned_cols=41  Identities=17%  Similarity=0.235  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      +|..|..++..+...+..+..+.+++......++.+...++
T Consensus        35 ~i~~l~~elk~~~~~~~~~~~e~~rl~~~~~~~~~~~~~~e   75 (717)
T PF09730_consen   35 RILELENELKQLRQELSNVQAENERLSQLNQELRKECEDLE   75 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            78888888888888888888888888888888887766665

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=89.90  E-value=2.7  Score=32.10  Aligned_cols=68  Identities=24%  Similarity=0.381  Sum_probs=44.1

Q ss_pred             HHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 023459          168 MREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKT  235 (282)
Q Consensus       168 lrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~  235 (282)
                      |...+.+++..|..|..+-+.|...-....+--..+...+...+..|..+...+....+-+..|.++.
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l   70 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEKQIKELKKKLEELEKELESLEERL   70 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45567777777777777777776655443333355566666777777777777777776666666543

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>KOG4809 consensus Rab6 GTPase-interacting protein involved in endosome-to-TGN transport [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.70  E-value=28  Score=36.26  Aligned_cols=38  Identities=16%  Similarity=0.071  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhccccccccccccccc
Q 023459          208 KEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVK  247 (282)
Q Consensus       208 ~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~~~~~  247 (282)
                      .+-+.-+.+|+.+.++..-.|..++  ..--.+||-+|-|
T Consensus       545 aEke~HL~nLr~errk~Lee~lemK--~~a~k~~i~~d~~  582 (654)
T KOG4809|consen  545 AEKEAHLANLRIERRKQLEEILEMK--KPAWKPGIHADMW  582 (654)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh--hhhhhcCCCHHHH
Confidence            3344445566666666655555555  3334567766665

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=89.59  E-value=4.8  Score=36.06  Aligned_cols=75  Identities=29%  Similarity=0.418  Sum_probs=42.9

Q ss_pred             hhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhh
Q 023459          114 EKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESEL  193 (282)
Q Consensus       114 e~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l  193 (282)
                      ........++..+..-+.....++..|.+|+.+|.++           .+-...|..+....+.+|..++...+.+...+
T Consensus       107 ~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el-----------~~~~~~~~~~ke~~~~ei~~lks~~~~l~~~~  175 (190)
T PF05266_consen  107 KLLEERKKLEKKIEEKEAELKELESEIKELEMKILEL-----------QRQAAKLKEKKEAKDKEISRLKSEAEALKEEI  175 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344444444444445555566666666666666           22344556666667777777777777777666


Q ss_pred             ccchhh
Q 023459          194 GNCKSE  199 (282)
Q Consensus       194 ~~~k~e  199 (282)
                      .+++.+
T Consensus       176 ~~~e~~  181 (190)
T PF05266_consen  176 ENAELE  181 (190)
T ss_pred             HHHHHH
Confidence            655443

>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain

Probab=89.45  E-value=21  Score=34.50  Aligned_cols=61  Identities=13%  Similarity=0.223  Sum_probs=34.4

Q ss_pred             HHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh-hhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          166 EEMREKLDEKDREISGFKKKVDDLESELGNCKSEK-NSAEKTVKEMDERILLWQKEIEEAEK  226 (282)
Q Consensus       166 eelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~-~~~e~~~~~~e~~I~~l~~e~~e~~~  226 (282)
                      ..|..++..+..+...+....+.|..+..++.+-- .+=+-=|+-+.+.+..|-.+.+-+..
T Consensus       138 ~kL~k~i~~Le~e~~~~q~~le~Lr~EKVdlEn~LE~EQE~lvN~L~Kqm~~l~~eKr~Lq~  199 (310)
T PF09755_consen  138 NKLQKKIERLEKEKSAKQEELERLRREKVDLENTLEQEQEALVNRLWKQMDKLEAEKRRLQE  199 (310)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566677777766667777777777777766653 22223344444444444444444433

>PF15066 CAGE1: Cancer-associated gene protein 1 family

Probab=89.40  E-value=27  Score=35.66  Aligned_cols=156  Identities=19%  Similarity=0.207  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHH
Q 023459           42 LELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEE  121 (282)
Q Consensus        42 LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIee  121 (282)
                      |..=+..++..=+.-+..|..|.-.-..          |+..+..+|-.+....           -|-..|..++..|++
T Consensus       315 LNEvL~kLk~tn~kQq~~IqdLq~sN~y----------Le~kvkeLQ~k~~kQq-----------vfvDiinkLk~niEe  373 (527)
T PF15066_consen  315 LNEVLQKLKHTNRKQQNRIQDLQCSNLY----------LEKKVKELQMKITKQQ-----------VFVDIINKLKENIEE  373 (527)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhhhccHH----------HHHHHHHHHHHhhhhh-----------HHHHHHHHHHHHHHH
Confidence            3334444444444445556655544444          4477777776544321           267778888888888


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhc-cchhhh
Q 023459          122 LEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELG-NCKSEK  200 (282)
Q Consensus       122 lEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~-~~k~e~  200 (282)
                      +..+.-.+-=++..+++.+..|..-+....- .+          ++-+.....+.-+++.++..+-.|..... +++...
T Consensus       374 LIedKY~viLEKnd~~k~lqnLqe~la~tqk-~L----------qEsr~eKetLqlelkK~k~nyv~LQEry~~eiQqKn  442 (527)
T PF15066_consen  374 LIEDKYRVILEKNDIEKTLQNLQEALANTQK-HL----------QESRNEKETLQLELKKIKANYVHLQERYMTEIQQKN  442 (527)
T ss_pred             HHHhHhHhhhhhhhHHHHHHHHHHHHHHHHH-HH----------HHHHhhHHHHHHHHHHHhhhHHHHHHHHHHHHHHhh
Confidence            8888888888888888888888877766621 11          22233333344444444444444444333 222221


Q ss_pred             ------hhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023459          201 ------NSAEKTVKEMDERILLWQKEIEEAEKVIA  229 (282)
Q Consensus       201 ------~~~e~~~~~~e~~I~~l~~e~~e~~~~~~  229 (282)
                            .+..+.+-..+..|..|++...+++|+..
T Consensus       443 ksvsqclEmdk~LskKeeeverLQ~lkgelEkat~  477 (527)
T PF15066_consen  443 KSVSQCLEMDKTLSKKEEEVERLQQLKGELEKATT  477 (527)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence                  44446666667777777777777777663

>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function

Probab=89.23  E-value=19  Score=35.02  Aligned_cols=108  Identities=16%  Similarity=0.250  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc-----cchhHHHHHH
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSE-----GDELGAEVAE  107 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~-----~~e~reEm~~  107 (282)
                      ..|..-+.....++..+..++..+...+.++..|.+.|.          +.+.+.+.-...-.+.     ...+-..+..
T Consensus        68 ~~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR----------~~la~~r~~~~~~~~~~~~~ere~lV~qLEk  137 (319)
T PF09789_consen   68 KNLAQLLSESREQNKKLKEEVEELRQKLNEAQGDIKLLR----------EKLARQRVGDEGIGARHFPHEREDLVEQLEK  137 (319)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHH----------HHHHhhhhhhccccccccchHHHHHHHHHHH
Confidence            345555555566666666666666666666666665555          4444444322211111     1222222333


Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +...+..+...+..+-.+.+.+..+......+..-|...|..+
T Consensus       138 ~~~q~~qLe~d~qs~lDEkeEl~~ERD~yk~K~~RLN~ELn~~  180 (319)
T PF09789_consen  138 LREQIEQLERDLQSLLDEKEELVTERDAYKCKAHRLNHELNYI  180 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444445555555555554

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=89.03  E-value=1.5  Score=46.36  Aligned_cols=28  Identities=29%  Similarity=0.633  Sum_probs=20.4

Q ss_pred             HHHhHHHHHHHHHHHHHhHHhHHHhhcc
Q 023459          168 MREKLDEKDREISGFKKKVDDLESELGN  195 (282)
Q Consensus       168 lrekl~eke~ei~~Lk~~~e~L~~~l~~  195 (282)
                      |+.++..++.++..|..++..|+.++..
T Consensus       508 L~~~~~~Le~e~~~L~~~~~~Le~~l~~  535 (722)
T PF05557_consen  508 LQKEIEELERENERLRQELEELESELEK  535 (722)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777777777777777766654

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>PF06818 Fez1: Fez1; InterPro: IPR009638 This family represents the eukaryotic Fez1 protein

Probab=89.01  E-value=18  Score=32.99  Aligned_cols=32  Identities=16%  Similarity=0.180  Sum_probs=24.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDK   67 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~   67 (282)
                      +.+|+-|.+.+.+...++.....+|..++.+.
T Consensus         9 ~GEIsLLKqQLke~q~E~~~K~~Eiv~Lr~ql   40 (202)
T PF06818_consen    9 SGEISLLKQQLKESQAEVNQKDSEIVSLRAQL   40 (202)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            46688888888888888888888888888443

Fez1 contains a leucine-zipper region with similarity to the DNA-binding domain of the cAMP-responsive activating-transcription factor 5 []. There is evidence that Fez1 inhibits cancer cell growth through regulation of mitosis, and that its alterations result in abnormal cell growth []. Note that some family members contain more than one copy of this region.; GO: 0005737 cytoplasm, 0016020 membrane

>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]

Probab=88.94  E-value=40  Score=36.97  Aligned_cols=56  Identities=20%  Similarity=0.332  Sum_probs=24.6

Q ss_pred             hcccchhHHHHHHHHHHHhhhhhhHHH-------HHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           95 MSEGDELGAEVAELKRVLGEKGVKLEE-------LEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        95 ~s~~~e~reEm~~LkseIee~e~eIee-------lEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...|+...+.+..+......+-..-..       .+..|...+..+..+..+|..+.+..+..
T Consensus       423 e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~~~~s~~~~~~~~~~L~d~le~~~~~~~~~  485 (980)
T KOG0980|consen  423 ENRYEKLKEKYTELRQEHADLLRKYDDIQKQLESAEQSIDDVEEENTNLNDQLEELQRAAGRA  485 (980)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555554444443333333       33334444444444444444444444443

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=88.84  E-value=37  Score=36.46  Aligned_cols=22  Identities=9%  Similarity=0.160  Sum_probs=11.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGT   52 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkek   52 (282)
                      .+.++..+|.-|+.-+..-...
T Consensus       347 eLdK~~~~i~~Ln~~leaReaq  368 (961)
T KOG4673|consen  347 ELDKTKKEIKMLNNALEAREAQ  368 (961)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666665555555443333

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

Probab=88.79  E-value=6.7  Score=33.12  Aligned_cols=38  Identities=13%  Similarity=0.213  Sum_probs=21.2

Q ss_pred             hhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          113 GEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       113 ee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ....+++.++..++..+..++..+...+..|+.+|..+
T Consensus        85 ~~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~i  122 (126)
T PF07889_consen   85 KQIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEI  122 (126)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555555555666666666666666555

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

>PF13863 DUF4200: Domain of unknown function (DUF4200)

Probab=88.62  E-value=12  Score=30.38  Aligned_cols=104  Identities=20%  Similarity=0.305  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhh
Q 023459           36 TKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEK  115 (282)
Q Consensus        36 ~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~  115 (282)
                      .+++...+..+..-+.++......+..-.      ..+..+...|.+.+.....-+-+-......+...+..-.......
T Consensus         6 kre~~~~~~~l~~kr~e~~~~~~~~~~~e------~~L~~~e~~l~~~~~~f~~flken~~k~~rA~k~a~~e~k~~~~k   79 (126)
T PF13863_consen    6 KREMFLVQLALDTKREEIERREEQLKQRE------EELEKKEQELEEDVIKFDKFLKENEAKRERAEKRAEEEKKKKEEK   79 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            35555666666666666666666665555      444455666667777666666666666666666777777777888


Q ss_pred             hhhHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 023459          116 GVKLEELEREVDGLKKEKVESEKKVRELER  145 (282)
Q Consensus       116 e~eIeelEkeIe~LE~e~~~~ek~i~~LE~  145 (282)
                      ..+|..+..+|..|...+..++..|..+..
T Consensus        80 ~~ei~~l~~~l~~l~~~~~k~e~~l~~~~~  109 (126)
T PF13863_consen   80 EAEIKKLKAELEELKSEISKLEEKLEEYKK  109 (126)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888888888877654

>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA

Probab=88.54  E-value=6.1  Score=37.96  Aligned_cols=106  Identities=16%  Similarity=0.269  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhH-------HHH
Q 023459          135 ESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAE-------KTV  207 (282)
Q Consensus       135 ~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e-------~~~  207 (282)
                      .+...+.++|.|...-    |      + .-.+|..+...+-.+++.|+..++.+...+..++.+..+..       ...
T Consensus        81 ~lk~~l~evEekyrkA----M------v-~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~  149 (302)
T PF09738_consen   81 DLKDSLAEVEEKYRKA----M------V-SNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAH  149 (302)
T ss_pred             HHHHHHHHHHHHHHHH----H------H-HHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456666666666666    3      2 23556666666666666666666666666666555532222       334


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccccccccccccc-ccCCCCcccccccc
Q 023459          208 KEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDV-KLNGDGEEEDSRLN  260 (282)
Q Consensus       208 ~~~e~~I~~l~~e~~e~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  260 (282)
                      ..+...+..++.++.+...+|.         =+||-+.+ -.||+++.++.+..
T Consensus       150 d~L~~e~~~Lre~L~~rdeli~---------khGlVlv~~~~ngd~~~~~~~~~  194 (302)
T PF09738_consen  150 DSLREELDELREQLKQRDELIE---------KHGLVLVPDATNGDTSDEPNNVG  194 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH---------HCCeeeCCCCCCCccccCccccC
Confidence            4455555555555555544441         14444333 44777776555443

They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.

>KOG0962 consensus DNA repair protein RAD50, ABC-type ATPase/SMC superfamily [Replication, recombination and repair]

Probab=88.53  E-value=51  Score=37.63  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=14.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      +.++.++.++++++..+..++-.+.
T Consensus      1011 ~~l~~q~~e~~re~~~ld~Qi~~~~ 1035 (1294)
T KOG0962|consen 1011 RNLERKLKELERELSELDKQILEAD 1035 (1294)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            4555566666666665555555444

>PF05622 HOOK: HOOK protein; InterPro: IPR008636 This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms

Probab=88.53  E-value=0.14  Score=53.96  Aligned_cols=38  Identities=24%  Similarity=0.424  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHH
Q 023459           75 ARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVL  112 (282)
Q Consensus        75 ~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseI  112 (282)
                      .+-+.|...++.++.++.......+.++.++..+...+
T Consensus       239 ~~~~~l~~ql~~L~~el~~~e~~~~d~~~~~e~le~ei  276 (713)
T PF05622_consen  239 VELADLRAQLRRLREELERLEEQRDDLKIELEELEKEI  276 (713)
T ss_dssp             --------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555444444444444433333333

The different members of the Homo sapiens gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three Homo sapiens HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes [], whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head [].; GO: 0008017 microtubule binding, 0000226 microtubule cytoskeleton organization, 0005737 cytoplasm; PDB: 1WIX_A.

>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures

Probab=88.26  E-value=8.4  Score=29.36  Aligned_cols=66  Identities=24%  Similarity=0.459  Sum_probs=41.6

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      +...+.+....|+.+..+-..|....-.+...|+.|..++.+++.           .-..+..++...+.++..|+.
T Consensus         3 l~~~l~EKDe~Ia~L~eEGekLSk~el~~~~~IKKLr~~~~e~e~-----------~~~~l~~~~~~~e~~~~~l~~   68 (74)
T PF12329_consen    3 LEKKLAEKDEQIAQLMEEGEKLSKKELKLNNTIKKLRAKIKELEK-----------QIKELKKKLEELEKELESLEE   68 (74)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH
Confidence            455566677777777777777777777777777777777777642           224444455554554444443

The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.18  E-value=37  Score=35.63  Aligned_cols=173  Identities=17%  Similarity=0.225  Sum_probs=87.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHH------------HHHHHHHHHHHHHHHHHHHhhhhcccch
Q 023459           33 TELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILES------------VAARAEELEIEVSRLQHDLVTSMSEGDE  100 (282)
Q Consensus        33 ~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~------------i~~r~~~L~ee~~~~q~dl~~~~s~~~e  100 (282)
                      ..|+.+.++|+.+...++.+++.+...+-.++...+..-+            -|++...+-.++-.++.++-..-.+...
T Consensus        46 ~~Lkqq~eEleaeyd~~R~Eldqtkeal~q~~s~hkk~~~~g~e~EesLLqESaakE~~yl~kI~eleneLKq~r~el~~  125 (772)
T KOG0999|consen   46 EDLKQQLEELEAEYDLARTELDQTKEALGQYRSQHKKVARDGEEREESLLQESAAKEEYYLQKILELENELKQLRQELTN  125 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4466777777777777777777777766555544332211            2333333333444444455444444445


Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHH---HHH---HhHHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEE---EMR---EKLDE  174 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~ke---elr---ekl~e  174 (282)
                      ++++...+..........-..++.+--.|..++++..-+=..|=+.-.+||- |+      .++..   .||   -+-+-
T Consensus       126 ~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~RllseYSELEE-EN------IsLQKqVs~LR~sQVEyEg  198 (772)
T KOG0999|consen  126 VQEENERLEKVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLSEYSELEE-EN------ISLQKQVSNLRQSQVEYEG  198 (772)
T ss_pred             HHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hc------chHHHHHHHHhhhhhhhhH
Confidence            5555555555555555555555555555555555554444444444444421 01      22211   122   22233


Q ss_pred             HHHHHHHHHHhHHhHHHhhccchhhh----hhhHHHHHHHHH
Q 023459          175 KDREISGFKKKVDDLESELGNCKSEK----NSAEKTVKEMDE  212 (282)
Q Consensus       175 ke~ei~~Lk~~~e~L~~~l~~~k~e~----~~~e~~~~~~e~  212 (282)
                      +.-+|.-|.+..+-|..++.+.-.-+    ++++..+..++.
T Consensus       199 lkheikRleEe~elln~q~ee~~~Lk~IAekQlEEALeTlq~  240 (772)
T KOG0999|consen  199 LKHEIKRLEEETELLNSQLEEAIRLKEIAEKQLEEALETLQQ  240 (772)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45566677777777777766654443    444444444433

>PF05384 DegS: Sensor protein DegS; InterPro: IPR008595 This is a group of Bacillus DegS proteins

Probab=88.07  E-value=17  Score=31.76  Aligned_cols=57  Identities=23%  Similarity=0.342  Sum_probs=45.0

Q ss_pred             hhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459           92 VTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus        92 ~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      .+.+.-++.++.++..+..++.+++..+..+..+.+.|+..-.....++.+.-+...
T Consensus        16 ~qIf~I~E~~R~E~~~l~~EL~evk~~v~~~I~evD~Le~~er~aR~rL~eVS~~f~   72 (159)
T PF05384_consen   16 EQIFEIAEQARQEYERLRKELEEVKEEVSEVIEEVDKLEKRERQARQRLAEVSRNFD   72 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            334444566788888888888888888888888888888888888888887777774

The DegS-DegU two-component regulatory system of Bacillus subtilis controls various processes that characterise the transition from the exponential to the stationary growth phase, including the induction of extracellular degradative enzymes, expression of late competence genes and down-regulation of the sigma D regulon []. The entry also contains one sequence Q8R9D3 from SWISSPROT from Thermoanaerobacter tengcongensis which is described as a sensory transduction histidine kinase.; GO: 0016301 kinase activity, 0007165 signal transduction

>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []

Probab=87.93  E-value=2.5  Score=31.29  Aligned_cols=45  Identities=29%  Similarity=0.386  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAA   75 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~   75 (282)
                      .+..+..++..++.++..++.+.+.++.+|..++.+...++.+|+
T Consensus        18 ~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR   62 (80)
T PF04977_consen   18 RYYQLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAR   62 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            578899999999999999999999999999999778777775554

These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=87.83  E-value=6.7  Score=30.66  Aligned_cols=55  Identities=20%  Similarity=0.376  Sum_probs=39.6

Q ss_pred             HhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          170 EKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       170 ekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      +.|.=+..+|++|+.+-..|..+.+.+.+....+..+...+...-..++.+++-+
T Consensus        18 dtI~LLqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~WqerLr~L   72 (79)
T PRK15422         18 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   72 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6677777888888888888887777766666666666777777777777766554

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=87.63  E-value=52  Score=36.73  Aligned_cols=109  Identities=19%  Similarity=0.178  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhh
Q 023459           80 LEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKS  159 (282)
Q Consensus        80 L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~  159 (282)
                      |+.++..+...|.+...-|.-.-..-..|..+.+..+..+.....++..++.+...+...|+.-+.-++.++.       
T Consensus       453 le~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~~el~~~~ee~~~~~~~l~~~e~ii~~~~~-------  525 (1041)
T KOG0243|consen  453 LEEELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKNKELESLKEELQQAKATLKEEEEIISQQEK-------  525 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------
Confidence            3344444444444443333333334445777777777788888888888888888888887777777777744       


Q ss_pred             hhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhh
Q 023459          160 KRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSE  199 (282)
Q Consensus       160 ~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e  199 (282)
                          ++..+......+..........+..|...+..+...
T Consensus       526 ----se~~l~~~a~~l~~~~~~s~~d~s~l~~kld~~~~~  561 (1041)
T KOG0243|consen  526 ----SEEKLVDRATKLRRSLEESQDDLSSLFEKLDRKDRL  561 (1041)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence                555555666666667777777776666666654433

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=87.60  E-value=1.4  Score=43.20  Aligned_cols=45  Identities=27%  Similarity=0.444  Sum_probs=26.3

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      .|.+.++..+..|..++..+..+...+..+++.+..++.++..+|
T Consensus       141 ~l~~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl~DlE  185 (370)
T PF02994_consen  141 SLNSRIDELEERISELEDRIEEIEQAIKELEKRIKKLEDKLDDLE  185 (370)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence            355566666666666666666666666666666666666666664

Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.

>PRK00888 ftsB cell division protein FtsB; Reviewed

Probab=87.55  E-value=2.2  Score=34.70  Aligned_cols=41  Identities=17%  Similarity=0.253  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      ....+..++..++.++..++.+...+..+|..++.+...++
T Consensus        28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiE   68 (105)
T PRK00888         28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIE   68 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHH
Confidence            68889999999999999999999999999999998777777

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

Probab=87.52  E-value=32  Score=34.18  Aligned_cols=147  Identities=14%  Similarity=0.187  Sum_probs=90.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhh---cccchhHH-HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHh
Q 023459           72 SVAARAEELEIEVSRLQHDLVTSM---SEGDELGA-EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNV  147 (282)
Q Consensus        72 ~i~~r~~~L~ee~~~~q~dl~~~~---s~~~e~re-Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl  147 (282)
                      .+..+.+..+..+..+......-.   ...+.... -+..|+..+......+..+..+...-.......+..+..++..+
T Consensus       250 ~~~~~~~~~~a~l~~~~~~~~~~~~~~~~~~~~~s~~i~~Lr~~~~~~~~~~~~l~~~~~~~~p~~~~~~~q~~~~~~~~  329 (458)
T COG3206         250 SARARLAQAEARLASLLQLLPLGREAAALREVLESPTIQDLRQQYAQVRQQIADLSTELGAKHPQLVALEAQLAELRQQI  329 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcccccchhhhHHhccHHHHHHHHHHHHHHHHHHHHHHhhcccChHHHhHHHHHHHHHHHH
Confidence            344555555555555554222111   11111222 47778888888888888888888888888888888888888777


Q ss_pred             hHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh---hhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          148 GLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK---NSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       148 ~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~---~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      ...    .      ...-.....+..-.+.....|...+..++..+..+-...   .++++++....+-...+....+++
T Consensus       330 ~~e----~------~~~~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~~~~~~~~l~~L~Re~~~~r~~ye~lL~r~qe~  399 (458)
T COG3206         330 AAE----L------RQILASLPNELALLEQQEAALEKELAQLKGRLSKLPKLQVQLRELEREAEAARSLYETLLQRYQEL  399 (458)
T ss_pred             HHH----H------HHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHhhchHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            776    2      223333333344455555556666666666555543333   778888888888888888888877


Q ss_pred             HHHH
Q 023459          225 EKVI  228 (282)
Q Consensus       225 ~~~~  228 (282)
                      .-..
T Consensus       400 ~~~~  403 (458)
T COG3206         400 SIQE  403 (458)
T ss_pred             HHhh
Confidence            6544

>COG1842 PspA Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]

Probab=87.51  E-value=23  Score=32.57  Aligned_cols=40  Identities=15%  Similarity=0.219  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      +.+...-...|+.-|......+..+...+..+...++.++
T Consensus        19 ~dk~EDp~~~l~Q~ird~~~~l~~ar~~~A~~~a~~k~~e   58 (225)
T COG1842          19 LDKAEDPEKMLEQAIRDMESELAKARQALAQAIARQKQLE   58 (225)
T ss_pred             HHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444455556666666666666666655555554444

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=87.25  E-value=8.7  Score=29.32  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=10.4

Q ss_pred             HhHHHHHHHHHHHHHhHHhHHHhhc
Q 023459          170 EKLDEKDREISGFKKKVDDLESELG  194 (282)
Q Consensus       170 ekl~eke~ei~~Lk~~~e~L~~~l~  194 (282)
                      +.+.-+..++.+|+.+...|..+..
T Consensus        18 eti~~Lq~e~eeLke~n~~L~~e~~   42 (72)
T PF06005_consen   18 ETIALLQMENEELKEKNNELKEENE   42 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            3344444444444444444443333

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility

Probab=87.22  E-value=21  Score=31.77  Aligned_cols=33  Identities=45%  Similarity=0.616  Sum_probs=21.7

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          119 LEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       119 IeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      ...+...|..|+.++..++..+..+..+...++
T Consensus       122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~e  154 (189)
T PF10211_consen  122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLE  154 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666666666666666666666666666664

Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].

>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []

Probab=87.18  E-value=31  Score=33.75  Aligned_cols=56  Identities=20%  Similarity=0.272  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKE----------------MKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQ   88 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~e----------------lkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q   88 (282)
                      ++..|.++|..||.-+..                +-..+..+...+.-|.+  ..|+.|.+|-..|-.++..+.
T Consensus       210 ~~a~LE~RL~~LE~~lG~~~~~~~~l~~~~~~~~l~~~l~~L~~~lslL~~--~~Ld~i~~rl~~L~~~~~~l~  281 (388)
T PF04912_consen  210 RAADLEKRLARLESALGIDSDKMSSLDSDTSSSPLLPALNELERQLSLLDP--AKLDSIERRLKSLLSELEELA  281 (388)
T ss_pred             HHHHHHHHHHHHHHHhCCCccccccccccCCcchHHHHHHHHHHHHHhcCH--HHHHHHHHHHHHHHHHHHHHH
Confidence            566677777777765544                44556666666665532  345656666555555554433

It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=87.16  E-value=28  Score=33.13  Aligned_cols=96  Identities=11%  Similarity=0.162  Sum_probs=62.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHH
Q 023459           42 LELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEE  121 (282)
Q Consensus        42 LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIee  121 (282)
                      |++++..++...+++.....+++-++..+.          +....-+..|-...   ..+...+.......+.+..-|.+
T Consensus        50 lesqL~q~etrnrdl~t~nqrl~~E~e~~K----------ek~e~q~~q~y~q~---s~Leddlsqt~aikeql~kyiRe  116 (333)
T KOG1853|consen   50 LESQLDQLETRNRDLETRNQRLTTEQERNK----------EKQEDQRVQFYQQE---SQLEDDLSQTHAIKEQLRKYIRE  116 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555555554443332          22222222222222   23566677788888888999999


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          122 LEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       122 lEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ++..-+.|+.-+....-.+.+++++|.-.
T Consensus       117 LEQaNDdLErakRati~sleDfeqrLnqA  145 (333)
T KOG1853|consen  117 LEQANDDLERAKRATIYSLEDFEQRLNQA  145 (333)
T ss_pred             HHHhccHHHHhhhhhhhhHHHHHHHHHHH
Confidence            99999999999999999999999998765

>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]

Probab=87.11  E-value=7.8  Score=37.47  Aligned_cols=86  Identities=22%  Similarity=0.318  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHH
Q 023459           41 SLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLE  120 (282)
Q Consensus        41 ~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIe  120 (282)
                      ..++....+..-++.+-.+|.      ++|++|+.|..-|..++..+...|-.......+++.........++.....+.
T Consensus       238 nIe~~~~~~~~~Ldklh~eit------~~LEkI~SREK~lNnqL~~l~q~fr~a~~~lse~~e~y~q~~~gv~~rT~~L~  311 (384)
T KOG0972|consen  238 NIEQKVGNVGPYLDKLHKEIT------KALEKIASREKSLNNQLASLMQKFRRATDTLSELREKYKQASVGVSSRTETLD  311 (384)
T ss_pred             HHHHhhcchhHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence            334444455555555555554      46699999999999999999888877776666666666666666666666666


Q ss_pred             HHHHHHhhhHHH
Q 023459          121 ELEREVDGLKKE  132 (282)
Q Consensus       121 elEkeIe~LE~e  132 (282)
                      ++..+|+.++.+
T Consensus       312 eVm~e~E~~Kqe  323 (384)
T KOG0972|consen  312 EVMDEIEQLKQE  323 (384)
T ss_pred             HHHHHHHHHHHH
Confidence            666665555443

>PF15450 DUF4631: Domain of unknown function (DUF4631)

Probab=86.99  E-value=40  Score=34.80  Aligned_cols=65  Identities=17%  Similarity=0.208  Sum_probs=49.6

Q ss_pred             cCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459           24 DQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTS   94 (282)
Q Consensus        24 ~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~   94 (282)
                      .+.+.+..+..|...-..++..+..+...+.++.++|..+.      -++.-....|..++..+...+.+.
T Consensus       331 a~Qe~~~~ld~LqEksqile~sv~~l~~~lkDLd~~~~aLs------~rld~qEqtL~~rL~e~~~e~~~~  395 (531)
T PF15450_consen  331 AQQETQSELDLLQEKSQILEDSVAELMRQLKDLDDHILALS------WRLDLQEQTLNLRLSEAKNEWESD  395 (531)
T ss_pred             hHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh------hhhhHHHHHHHHHHHHHHHHHHHH
Confidence            34444457888888999999999999999999999998887      445556666668888777766554

>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=86.75  E-value=0.82  Score=44.04  Aligned_cols=63  Identities=29%  Similarity=0.490  Sum_probs=45.9

Q ss_pred             hHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          171 KLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       171 kl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      .+......+...+..+..+...+..++........+...++..+...+..+....++|.||..
T Consensus       229 ~l~~~~~~L~~~~~~l~~l~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~kl~rA~~Li~~L~~  291 (344)
T PF12777_consen  229 ELEEAEEQLAEKQAELAELEEKLAALQKEYEEAQKEKQELEEEIEETERKLERAEKLISGLSG  291 (344)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccHHHHHhhhcc
Confidence            445555555555555666666666666665666777888888888889999999999999987

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.70  E-value=9.1  Score=34.72  Aligned_cols=30  Identities=30%  Similarity=0.485  Sum_probs=15.5

Q ss_pred             HHHHHhHHHHHHHHHHHHHhHHhHHHhhcc
Q 023459          166 EEMREKLDEKDREISGFKKKVDDLESELGN  195 (282)
Q Consensus       166 eelrekl~eke~ei~~Lk~~~e~L~~~l~~  195 (282)
                      .+|.+++.+.+..+.+|+++...|+.++..
T Consensus       121 ~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~  150 (206)
T PRK10884        121 AEMQQKVAQSDSVINGLKEENQKLKNQLIV  150 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555555555555555554443

>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]

Probab=86.48  E-value=6.5  Score=33.97  Aligned_cols=46  Identities=17%  Similarity=0.289  Sum_probs=37.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAAR   76 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r   76 (282)
                      .+..|..++..|++++..+...+..+...|..++.-...|+.+...
T Consensus         7 ~le~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~   52 (145)
T COG1730           7 ELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGA   52 (145)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            6888889999999999999999999988888888777777744433

>PF08647 BRE1: BRE1 E3 ubiquitin ligase; InterPro: IPR013956 BRE1 is an E3 ubiquitin ligase that has been shown to act as a transcriptional activator through direct activator interactions []

Probab=86.36  E-value=14  Score=29.24  Aligned_cols=29  Identities=21%  Similarity=0.318  Sum_probs=11.1

Q ss_pred             HhhhhcccchhHHHHHHHHHHHhhhhhhH
Q 023459           91 LVTSMSEGDELGAEVAELKRVLGEKGVKL  119 (282)
Q Consensus        91 l~~~~s~~~e~reEm~~LkseIee~e~eI  119 (282)
                      +...+...+.+..+|..|...+..-...|
T Consensus        47 yfa~mr~~d~l~~e~k~L~~~~~Ks~~~i   75 (96)
T PF08647_consen   47 YFAAMRSKDALDNEMKKLNTQLSKSSELI   75 (96)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHhHHHH
Confidence            33333333333334444444333333333

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=86.22  E-value=36  Score=33.50  Aligned_cols=116  Identities=16%  Similarity=0.231  Sum_probs=66.4

Q ss_pred             chhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHH
Q 023459           99 DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDRE  178 (282)
Q Consensus        99 ~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~e  178 (282)
                      +.+..++-.+...+..-+..+..++.-+..++.+...++-++..+.+..++-+                  ++-.++.++
T Consensus       109 qkL~nqL~~~~~vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~~e~~Eke------------------eesq~LnrE  170 (401)
T PF06785_consen  109 QKLKNQLFHVREVFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQQECGEKE------------------EESQTLNRE  170 (401)
T ss_pred             HHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHhH------------------HHHHHHHHH
Confidence            34444555566666666666666666777777777777777666666555441                  122233333


Q ss_pred             HHHHHHhHHhHHHhhccchhhh----hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          179 ISGFKKKVDDLESELGNCKSEK----NSAEKTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       179 i~~Lk~~~e~L~~~l~~~k~e~----~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      +++.-.-.-.|..+.+.-=.++    ..++--|..+++.++||--|++.+...-.+.+
T Consensus       171 LaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~EirnLLQle~~~~  228 (401)
T PF06785_consen  171 LAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIRNLLQLESDMK  228 (401)
T ss_pred             HHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            3333333334444444322222    55667777788888888888887766444443

>PRK10929 putative mechanosensitive channel protein; Provisional

Probab=86.17  E-value=59  Score=36.68  Aligned_cols=32  Identities=3%  Similarity=0.030  Sum_probs=18.7

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEG   62 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~   62 (282)
                      ++.+.+.+...|+..+...-.+++.+..+++.
T Consensus        59 ~~~~~~~~~~~~~~~i~~ap~~~~~~~~~l~~   90 (1109)
T PRK10929         59 ERKGSLERAKQYQQVIDNFPKLSAELRQQLNN   90 (1109)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            45555556666666666666666666655554

>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein

Probab=86.11  E-value=38  Score=33.66  Aligned_cols=60  Identities=12%  Similarity=0.277  Sum_probs=32.9

Q ss_pred             HHHHHHhHHHHHHHHHHH------------HHhHHhHHHhhc-cchhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          165 EEEMREKLDEKDREISGF------------KKKVDDLESELG-NCKSEKNSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       165 keelrekl~eke~ei~~L------------k~~~e~L~~~l~-~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      -..+..++.+....+..+            +.++..+..+.. ....+-...+..+...+..+...+..+...
T Consensus       245 i~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~l~~~~~~l~~a~~~l~~~  317 (457)
T TIGR01000       245 IDQLQKSIASYQVQKAGLTKSTASNYASSQNSKLAQLKEQQLAKVKQEITDLNQKLLELESKIKSLKEDSQKG  317 (457)
T ss_pred             HHHHHHHHHHHHHHHhhccCCccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            344445555555555543            455555554443 233333556667777777777777766543

This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.

>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]

Probab=86.10  E-value=53  Score=35.33  Aligned_cols=30  Identities=17%  Similarity=0.202  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +-.++++|+.+...+..+.+.+..++..++
T Consensus       407 ~~QRva~lEkKvqa~~kERDalr~e~kslk  436 (961)
T KOG4673|consen  407 YHQRVATLEKKVQALTKERDALRREQKSLK  436 (961)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            445555555555555555555555555554

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=86.10  E-value=12  Score=33.47  Aligned_cols=78  Identities=26%  Similarity=0.311  Sum_probs=53.0

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVD  187 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e  187 (282)
                      +.......+..+.....+...++..+..++.+|-+|+++...+           .+.++.+..++.........++..+.
T Consensus       108 ~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~-----------~~~ke~~~~ei~~lks~~~~l~~~~~  176 (190)
T PF05266_consen  108 LLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKL-----------KEKKEAKDKEISRLKSEAEALKEEIE  176 (190)
T ss_pred             HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444555556667777888888888888888877766           33556666777777777778887777


Q ss_pred             hHHHhhccc
Q 023459          188 DLESELGNC  196 (282)
Q Consensus       188 ~L~~~l~~~  196 (282)
                      ..+.+.++.
T Consensus       177 ~~e~~F~~~  185 (190)
T PF05266_consen  177 NAELEFQSV  185 (190)
T ss_pred             HHHHHHHHH
Confidence            777666544

>KOG4593 consensus Mitotic checkpoint protein MAD1 [Cell cycle control, cell division, chromosome partitioning]

Probab=85.77  E-value=54  Score=35.06  Aligned_cols=31  Identities=23%  Similarity=0.242  Sum_probs=19.5

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGL  231 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~  231 (282)
                      ++...-+..++.++..++.+++.+.+++..+
T Consensus       271 re~~~tv~~LqeE~e~Lqskl~~~~~l~~~~  301 (716)
T KOG4593|consen  271 RENRETVGLLQEELEGLQSKLGRLEKLQSTL  301 (716)
T ss_pred             HHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445556666666666677777776666554

>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition

Probab=85.56  E-value=2.2  Score=41.72  Aligned_cols=38  Identities=29%  Similarity=0.453  Sum_probs=14.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER  145 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~  145 (282)
                      ++..|+.+++.+.++...+..++..+..+..++.+|+.
T Consensus       149 ~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl~DlEn  186 (370)
T PF02994_consen  149 LEERISELEDRIEEIEQAIKELEKRIKKLEDKLDDLEN  186 (370)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Confidence            33333333333333333333333333333333333333

Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=85.52  E-value=12  Score=31.25  Aligned_cols=41  Identities=20%  Similarity=0.393  Sum_probs=28.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      .+..|......|..++..+...+..+...+..+..-..+++
T Consensus         7 ~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~   47 (140)
T PRK03947          7 ELEELAAQLQALQAQIEALQQQLEELQASINELDTAKETLE   47 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777777777777777777777777777777764444444

>PRK10884 SH3 domain-containing protein; Provisional

Probab=85.48  E-value=11  Score=34.16  Aligned_cols=26  Identities=19%  Similarity=0.319  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIE   59 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~e   59 (282)
                      .+..++..+++++.++++++..+...
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~~~  115 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNIDNT  115 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            35566666666666666666665544

>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this

Probab=85.47  E-value=20  Score=34.98  Aligned_cols=88  Identities=23%  Similarity=0.311  Sum_probs=58.5

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh-
Q 023459          122 LEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK-  200 (282)
Q Consensus       122 lEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~-  200 (282)
                      ..+|.++|+++-++++..-+..-++++++.                  .-.+..-..|+.-+.....|...+..++... 
T Consensus         2 ~~eEW~eL~~efq~Lqethr~Y~qKleel~------------------~lQ~~C~ssI~~QkkrLk~L~~sLk~~~~~~~   63 (330)
T PF07851_consen    2 CEEEWEELQKEFQELQETHRSYKQKLEELS------------------KLQDKCSSSISHQKKRLKELKKSLKRCKKSLS   63 (330)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence            456777777777788887777777777772                  2223334444444555555555555554432 


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                      .+....++.++.+|.+.+..+.+++..
T Consensus        64 ~e~~~~i~~L~~~Ik~r~~~l~DmEa~   90 (330)
T PF07851_consen   64 AEERELIEKLEEDIKERRCQLFDMEAF   90 (330)
T ss_pred             hhHHHHHHHHHHHHHHHHhhHHHHHhh
Confidence            556778888999999999999998853

; GO: 0016021 integral to membrane

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=85.38  E-value=28  Score=32.12  Aligned_cols=51  Identities=16%  Similarity=0.217  Sum_probs=33.4

Q ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       100 e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +++.+|..|..+....-+++..+..||..++..|+..+.........+..+
T Consensus        36 e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~   86 (230)
T PF10146_consen   36 EYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRL   86 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666666777777777777777766666666666655555

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=85.27  E-value=40  Score=34.93  Aligned_cols=41  Identities=15%  Similarity=0.158  Sum_probs=19.6

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+....-.++..+...|..+.++++.+-.....+-..|+.-
T Consensus       226 ~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~  266 (596)
T KOG4360|consen  226 KELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAY  266 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444455555555555555555444444444444

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=85.26  E-value=50  Score=34.24  Aligned_cols=43  Identities=14%  Similarity=0.207  Sum_probs=19.4

Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ++..+..+...+..+..+..-..       .+...+...|.++..++..+
T Consensus       210 tN~q~~s~~eel~~kt~el~~q~-------Ee~skLlsql~d~qkk~k~~  252 (596)
T KOG4360|consen  210 TNTQARSGQEELQSKTKELSRQQ-------EENSKLLSQLVDLQKKIKYL  252 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHhhHHHHHHH
Confidence            34444444444444444444444       44444444444444444444

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

Probab=85.02  E-value=22  Score=31.65  Aligned_cols=100  Identities=25%  Similarity=0.368  Sum_probs=47.4

Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh
Q 023459          121 ELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK  200 (282)
Q Consensus       121 elEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~  200 (282)
                      .....+..|.+++..+...+..|+.++.....    .|.. ...+..+..++.+       |+.+...|..++...... 
T Consensus        66 ~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~----~r~~-~~eR~~~l~~l~~-------l~~~~~~l~~el~~~~~~-  132 (188)
T PF03962_consen   66 KRQNKLEKLQKEIEELEKKIEELEEKIEEAKK----GREE-SEEREELLEELEE-------LKKELKELKKELEKYSEN-  132 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----cccc-cHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhc-
Confidence            33444455555555555555555555555511    1100 1123334444444       444444444444422111 


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDKT  235 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~~  235 (282)
                        --..+..+...+..++..+....-=|..|..-.
T Consensus       133 --Dp~~i~~~~~~~~~~~~~anrwTDNI~~l~~~~  165 (188)
T PF03962_consen  133 --DPEKIEKLKEEIKIAKEAANRWTDNIFSLKSYL  165 (188)
T ss_pred             --CHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence              114556666666666666666655555555433

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

>TIGR02231 conserved hypothetical protein

Probab=85.00  E-value=8.8  Score=38.88  Aligned_cols=45  Identities=24%  Similarity=0.297  Sum_probs=31.4

Q ss_pred             HHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          106 AELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       106 ~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..+..-.+-....+.++...+..++..+..+++++..|+.++..+
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l  171 (525)
T TIGR02231       127 KEWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNAL  171 (525)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            345555555556666666777777777777777777777777777

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=84.75  E-value=58  Score=34.57  Aligned_cols=24  Identities=13%  Similarity=0.004  Sum_probs=16.1

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      .+++++++-.+.-...+.++..++
T Consensus       373 ~~L~R~~~~~~~lY~~lL~r~~e~  396 (726)
T PRK09841        373 LRLSRDVEAGRAVYLQLLNRQQEL  396 (726)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            566666666666666666666666

>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold)

Probab=84.64  E-value=21  Score=29.43  Aligned_cols=50  Identities=16%  Similarity=0.197  Sum_probs=26.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT   93 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~   93 (282)
                      .++.+++.|+..+..++-.+..+..+=+.++.-...|.          .+..+..+.+.+
T Consensus        13 el~n~La~Le~slE~~K~S~~eL~kqkd~L~~~l~~L~----------~q~~s~~qr~~e   62 (107)
T PF09304_consen   13 ELQNRLASLERSLEDEKTSQGELAKQKDQLRNALQSLQ----------AQNASRNQRIAE   62 (107)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHhHHHHHHHHHHHH----------HHHHHHHHHHHH
Confidence            34555555555555555555555555454444433333          666665554444

The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.

>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex

Probab=84.62  E-value=61  Score=34.73  Aligned_cols=34  Identities=18%  Similarity=0.391  Sum_probs=16.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +-.++-.+|..|+.....++..+.++..++....
T Consensus       528 qee~~~kqie~Lee~~~~Lrneles~~eel~~k~  561 (786)
T PF05483_consen  528 QEEKMLKQIENLEETNTQLRNELESVKEELKQKG  561 (786)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555555555444444

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

>PF15294 Leu_zip: Leucine zipper

Probab=84.43  E-value=39  Score=32.27  Aligned_cols=142  Identities=23%  Similarity=0.378  Sum_probs=77.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH------H---Hhhhhcccchh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH------D---LVTSMSEGDEL  101 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~------d---l~~~~s~~~e~  101 (282)
                      -..-|..+|..|..++..+++.+..++..-...-.+...|+          ..+..++.      .   +.......-.+
T Consensus       126 ~~~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~----------~~L~~lq~~~~~~~~k~~~~~~~q~l~dL  195 (278)
T PF15294_consen  126 GSELLNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLE----------AQLKELQDEQGDQKGKKDLSFKAQDLSDL  195 (278)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHhhhccccccccccchhhH
Confidence            35668899999999999999999999988887777777777          66666665      1   12222233334


Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISG  181 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~  181 (282)
                      ...|..++..++.-   ..........|+.....+-+.+-.+...+..-+ ++++.+=---..=-.|+.-+..+..+|++
T Consensus       196 E~k~a~lK~e~ek~---~~d~~~~~k~L~e~L~~~KhelL~~QeqL~~ae-keLekKfqqT~ay~NMk~~ltkKn~QiKe  271 (278)
T PF15294_consen  196 ENKMAALKSELEKA---LQDKESQQKALEETLQSCKHELLRVQEQLSLAE-KELEKKFQQTAAYRNMKEILTKKNEQIKE  271 (278)
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhcchhhhcch-hhHHHHhCccHHHHHhHHHHHhccHHHHH
Confidence            44555555443322   333333444444444444444433333322220 11110000011223566666666666666


Q ss_pred             HHHhH
Q 023459          182 FKKKV  186 (282)
Q Consensus       182 Lk~~~  186 (282)
                      |++..
T Consensus       272 LRkrl  276 (278)
T PF15294_consen  272 LRKRL  276 (278)
T ss_pred             HHHHh
Confidence            66543

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=84.41  E-value=42  Score=32.97  Aligned_cols=28  Identities=14%  Similarity=0.270  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459          205 KTVKEMDERILLWQKEIEEAEKVIAGLK  232 (282)
Q Consensus       205 ~~~~~~e~~I~~l~~e~~e~~~~~~~~~  232 (282)
                      .++..+...|..|++++++|.-=|+-|.
T Consensus       328 sPlv~IKqAl~kLk~EI~qMdvrIGVle  355 (359)
T PF10498_consen  328 SPLVKIKQALTKLKQEIKQMDVRIGVLE  355 (359)
T ss_pred             CHHHHHHHHHHHHHHHHHHhhhhhheeh
Confidence            7788899999999999999977666543

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure

Probab=84.27  E-value=51  Score=33.57  Aligned_cols=34  Identities=24%  Similarity=0.511  Sum_probs=20.2

Q ss_pred             HHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhh
Q 023459          166 EEMREKLDEKDREISGFKKKVDDLESELGNCKSE  199 (282)
Q Consensus       166 eelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e  199 (282)
                      +.|+.+.+....+|..|+.++..|..++++++..
T Consensus       277 ~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e~~  310 (511)
T PF09787_consen  277 EELKQERDHLQEEIQLLERQIEQLRAELQDLEAQ  310 (511)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555666666666666666666666666555544

They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=84.17  E-value=34  Score=31.48  Aligned_cols=122  Identities=16%  Similarity=0.219  Sum_probs=84.6

Q ss_pred             cccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023459           18 EDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSE   97 (282)
Q Consensus        18 ~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~   97 (282)
                      ..|+-+.....  .+..+...+..+...+...+..+..++.++..+..+...|.          .++.....+-......
T Consensus        14 ~~~~~~~~l~~--~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~----------~k~~~~~~~~~~l~~~   81 (264)
T PF06008_consen   14 GAWPAPYKLLS--SIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQ----------EKATKVSRKAQQLNNN   81 (264)
T ss_pred             hhhhhHHHHHH--HHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHH
Confidence            34555555555  67778888888888888888888888888888877776666          6666655555555555


Q ss_pred             cchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHH-----HHHHHHHHHHHHHHHhhHHH
Q 023459           98 GDELGAEVAELKRVLGEKGVKLEELEREVDGLKK-----EKVESEKKVRELERNVGLLE  151 (282)
Q Consensus        98 ~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~-----e~~~~ek~i~~LE~kl~ele  151 (282)
                      .+.+......|...|......|..+...+..+-.     .-..+...+++-+..+.++.
T Consensus        82 t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr  140 (264)
T PF06008_consen   82 TERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMR  140 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHH
Confidence            5556666666777777777777777777776666     55666666777776666663

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]

Probab=84.07  E-value=48  Score=35.31  Aligned_cols=29  Identities=17%  Similarity=0.274  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEG   62 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~   62 (282)
                      ++...+..+..++..+.+.+......+..
T Consensus       179 ~~~~~~~~~~~~l~~v~~~~~~~~~~l~~  207 (670)
T KOG0239|consen  179 KLESDLGDLVTELEHVTNSISELESVLKS  207 (670)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            34444444444444444444444444443

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=83.88  E-value=35  Score=31.27  Aligned_cols=43  Identities=19%  Similarity=0.277  Sum_probs=17.5

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +..+|..+..+++.++.....++.-+...+..+..|++++..+
T Consensus        54 L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~   96 (251)
T PF11932_consen   54 LLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQI   96 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444444444444444444433

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]

Probab=83.78  E-value=55  Score=33.50  Aligned_cols=94  Identities=17%  Similarity=0.137  Sum_probs=63.9

Q ss_pred             HHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHH
Q 023459           55 KLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKV  134 (282)
Q Consensus        55 ~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~  134 (282)
                      ....+|+.++...+-.. |-.|.++|-.-..+-+-- ++......-.+.+..+++-+..--...++.+...+-.|+..+.
T Consensus       263 ~~kKe~de~k~~~~l~~-~l~~keeL~~s~~~e~~i-~qs~~kstas~~E~ee~rve~~~s~ed~~~~q~q~~~Lrs~~~  340 (554)
T KOG4677|consen  263 HFKKEIDEQKLLLDLFR-FLDRKEELALSHYREHLI-IQSPDKSTASRKEFEETRVELPFSAEDSAHIQDQYTLLRSQII  340 (554)
T ss_pred             HHHHHHHHHHHHHHHHH-HhhhHHHHHHHHHHHhhc-cCCCCcchhHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHH
Confidence            33445566554443322 667777776555554433 3333333445777788888888888888899999999999999


Q ss_pred             HHHHHHHHHHHHhhHH
Q 023459          135 ESEKKVRELERNVGLL  150 (282)
Q Consensus       135 ~~ek~i~~LE~kl~el  150 (282)
                      .++-++++|+......
T Consensus       341 d~EAq~r~l~s~~~~q  356 (554)
T KOG4677|consen  341 DIEAQDRHLESAGQTQ  356 (554)
T ss_pred             HHHHHHHhHHHHhHHH
Confidence            8888888888877766

>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=83.76  E-value=15  Score=35.44  Aligned_cols=22  Identities=9%  Similarity=-0.094  Sum_probs=14.5

Q ss_pred             ccccchhhHHHHhhhHhhhhhh
Q 023459          257 SRLNWQLPLAAVTAAAVVCVCY  278 (282)
Q Consensus       257 ~~~~~~~~~~~~~~~a~~~~~~  278 (282)
                      +.|.-.+|+|-.+..|||+++.
T Consensus       110 ks~~~PP~~V~~V~~aV~iLl~  131 (344)
T PF12777_consen  110 KSYANPPEAVKLVMEAVCILLG  131 (344)
T ss_dssp             HHSSS--HHHHHHHHHHHHHTT
T ss_pred             HhhCCCcHHHHHHHHHHhhHHh
Confidence            5665566677778888888764

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.

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

Probab=83.58  E-value=62  Score=34.94  Aligned_cols=15  Identities=27%  Similarity=0.519  Sum_probs=9.1

Q ss_pred             hhhchHHHHHHhHHH
Q 023459          160 KRVRVEEEMREKLDE  174 (282)
Q Consensus       160 ~~gg~keelrekl~e  174 (282)
                      +-..++++++.++.+
T Consensus       555 ~a~~Lk~ei~kki~e  569 (762)
T PLN03229        555 KAEKLKAEINKKFKE  569 (762)
T ss_pred             hhhhhhHHHHHHHHH
Confidence            445566666666665

>TIGR00634 recN DNA repair protein RecN

Probab=83.40  E-value=58  Score=33.46  Aligned_cols=44  Identities=11%  Similarity=0.177  Sum_probs=19.8

Q ss_pred             HHHHhHHhHHHhhccchhhh---hhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          181 GFKKKVDDLESELGNCKSEK---NSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       181 ~Lk~~~e~L~~~l~~~k~e~---~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      ++-...+.+..++..+.+..   ..++.++..+...+..+-.++...
T Consensus       326 ~l~~~~~~l~~eL~~l~~~~~~le~L~~el~~l~~~l~~~a~~Ls~~  372 (563)
T TIGR00634       326 EVLEYAEKIKEELDQLDDSDESLEALEEEVDKLEEELDKAAVALSLI  372 (563)
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444443332   444444444444444444444444

All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.

>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins

Probab=83.36  E-value=0.36  Score=50.88  Aligned_cols=34  Identities=18%  Similarity=0.283  Sum_probs=0.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc
Q 023459          201 NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK  234 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~~  234 (282)
                      ++...-+.-++.+...|+.++..++.+-.-|.+-
T Consensus       277 r~~~~n~elLeEe~~sLq~kl~~~E~~~~el~~l  310 (722)
T PF05557_consen  277 RQSQENVELLEEEKRSLQRKLERLEELEEELAEL  310 (722)
T ss_dssp             ----------------------------------
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555566666666666666655555543

The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=83.21  E-value=27  Score=32.72  Aligned_cols=58  Identities=29%  Similarity=0.338  Sum_probs=33.1

Q ss_pred             hhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           93 TSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        93 ~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++.+|-.++..+..++..+++...+-+++-++...++.+..+++.+++.|+...+-|
T Consensus       125 ~~v~~~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~L  182 (290)
T COG4026         125 QRVPEYMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRL  182 (290)
T ss_pred             hccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555556666666666655556655666666665555555555555544444

>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea

Probab=82.52  E-value=23  Score=28.21  Aligned_cols=32  Identities=19%  Similarity=0.210  Sum_probs=13.9

Q ss_pred             hhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 023459          113 GEKGVKLEELEREVDGLKKEKVESEKKVRELE  144 (282)
Q Consensus       113 ee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE  144 (282)
                      ......+..+...+..++..+.+++.-+.+|+
T Consensus         9 q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~   40 (105)
T cd00632           9 QQLQQQLQAYIVQRQKVEAQLNENKKALEELE   40 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333344444444444444444444444444

Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=82.51  E-value=41  Score=31.10  Aligned_cols=44  Identities=23%  Similarity=0.379  Sum_probs=21.0

Q ss_pred             HhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          184 KKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       184 ~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                      ..++.|+..+...+++...+...+..+...+.-|+.+++++.+-
T Consensus        60 ~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   60 QDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333334444555555556666666665443

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]

Probab=82.12  E-value=29  Score=29.12  Aligned_cols=38  Identities=24%  Similarity=0.211  Sum_probs=18.5

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELE  144 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE  144 (282)
                      ..-..+..+.+.+..+.-....++..++++++-+.+|+
T Consensus        10 ~~l~q~QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele   47 (119)
T COG1382          10 AQLAQLQQLQQQLQKVILQKQQLEAQLKEIEKALEELE   47 (119)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33444444444555544455555555555555444444

>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly

Probab=81.79  E-value=4.7  Score=32.51  Aligned_cols=31  Identities=16%  Similarity=0.365  Sum_probs=16.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 023459           35 LTKKVESLELENKEMKGTIKKLTIEIEGSEE   65 (282)
Q Consensus        35 L~~eI~~LE~Ei~elkekI~~le~eIe~lr~   65 (282)
                      |......|..+++.+...+..+...+..+..
T Consensus         4 l~~~~~~l~~~i~~l~~~~~~l~~~~~e~~~   34 (129)
T cd00890           4 LAAQLQQLQQQLEALQQQLQKLEAQLTEYEK   34 (129)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555555555543

The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.

>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]

Probab=81.74  E-value=28  Score=28.75  Aligned_cols=44  Identities=30%  Similarity=0.360  Sum_probs=39.3

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...+.+..+..+....+..|+.|++.+..+++.+.+-|+.|+++
T Consensus        64 dk~a~~s~leak~k~see~IeaLqkkK~YlEk~v~eaE~nLrel  107 (114)
T KOG3501|consen   64 DKAAVRSHLEAKMKSSEEKIEALQKKKTYLEKTVSEAEQNLREL  107 (114)
T ss_pred             cHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35667778888888999999999999999999999999999998

>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP

Probab=81.42  E-value=11  Score=27.56  Aligned_cols=35  Identities=11%  Similarity=0.334  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      .+|..|..++..+..++..+...|..++++..++.
T Consensus         3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak   37 (56)
T PF04728_consen    3 AKIDQLSSDVQTLNSKVDQLSSDVNALRADVQAAK   37 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555666666666666666666666555555

The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.

>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal

Probab=81.29  E-value=27  Score=28.15  Aligned_cols=39  Identities=23%  Similarity=0.406  Sum_probs=18.9

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHH
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRE  142 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~  142 (282)
                      -+..|+..++..+..|..+++.+..++..+.+++..+..
T Consensus        68 ~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~  106 (110)
T TIGR02338        68 AIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQE  106 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444555555555555555555555544443

Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=81.11  E-value=40  Score=30.02  Aligned_cols=44  Identities=27%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+...+..+...+..+...+..|+..+..++.+|.++..+...+
T Consensus        95 ~~e~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~k~k~~~l  138 (221)
T PF04012_consen   95 DLEEQAERLEQQLDQAEAQVEKLKEQLEELEAKLEELKSKREEL  138 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444445555555555555555444444

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=80.86  E-value=68  Score=34.19  Aligned_cols=124  Identities=20%  Similarity=0.221  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHH---HHHHHHHHHHHHhhHHHHHHHH
Q 023459           80 LEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKV---ESEKKVRELERNVGLLEVREME  156 (282)
Q Consensus        80 L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~---~~ek~i~~LE~kl~ele~~~~~  156 (282)
                      |++.....+..+++      ++...++.|...|...++++..+-..+...-.-..   .-+..|.+....|..       
T Consensus        44 le~e~~~~y~~kve------~a~~~~~~L~~~ia~~eael~~l~s~l~~~~~~~~~~~k~e~tLke~l~~l~~-------  110 (660)
T KOG4302|consen   44 LEQECLEIYKRKVE------EASESKARLLQEIAVIEAELNDLCSALGEPSIIGEISDKIEGTLKEQLESLKP-------  110 (660)
T ss_pred             HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccccccccccCccHHHHHHHHHH-------
Confidence            44555555554443      44555666666666666666666655554433333   222233333333333       


Q ss_pred             HhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhh-------hh-hHHHHHHHHHHHHHHHHHHHH
Q 023459          157 EKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEK-------NS-AEKTVKEMDERILLWQKEIEE  223 (282)
Q Consensus       157 ~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~-------~~-~e~~~~~~e~~I~~l~~e~~e  223 (282)
                             .-+.|+.+.++...++.++..++..|-..+..-.+.+       .. +.+++.++...|.+|+++...
T Consensus       111 -------~le~lr~qk~eR~~ef~el~~qie~l~~~l~g~~~~~~~~~~D~~dlsl~kLeelr~~L~~L~~ek~~  178 (660)
T KOG4302|consen  111 -------YLEGLRKQKDERRAEFKELYHQIEKLCEELGGPEDLPSFLIADESDLSLEKLEELREHLNELQKEKSD  178 (660)
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCcccccCcccccHHHHHHHHHHHHHHHHHHHH
Confidence                   3378889999999999999999999999998763332       22 226667777777777666543

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=80.82  E-value=69  Score=34.58  Aligned_cols=43  Identities=26%  Similarity=0.234  Sum_probs=21.3

Q ss_pred             HHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          108 LKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       108 LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +..-|+.+.....+++.....++....+++.....++.+...+
T Consensus       518 ~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l  560 (782)
T PRK00409        518 LNELIASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKL  560 (782)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444455555555555555555555555554

>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea

Probab=80.62  E-value=24  Score=27.27  Aligned_cols=42  Identities=31%  Similarity=0.449  Sum_probs=27.4

Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...+..++..++.++.+|..|+.....+++++.+++..+..+
T Consensus        61 ~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~  102 (106)
T PF01920_consen   61 EEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYEL  102 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666667777777777777777777666554

Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.

>PF15294 Leu_zip: Leucine zipper

Probab=80.38  E-value=55  Score=31.24  Aligned_cols=44  Identities=23%  Similarity=0.335  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER  145 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~  145 (282)
                      ..++..|..+-+.+++.+..++..-...=.+...++.+|.+|.-
T Consensus       131 ~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  131 NKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444555555555555555555555555555555554

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=80.14  E-value=3.3  Score=40.23  Aligned_cols=52  Identities=21%  Similarity=0.279  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459          172 LDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAG  230 (282)
Q Consensus       172 l~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~  230 (282)
                      +....-.|..|...+..+...+.++|.       .|-.+.-.|.+|+.++..++.-+..
T Consensus       107 ls~h~ssIS~Lqs~v~~lsTdvsNLks-------dVSt~aL~ItdLe~RV~~LEs~~s~  158 (326)
T PF04582_consen  107 LSDHSSSISDLQSSVSALSTDVSNLKS-------DVSTQALNITDLESRVKALESGSSS  158 (326)
T ss_dssp             -----------HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHTTTTT
T ss_pred             hhhhhhhHHHHHHhhhhhhhhhhhhhh-------hhhhhcchHhhHHHHHHHHhcCCCC
Confidence            333344444444444444444443333       3556667777777777777765543

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

>TIGR02231 conserved hypothetical protein

Probab=80.12  E-value=20  Score=36.29  Aligned_cols=44  Identities=16%  Similarity=0.257  Sum_probs=21.3

Q ss_pred             ccccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023459           17 TEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEI   60 (282)
Q Consensus        17 ~~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eI   60 (282)
                      +..|.+......+..+..|+.+|..++.++..+.+++..++..+
T Consensus        58 v~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~  101 (525)
T TIGR02231        58 VSTWRERTSRPDPERLAELRKQIRELEAELRDLEDRGDALKALA  101 (525)
T ss_pred             EEEeecCCCcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444443333333555555555555555555555444444444

This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=80.03  E-value=11  Score=35.11  Aligned_cols=51  Identities=29%  Similarity=0.293  Sum_probs=20.2

Q ss_pred             hhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          100 ELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       100 e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +.++.+..+-.+.+++..+.++++.+.+.+..+++.++...+.|+.++..+
T Consensus       139 e~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l  189 (290)
T COG4026         139 ELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKL  189 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333333333333333333333444444444444444444444444444333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	282
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-16
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-12
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-11
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-10
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-08
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-11
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	3e-08
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	4e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	2e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 81.0 bits (200), Expect = 3e-17
 Identities = 48/214 (22%), Positives = 97/214 (45%), Gaps = 13/214 (6%)

Query: 30   NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH 89
             ++ E     + L+LE     G IKK+  +I   E+    L       + LE  VS L  
Sbjct: 962  EQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLT---KERKLLEERVSDLTT 1018

Query: 90   DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL 149
            +L     +   L     + + ++ E  V+L++ E+    L+K K + E +  +L   +  
Sbjct: 1019 NLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAE 1078

Query: 150  LEVREMEEKSKRVRVEEE---MREKLDEKDREISGFKKK-------VDDLESELGNCKSE 199
            L+ +  E K++  + EEE      +L+++  + +   KK       + DL+ +L + K+ 
Sbjct: 1079 LQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAA 1138

Query: 200  KNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD 233
            +N AEK  +++ E +   + E+E+     A  ++
Sbjct: 1139 RNKAEKQKRDLSEELEALKTELEDTLDTTATQQE 1172

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 77.6 bits (191), Expect = 3e-16
 Identities = 37/209 (17%), Positives = 95/209 (45%), Gaps = 8/209 (3%)

Query: 30   NKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEE----LEIEVS 85
              + E+  ++E  E  +++++   KK+  ++   EE     E+   + +      + ++ 
Sbjct: 927  EILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIK 986

Query: 86   RLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELER 145
            +++ D++    + ++L  E   L+  + +    L E E +   L K K + E  + ELE 
Sbjct: 987  KMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEV 1046

Query: 146  NVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEK 205
             +   E    E +  + ++E E  +  +    +I+  + ++ +L+++L   + E  +A  
Sbjct: 1047 RLKKEEKSRQELEKIKRKLEGESSDLHE----QIAELQAQIAELKAQLAKKEEELQAALA 1102

Query: 206  TVKEMDERILLWQKEIEEAEKVIAGLKDK 234
             +++   +     K+I E E  I+ L++ 
Sbjct: 1103 RLEDETSQKNNALKKIRELESHISDLQED 1131

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 67.2 bits (164), Expect = 1e-12
 Identities = 46/220 (20%), Positives = 100/220 (45%), Gaps = 13/220 (5%)

Query: 25   QDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEV 84
            Q  +  ++ EL +K   L  E   ++   +KL  E E   E + +   +AA+ +ELE  +
Sbjct: 873  QQKAEAELKELEQKHTQLCEEKNLLQ---EKLQAETELYAEAEEMRVRLAAKKQELEEIL 929

Query: 85   SRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELE 144
              ++  +        +L AE  ++++ + +   +LEE E     L+ EKV ++ K++++E
Sbjct: 930  HEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKME 989

Query: 145  RNVGLL---------EVREMEEKSKRVRVE-EEMREKLDEKDREISGFKKKVDDLESELG 194
             ++ ++         E + +EE+   +     E  EK     +  +  +  + +LE  L 
Sbjct: 990  DDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLK 1049

Query: 195  NCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
              +  +   EK  ++++       ++I E +  IA LK +
Sbjct: 1050 KEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQ 1089

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 62.9 bits (153), Expect = 2e-11
 Identities = 34/205 (16%), Positives = 83/205 (40%), Gaps = 13/205 (6%)

Query: 31   KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHD 90
            ++    ++++  +   ++ +  +K+L  +     E+K +L+       EL  E   ++  
Sbjct: 858  EMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAEEMR-- 915

Query: 91   LVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL 150
                      L A+  EL+ +L E   ++EE E     L+ EK + ++++ +LE  +   
Sbjct: 916  --------VRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEE 967

Query: 151  E---VREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTV 207
            E    +   EK       ++M + +   + + +   K+   LE  + +  +     E+  
Sbjct: 968  EAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKA 1027

Query: 208  KEMDERILLWQKEIEEAEKVIAGLK 232
            K + +     +  I E E  +   +
Sbjct: 1028 KNLTKLKNKHESMISELEVRLKKEE 1052

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 59.8 bits (145), Expect = 3e-10
 Identities = 30/159 (18%), Positives = 73/159 (45%), Gaps = 12/159 (7%)

Query: 31   KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE-----------SVAARAEE 79
            K   LTK     E    E++  +KK     +  E+ KR LE            + A+  E
Sbjct: 1026 KAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAE 1085

Query: 80   LEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKK 139
            L+ ++++ + +L  +++  ++  ++     + + E    + +L+ +++  K  + ++EK+
Sbjct: 1086 LKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQ 1145

Query: 140  VRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDRE 178
             R+L   +  L+  E+E+       ++E+R    + D +
Sbjct: 1146 KRDLSEELEALK-TELEDTLDTTATQQELRGSDYKDDDD 1183

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 56.0 bits (135), Expect = 5e-09
 Identities = 30/168 (17%), Positives = 74/168 (44%), Gaps = 18/168 (10%)

Query: 67   KRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREV 126
               L+    R ++ E E+  L+           +L  E   L+  L  +     E E   
Sbjct: 863  DEELQRTKERQQKAEAELKELEQKHT-------QLCEEKNLLQEKLQAETELYAEAEEMR 915

Query: 127  DGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKV 186
              L  +K E E+ + E+E  +      E EE+       ++++ +  +  +++   ++++
Sbjct: 916  VRLAAKKQELEEILHEMEARI------EEEEERS-----QQLQAEKKKMQQQMLDLEEQL 964

Query: 187  DDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
            ++ E+     + EK +A+  +K+M++ IL+ + +  +  K    L+++
Sbjct: 965  EEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEER 1012

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 52.5 bits (126), Expect = 7e-08
 Identities = 36/183 (19%), Positives = 81/183 (44%), Gaps = 17/183 (9%)

Query: 31   KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHD 90
             + E  +K ++L     + +  I +L + ++  E+ ++ LE       +LE E S L   
Sbjct: 1019 NLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEK---IKRKLEGESSDLHEQ 1075

Query: 91   LVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL 150
            +    ++  EL A++A+ +  L     +LE+   + +   K+  E E  + +L+ ++   
Sbjct: 1076 IAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLE-- 1133

Query: 151  EVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEM 210
                  EK+ R + E++ R+ L E+   +        +LE  L    +++       K+ 
Sbjct: 1134 -----SEKAARNKAEKQKRD-LSEELEALK------TELEDTLDTTATQQELRGSDYKDD 1181

Query: 211  DER 213
            D++
Sbjct: 1182 DDK 1184

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 62.8 bits (153), Expect = 3e-11
 Identities = 37/236 (15%), Positives = 87/236 (36%), Gaps = 21/236 (8%)

Query: 29   NNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAE--ELEIEVSR 86
             +K   + K V          +    K  + ++             A+ E  +L+IE   
Sbjct: 864  EHKSIIIQKHVRGWLARVHYHR--TLKAIVYLQCCYRRMM------AKRELKKLKIEARS 915

Query: 87   LQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERN 146
            ++            L  ++ +L+R + E+  + + L  +++ L+       +K+R     
Sbjct: 916  VERY----KKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVER 971

Query: 147  VGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKT 206
            + + E    EE          ++E++ +  +E+   + +   +E         K+  E+ 
Sbjct: 972  LRMSE----EEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWA---DKYKHETEQL 1024

Query: 207  VKEMDERILLWQKEIEEAEKVIAGLKDKTLDGVNGTARDVKLNGDGEEEDSRLNWQ 262
            V E+ E+  L + E EE  + I     +  + +     +     + +  D RL +Q
Sbjct: 1025 VSELKEQNTLLKTEKEELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERLRYQ 1080

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 53.8 bits (129), Expect = 3e-08
 Identities = 23/158 (14%), Positives = 70/158 (44%), Gaps = 1/158 (0%)

Query: 77   AEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVES 136
              E   ++   Q  L   + +  +  A+V +L+  L +K  +L+    + +   K ++  
Sbjct: 1908 INEKRDQLEEEQLHLNIGLKKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLK-QMVQ 1966

Query: 137  EKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNC 196
            +++  E+++        +++ ++K + V++       EK       +++V+ LE+     
Sbjct: 1967 DQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEPTGPLREEVEQLENAANEL 2026

Query: 197  KSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKDK 234
            K +++    T+  +++ I  +++E     +    +K +
Sbjct: 2027 KLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTE 2064

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C* Length = 3245

 Score = 50.3 bits (120), Expect = 4e-07
 Identities = 34/181 (18%), Positives = 73/181 (40%), Gaps = 22/181 (12%)

Query: 34   ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT 93
             L +K   L+++N++    +K++  + + +E  ++    +  + +    E++  +     
Sbjct: 1942 SLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVK--- 1998

Query: 94   SMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVR 153
              +  D   AE     R       ++E+LE   + LK ++ E    +  LE+++      
Sbjct: 1999 --AYADLEKAEPTGPLRE------EVEQLENAANELKLKQDEIVATITALEKSIATY--- 2047

Query: 154  EMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDER 213
              EE          +RE    K    S  K KVD   + L N  SE+   E+  +  + +
Sbjct: 2048 -KEE------YATLIRETEQIKTE-SSKVKNKVDRSIALLDNLNSERGRWEQQSENFNTQ 2099

Query: 214  I 214
            +
Sbjct: 2100 M 2100

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

 Score = 49.1 bits (116), Expect = 1e-06
 Identities = 41/306 (13%), Positives = 90/306 (29%), Gaps = 82/306 (26%)

Query: 1   MAES--TAVAINGVDDQTTEDFFDPDQ-----DGSNNKVTELTKKVESL----ELENKEM 49
           +  S  T VA++       +      +       + N    + + ++ L    +      
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKM-DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216

Query: 50  KGTIKKLTIEIEGSEEDKRILESVAARAEELEI--EVSRLQH----D-----LVTSMSEG 98
                 + + I   + + R L         L +   V   +     +     L+T+    
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF-- 274

Query: 99  DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVES------EKKVRELERNVGLLEV 152
                +V +    L         L+     L  ++V+S      + + ++L R       
Sbjct: 275 ----KQVTD---FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR------- 320

Query: 153 REMEEKSKRV--RVEEEMREKLDEKDREISGFKK-KVDDLESELGNCKSEKNSAEKTVKE 209
            E+   + R    + E +R+ L   D     +K    D L + + +  +    AE   ++
Sbjct: 321 -EVLTTNPRRLSIIAESIRDGLATWDN----WKHVNCDKLTTIIESSLNVLEPAE--YRK 373

Query: 210 M---------DERI------LLWQKEI-EEAEKVIAGLKDKTLDGVNGTARDVKLNGDGE 253
           M            I      L+W   I  +   V+  L   +L           +    +
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL-----------VEKQPK 422

Query: 254 EEDSRL 259
           E    +
Sbjct: 423 ESTISI 428

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 22/162 (13%), Positives = 50/162 (30%), Gaps = 12/162 (7%)

Query: 37   KKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDL----- 91
              V    L   E+  T   L    +   E  RI      +   L  + +R+   L     
Sbjct: 844  PFVAPAGLTPNEIDSTWSALEKAEQEHAEALRIELKRQKKIAVLLQKYNRILKKLENWAT 903

Query: 92   -VTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL 150
              +     +E G  +  ++  L      LE  + E   L+ +       +      +   
Sbjct: 904  TKSVYLGSNETGDSITAVQAKLKN----LEAFDGECQSLEGQSNSDLLSILAQLTELNYN 959

Query: 151  EVREMEEKSKRVRVEE--EMREKLDEKDREISGFKKKVDDLE 190
             V E+ E+      ++   ++   +     +    +++  +E
Sbjct: 960  GVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELERLQKIE 1001

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	282
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	98.53
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	98.13
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	98.01
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	97.97
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	97.87
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.24
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	97.12
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.92
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	96.54
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.51
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	96.47
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.41
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	96.4
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	96.34
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	96.26
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	95.55
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	95.5
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	95.4
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	95.39
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	95.16
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	94.99
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	94.94
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	94.93
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	94.83
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	94.81
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	94.69
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	94.56
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	94.35
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	93.39
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	92.91
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	92.87
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	92.46
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	92.05
2v66_B	111	Nuclear distribution protein NUDE-like 1; structur	91.72
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	91.55
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	90.09
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	89.75
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	89.69
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	89.58
3cve_A	72	Homer protein homolog 1; coiled coil, alternative	89.21
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	89.17
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	89.13
3swk_A	86	Vimentin; cytoskeleton, intermediate filament, alp	89.01
3l4q_C	170	Phosphatidylinositol 3-kinase regulatory subunit b	88.02
3cvf_A	79	Homer-3, homer protein homolog 3; coiled coil, alt	87.96
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	87.95
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	86.56
2v4h_A	110	NF-kappa-B essential modulator; transcription, met	86.53
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	86.07
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	85.17
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	84.11
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	84.05
3bas_A	89	Myosin heavy chain, striated muscle/general contro	84.03
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	82.7
2zqm_A	117	Prefoldin beta subunit 1; chaperone; HET: CIT; 1.9	81.82
1go4_E	100	MAD1 (mitotic arrest deficient)-like 1; mitotic sp	81.49
2lw1_A	89	ABC transporter ATP-binding protein UUP; ABC REG s	81.36
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	81.04
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	80.94
3iv1_A	78	Tumor susceptibility gene 101 protein; coiled_COIL	80.83
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	80.37
1fxk_A	107	Prefoldin; archaeal protein, chaperone; 2.30A {Met	80.22

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=98.53  E-value=8e-05  Score=63.64  Aligned_cols=57  Identities=23%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             HHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 023459           90 DLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERN  146 (282)
Q Consensus        90 dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~k  146 (282)
                      .+.........+...+..+...+......+..+...+..+...+..+...+..+...
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  126 (284)
T 1c1g_A           70 KLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESERG  126 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333444444444444444444444444444443333333333333

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

Probab=98.13  E-value=0.0002  Score=64.59  Aligned_cols=10  Identities=0%  Similarity=-0.114  Sum_probs=4.7

Q ss_pred             cccchhhHHH
Q 023459          258 RLNWQLPLAA  267 (282)
Q Consensus       258 ~~~~~~~~~~  267 (282)
                      .+.+.+-.++
T Consensus       205 ~~~lppq~~~  214 (256)
T 3na7_A          205 FIRLNDKIYT  214 (256)
T ss_dssp             CCBCCHHHHH
T ss_pred             CeeeCHHHHH
Confidence            3445444444

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=98.01  E-value=1.2e-05  Score=86.38  Aligned_cols=33  Identities=6%  Similarity=0.136  Sum_probs=14.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGS   63 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~l   63 (282)
                      .+..++.++..+...+..+...+..++..+..+
T Consensus       858 El~~L~~eL~el~~~L~~le~~l~ele~~l~~L  890 (1184)
T 1i84_S          858 EMQAKDEELQRTKERQQKAEAELKELEQKHTQL  890 (1184)
T ss_dssp             HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445444444444444444444333333

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

Probab=97.97  E-value=0.00059  Score=61.50  Aligned_cols=34  Identities=9%  Similarity=0.029  Sum_probs=13.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      ++.+|...+..+-.++..+...+..+...+..+.
T Consensus        19 ~i~~l~~~~~~lp~el~~le~~~~~l~~~~~~~~   52 (256)
T 3na7_A           19 EIDSLEPLIREKRKDLDKALNDKEAKNKAILNLE   52 (256)
T ss_dssp             HHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444443333333333333333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=97.87  E-value=2.6e-05  Score=83.84  Aligned_cols=28  Identities=18%  Similarity=0.213  Sum_probs=12.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +++..+..++..++..+..++..+..++
T Consensus       857 ~El~~L~~eL~el~~~L~~le~~l~ele  884 (1184)
T 1i84_S          857 EEMQAKDEELQRTKERQQKAEAELKELE  884 (1184)
T ss_dssp             HHCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.24  E-value=0.046  Score=47.81  Aligned_cols=105  Identities=19%  Similarity=0.192  Sum_probs=62.8

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      ....+..+...++.+.++....-+.++.+++.--      +....|...|...+.++..++.+-.+.       +....+
T Consensus        18 ~~~~~~q~~~~le~El~EFqesSrELE~ELE~eL------~~~Ek~~~~L~~~~~~L~~E~e~~k~K-------~~~~~~   84 (189)
T 2v71_A           18 LSMKYKQSFQEARDELVEFQEGSRELEAELEAQL------VQAEQRNRDLQADNQRLKYEVEALKEK-------LEHQYA   84 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH
Confidence            6677778888888888888888777777766322      333455556666666665554443222       222222


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      .   ....+..++++|..|......+...|++||+.-..+|
T Consensus        85 e---~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq~NDdlE  122 (189)
T 2v71_A           85 Q---SYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLE  122 (189)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            1   1223566666666666666666666666666666663

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=97.12  E-value=0.036  Score=48.44  Aligned_cols=72  Identities=21%  Similarity=0.224  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459           78 EELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus        78 ~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ++|+.++..+.....+-.+....+..+...++..+....   .+....|..|+.++..+......|..+|..||+
T Consensus        45 ~ELE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~---~e~~~~~~~Lq~el~~l~~~~~~l~~~ireLEq  116 (189)
T 2v71_A           45 AELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQY---AQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQ  116 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456666666665444444443444444444444333222   222334777777777777777777777777765

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

Probab=96.92  E-value=0.014  Score=62.57  Aligned_cols=74  Identities=14%  Similarity=0.216  Sum_probs=40.7

Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHh
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDD  188 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~  188 (282)
                      ..+....++.+..++.+++.++..+..+.+....++++...+              +++|.+++..++.++..|+.++++
T Consensus       976 ~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~--------------~~~L~~kv~~L~~e~~~L~qq~~~ 1041 (1080)
T 2dfs_A          976 EEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKY--------------KHETEQLVSELKEQNTLLKTEKEE 1041 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334444444444444444444444444444444444333              356667777777777777777777


Q ss_pred             HHHhhccc
Q 023459          189 LESELGNC  196 (282)
Q Consensus       189 L~~~l~~~  196 (282)
                      |+..+...
T Consensus      1042 l~~~~~~~ 1049 (1080)
T 2dfs_A         1042 LNRRIHDQ 1049 (1080)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77555543

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

Probab=96.54  E-value=0.054  Score=58.12  Aligned_cols=69  Identities=17%  Similarity=0.196  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISG  181 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~  181 (282)
                      ...+..+..+++.++..+.++.++...++.....+.   .+|+.++..|+           .....|++++++++..+.+
T Consensus       983 ~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~---~~L~~kv~~L~-----------~e~~~L~qq~~~l~~~~~~ 1048 (1080)
T 2dfs_A          983 TNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK---HETEQLVSELK-----------EQNTLLKTEKEELNRRIHD 1048 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444443333333   23334444441           1345556666666655555


Q ss_pred             HHH
Q 023459          182 FKK  184 (282)
Q Consensus       182 Lk~  184 (282)
                      ..+
T Consensus      1049 ~~~ 1051 (1080)
T 2dfs_A         1049 QAK 1051 (1080)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.51  E-value=0.31  Score=57.69  Aligned_cols=60  Identities=10%  Similarity=0.179  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          174 EKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       174 eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      .....+...+.++..+...++.++++...+..+...++.++...+.++..+.+.|.||-.
T Consensus      2025 ~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~ 2084 (3245)
T 3vkg_A         2025 ELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNS 2084 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            333333344444444444444444444455566677777788888889999999999965

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=96.47  E-value=0.034  Score=54.35  Aligned_cols=79  Identities=24%  Similarity=0.219  Sum_probs=36.3

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      ...+...+.......+..+.+....++.+....+....++++...++.           --+.++.++.++.+++..++.
T Consensus       504 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~-----------~~~~~~~~~~~l~~e~~~~~~  572 (597)
T 3oja_B          504 SDNLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALEK-----------QLDNKRAKQAELRQETSLKRQ  572 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHHH-----------HHhhhhhHHHHHHHHHHHHHH
Confidence            334444444444444444444444554444444444444444444422           223334444444455555555


Q ss_pred             hHHhHHHhhc
Q 023459          185 KVDDLESELG  194 (282)
Q Consensus       185 ~~e~L~~~l~  194 (282)
                      ++.+|..++.
T Consensus       573 ~~~~l~~~~~  582 (597)
T 3oja_B          573 KVKQLEAKKN  582 (597)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHhc
Confidence            5544444443

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=96.41  E-value=0.2  Score=40.68  Aligned_cols=74  Identities=28%  Similarity=0.389  Sum_probs=41.6

Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHh
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDD  188 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~  188 (282)
                      ...+..-.......+.....|...+..++.+|.+++.++...+-           .-..|-.....++.++.+|+..++.
T Consensus        54 ~~qL~~E~~~l~e~EE~~~~L~~~k~eLe~~l~el~~rleeeee-----------~~~~L~~~kkkle~e~~~Lk~~led  122 (129)
T 2fxo_A           54 QLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEE-----------MNAELTAKKRKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333444445555555666666666666666666666666632           2344555555556666666666666


Q ss_pred             HHHhh
Q 023459          189 LESEL  193 (282)
Q Consensus       189 L~~~l  193 (282)
                      +...+
T Consensus       123 ~e~~l  127 (129)
T 2fxo_A          123 LELTL  127 (129)
T ss_dssp             HHTTT
T ss_pred             HHHhh
Confidence            65443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=96.40  E-value=0.26  Score=58.24  Aligned_cols=67  Identities=15%  Similarity=0.164  Sum_probs=41.2

Q ss_pred             HHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          167 EMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       167 elrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      ..+.++.+++..+..|+.+.+.+..+.+.++++-..++.++.-.+.=|..|-.|..+=...+..|+.
T Consensus      2032 ~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~rA~~Li~gL~~Ek~RW~~~~~~l~~ 2098 (3245)
T 3vkg_A         2032 EIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDRSIALLDNLNSERGRWEQQSENFNT 2098 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccHHHHHHHHHH
Confidence            3445566666666666666666666666666665556666666666666666666655555555544

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=96.34  E-value=0.32  Score=39.45  Aligned_cols=39  Identities=26%  Similarity=0.292  Sum_probs=14.8

Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      .+......+++.+.....|...++.++..+.+|+..|..
T Consensus        84 ~l~el~~rleeeee~~~~L~~~kkkle~e~~~Lk~~led  122 (129)
T 2fxo_A           84 KVKEMNKRLEDEEEMNAELTAKKRKLEDECSELKRDIDD  122 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=96.26  E-value=0.44  Score=40.29  Aligned_cols=50  Identities=16%  Similarity=0.203  Sum_probs=24.9

Q ss_pred             chhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459           99 DELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus        99 ~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      +.+...+..+...|..+.....+.+...+..+..+..+++.|..|+..|.
T Consensus        66 ekasqrEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~  115 (155)
T 2efr_A           66 EKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELY  115 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444455555555555555555555555555555555555554444

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=95.55  E-value=0.73  Score=39.50  Aligned_cols=94  Identities=15%  Similarity=0.205  Sum_probs=51.2

Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDDLE  190 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~L~  190 (282)
                      .+...+....++...+..|......+++.+..|...+...           -++.-.+-+-+.+++-.|..|..+++.++
T Consensus        42 ~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qE-----------r~~r~q~se~~~elq~ri~~L~~El~~~k  110 (168)
T 3o0z_A           42 SISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAE-----------RRDRGHDSEMIGDLQARITSLQEEVKHLK  110 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444445555555556666666666666666666555           23444555555666666666666666666


Q ss_pred             HhhccchhhhhhhHHHHHHHHHHHH
Q 023459          191 SELGNCKSEKNSAEKTVKEMDERIL  215 (282)
Q Consensus       191 ~~l~~~k~e~~~~e~~~~~~e~~I~  215 (282)
                      ..+.....+.+.+..++..++....
T Consensus       111 ~~~~k~~~e~r~L~Ekl~~lEKe~a  135 (168)
T 3o0z_A          111 HNLEKVEGERKEAQDMLNHSEKEKN  135 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6555555554444444444444333

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=95.50  E-value=0.43  Score=37.29  Aligned_cols=52  Identities=19%  Similarity=0.383  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT   93 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~   93 (282)
                      +..++.++..|..+.....++...++..+..+.          .+...++.++.++++-+..
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e----------~~~~~~E~Ei~sL~kk~~~   55 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAE----------ERSKQLEDDIVQLEKQLRV   55 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHhHHHHHHHHHHHHH
Confidence            455666666666666666666666555555554          3344444777777765544

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=95.40  E-value=0.23  Score=48.43  Aligned_cols=10  Identities=20%  Similarity=0.408  Sum_probs=3.9

Q ss_pred             HHHhHHHHHH
Q 023459          168 MREKLDEKDR  177 (282)
Q Consensus       168 lrekl~eke~  177 (282)
                      ++.++.++..
T Consensus       570 ~~~~~~~l~~  579 (597)
T 3oja_B          570 KRQKVKQLEA  579 (597)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3344444433

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=95.39  E-value=1.1  Score=38.29  Aligned_cols=17  Identities=24%  Similarity=0.298  Sum_probs=6.1

Q ss_pred             hHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENK   47 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~   47 (282)
                      ++..|.+++.++...+.
T Consensus         7 Ki~~LekQL~E~n~kLk   23 (168)
T 3o0z_A            7 KLSQLQKQLEEANDLLR   23 (168)
T ss_dssp             ---CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444444444444333

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

Probab=95.16  E-value=0.26  Score=39.87  Aligned_cols=55  Identities=16%  Similarity=0.273  Sum_probs=18.4

Q ss_pred             ccccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           17 TEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        17 ~~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      .+.||.....+-...+.+-...+.....++..++-.|.+++.+|+.++....+|+
T Consensus         9 aE~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE   63 (129)
T 3tnu_B            9 AESWYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQ   63 (129)
T ss_dssp             -------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence            5678875433221112222233344455666666666666666666665555555

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=94.99  E-value=1.4  Score=37.18  Aligned_cols=131  Identities=21%  Similarity=0.266  Sum_probs=70.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhh
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKG  116 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e  116 (282)
                      ...+.|+..+..++..+......|..+....              +++..+..++.+       +..++..|...+....
T Consensus        13 n~qs~LeD~L~~~R~el~~~~~ri~~lE~~r--------------~~~~~l~~~~~~-------~~~e~~~L~~~l~~E~   71 (154)
T 2ocy_A           13 DKQSHLEEQLNKSLKTIASQKAAIENYNQLK--------------EDYNTLKRELSD-------RDDEVKRLREDIAKEN   71 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH--------------HHHHHHHTHHHH-------HHHHHHHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHhh-------hhHHHHHHHHHHHHHH
Confidence            4556677777777777776666666655332              223333322222       3334444444444444


Q ss_pred             hhHHHHHHHHhhhHHHHHHH--------HHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHHhHHh
Q 023459          117 VKLEELEREVDGLKKEKVES--------EKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKKKVDD  188 (282)
Q Consensus       117 ~eIeelEkeIe~LE~e~~~~--------ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~~~e~  188 (282)
                      ......+.....++.++..+        .+++.+-...-..++.     |      =+.|+.++.+++..+..+..++..
T Consensus        72 ~~R~~aE~~~~~ie~ElEeLTasLFeEAN~MVa~ar~~~~~~e~-----r------~~~L~~ql~e~~~~l~~lq~ql~~  140 (154)
T 2ocy_A           72 ELRTKAEEEADKLNKEVEDLTASLFDEANNMVADARKEKYAIEI-----L------NKRLTEQLREKDTLLDTLTLQLKN  140 (154)
T ss_dssp             HHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----H------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----H------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444333333        3333333222222211     1      156778888889999999999999


Q ss_pred             HHHhhccchhh
Q 023459          189 LESELGNCKSE  199 (282)
Q Consensus       189 L~~~l~~~k~e  199 (282)
                      |+.-+..+.++
T Consensus       141 LK~v~~~m~~e  151 (154)
T 2ocy_A          141 LKKVMHSLDNE  151 (154)
T ss_dssp             HHHTTSCCC--
T ss_pred             HHHHHHHhhhc
Confidence            99888877664

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=94.94  E-value=0.66  Score=36.04  Aligned_cols=52  Identities=23%  Similarity=0.341  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT   93 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~   93 (282)
                      +..++.++..|..+.....++...++..+..+.          .++..++.++.++++-+..
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e----------~~~~~~E~ei~sL~kKiq~   55 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAE----------DRCKQLEEEQQGLQKKLKG   55 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHhHHHHHHHHHHHHH
Confidence            345566666666666666666655555555544          2333344666666665544

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

Probab=94.93  E-value=0.24  Score=40.30  Aligned_cols=55  Identities=27%  Similarity=0.352  Sum_probs=15.1

Q ss_pred             ccccccccCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           17 TEDFFDPDQDGSNNKVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        17 ~~~W~dv~~~e~~~Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      .+.||.....+-...+.+-...+.....++.+++-.|.+++.+|+.++....+|+
T Consensus        11 aE~~y~~K~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE   65 (131)
T 3tnu_A           11 AEEWFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLE   65 (131)
T ss_dssp             ------------------------------CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            5778874432221112222233344455556666666666666666665555555

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=94.83  E-value=0.96  Score=35.27  Aligned_cols=16  Identities=38%  Similarity=0.484  Sum_probs=7.4

Q ss_pred             hhHHHHHHHHHHHHHH
Q 023459          202 SAEKTVKEMDERILLW  217 (282)
Q Consensus       202 ~~e~~~~~~e~~I~~l  217 (282)
                      .++..+.++.+.|+.+
T Consensus        83 ~aE~ev~~L~Rriqll   98 (101)
T 3u1c_A           83 KAESEVASLNRRIQLV   98 (101)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444445555544443

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=94.81  E-value=0.16  Score=42.50  Aligned_cols=103  Identities=17%  Similarity=0.184  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHH
Q 023459           47 KEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREV  126 (282)
Q Consensus        47 ~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeI  126 (282)
                      ..+..++.......+....-.++|+   .|.-.-++++..+...|-......+++.-.+..+...+......++..+...
T Consensus        20 ~~a~~kLeeaek~adE~eR~~k~lE---~r~~~deEr~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~dLeraeeRa   96 (147)
T 2b9c_A           20 ATALQKLEEAEKAADESERGMKVIE---SRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEERA   96 (147)
T ss_dssp             THHHHHHHHHHHHHHHHTHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH---hhhcccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444443333333333333   4444444555555555555544445555555555555555555555556666


Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459          127 DGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus       127 e~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ...+..+..++..|...-..+.-+++
T Consensus        97 e~aE~k~~eLEeeL~~~~~nlKsLE~  122 (147)
T 2b9c_A           97 ELSEGKCAELEEELKTVTNNLKSLED  122 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            66666666666666666666666655

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=94.69  E-value=1.1  Score=34.78  Aligned_cols=16  Identities=38%  Similarity=0.547  Sum_probs=8.1

Q ss_pred             hhhHHHHHHHHHHHHH
Q 023459          201 NSAEKTVKEMDERILL  216 (282)
Q Consensus       201 ~~~e~~~~~~e~~I~~  216 (282)
                      .+++..+.++.+.|+.
T Consensus        82 ~~AE~evasLnRriql   97 (101)
T 3u59_A           82 TDAEAEVASLNRRIQL   97 (101)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444555555555544

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=94.56  E-value=1.8  Score=36.46  Aligned_cols=33  Identities=30%  Similarity=0.346  Sum_probs=13.6

Q ss_pred             hHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          118 KLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       118 eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .-..++..|..|....+..+.+-..-++.+..|
T Consensus        71 rEd~yEeqIk~L~~kLKEAE~RAE~AERsv~kL  103 (155)
T 2efr_A           71 KEDKYEEEIKVLSDKLKEAETRAEFAERSVTKL  103 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444433333333333

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=93.39  E-value=3.2  Score=35.03  Aligned_cols=116  Identities=16%  Similarity=0.282  Sum_probs=68.9

Q ss_pred             hhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHH
Q 023459           94 SMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLD  173 (282)
Q Consensus        94 ~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~  173 (282)
                      +...++.++.++..+.........+...+...+..-.......+.....+++.+.+|    .      ..+=++-+.=..
T Consensus        35 ri~~lE~~r~~~~~l~~~~~~~~~e~~~L~~~l~~E~~~R~~aE~~~~~ie~ElEeL----T------asLFeEAN~MVa  104 (154)
T 2ocy_A           35 AIENYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDL----T------ASLFDEANNMVA  104 (154)
T ss_dssp             HHHTTHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHH----H------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H------HHHHHHHHHHHH
Confidence            455555666666666666666666666666666666666666677777777777766    3      333333333334


Q ss_pred             HHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          174 EKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       174 eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      .-.++-..++.+...|...+              ...+.-|..++.++.++..|+..+.+
T Consensus       105 ~ar~~~~~~e~r~~~L~~ql--------------~e~~~~l~~lq~ql~~LK~v~~~m~~  150 (154)
T 2ocy_A          105 DARKEKYAIEILNKRLTEQL--------------REKDTLLDTLTLQLKNLKKVMHSLDN  150 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHTTSCCC-
T ss_pred             HHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            44444445555555554444              34555666677777777777766654

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

Probab=92.91  E-value=1.1  Score=36.28  Aligned_cols=81  Identities=14%  Similarity=0.183  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHH
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFK  183 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk  183 (282)
                      .+...+.+|.+....|..++.+|.++......++..|.+.+.+....    +          ..+...+..++.++..++
T Consensus        32 ~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~----l----------~~~q~~i~~lE~eL~~~r   97 (131)
T 3tnu_A           32 LVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQ----L----------AQIQEMIGSVEEQLAQLR   97 (131)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H----------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH----H----------HHHHHHHHHHHHHHHHHH
Confidence            34456666777777777777777777777777777777777766544    2          556677777777777777


Q ss_pred             HhHHhHHHhhccchh
Q 023459          184 KKVDDLESELGNCKS  198 (282)
Q Consensus       184 ~~~e~L~~~l~~~k~  198 (282)
                      ..+...-.+++++=|
T Consensus        98 ~em~~ql~EYq~Ll~  112 (131)
T 3tnu_A           98 CEMEQQNQEYKILLD  112 (131)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            777666665554433

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

Probab=92.87  E-value=1.3  Score=35.76  Aligned_cols=79  Identities=20%  Similarity=0.307  Sum_probs=48.2

Q ss_pred             HHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHHHHHHHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          105 VAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEVREMEEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       105 m~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~~~~~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      +...+.+|.+....+..++.+|.+++..+..++..|.+.+.+....    +          ..+...+..++.++..++.
T Consensus        31 l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~~~~~~----l----------~~~q~~i~~lE~eL~~~r~   96 (129)
T 3tnu_B           31 LRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQRGELA----L----------KDARNKLAELEEALQKAKQ   96 (129)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H----------HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH----H----------HHHHHHHHHHHHhHHHHHH
Confidence            3334555555566666666666667777777777777766665443    2          4566667777777777776


Q ss_pred             hHHhHHHhhccch
Q 023459          185 KVDDLESELGNCK  197 (282)
Q Consensus       185 ~~e~L~~~l~~~k  197 (282)
                      .+...-.+++++=
T Consensus        97 e~~~ql~EYq~Ll  109 (129)
T 3tnu_B           97 DMARLLREYQELM  109 (129)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666655555443

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=92.46  E-value=1.1  Score=34.08  Aligned_cols=44  Identities=25%  Similarity=0.336  Sum_probs=28.8

Q ss_pred             HHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          107 ELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       107 ~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++..++..-.....++.++.+|++.+-...-...+||.++.-|
T Consensus        32 dfk~KyE~E~~~R~~~E~d~~~LrkdvD~a~l~r~dLE~kvesL   75 (86)
T 3swk_A           32 RLREKLQEEMLQREEAENTLQSFRQDVDNASLARLDLERKVESL   75 (86)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence            35556666666666667777777777766666666666666655

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=92.05  E-value=1.3  Score=33.70  Aligned_cols=55  Identities=20%  Similarity=0.376  Sum_probs=35.6

Q ss_pred             HhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 023459          170 EKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEA  224 (282)
Q Consensus       170 ekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~  224 (282)
                      +.|.-+..+|.+|+.+...|..+.+++++....+..+...+......++.+++.+
T Consensus        20 dtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~L   74 (81)
T 2jee_A           20 DTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQAL   74 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5566666677777777777776666666555555566666666666666665554

>2v66_B Nuclear distribution protein NUDE-like 1; structural protein, developmental protein, structural protei phosphorylation, transport, microtubule; 2.10A {Homo sapiens}

Probab=91.72  E-value=4.3  Score=32.47  Aligned_cols=47  Identities=15%  Similarity=0.273  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ++..++...+.+...|.+++..=+.|+.....+-..+.+++.++...
T Consensus        43 El~~lr~~~~~l~~~iReLEq~NDDLER~~R~t~~SLeD~E~k~n~a   89 (111)
T 2v66_B           43 DLSQTRAIKEQLHKYVRELEQANDDLERAKRATIVSLEDFEQRLNQA   89 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHhhHHHHHHHHHHH
Confidence            34445666666666666666666666666666666777777766655

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=90.09  E-value=7.3  Score=32.34  Aligned_cols=110  Identities=18%  Similarity=0.205  Sum_probs=81.2

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKR  110 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~Lks  110 (282)
                      ++.....++..++..-.+..-..+.+++.-....          .|-..|+.++....+-.-+....|+++.-.+.-+..
T Consensus        18 rl~~a~~kLeeaek~adE~eR~~k~lE~r~~~de----------Er~~~lE~qLkeak~~aeeadrKyeE~~RKl~~~E~   87 (147)
T 2b9c_A           18 RLATALQKLEEAEKAADESERGMKVIESRAQKDE----------EKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIES   87 (147)
T ss_dssp             TTTHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccH----------HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            4555556666666655555555555554444333          344455577777777777778888888888888999


Q ss_pred             HHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          111 VLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       111 eIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .++.-....+..+..|..|+..+..+.+.++.|+-.-..-
T Consensus        88 dLeraeeRae~aE~k~~eLEeeL~~~~~nlKsLE~~eeka  127 (147)
T 2b9c_A           88 DLERAEERAELSEGKCAELEEELKTVTNNLKSLEDKVEEL  127 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHH
Confidence            9999999999999999999999999999999998877766

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=89.75  E-value=3  Score=34.33  Aligned_cols=6  Identities=0%  Similarity=0.141  Sum_probs=2.3

Q ss_pred             hHHHHH
Q 023459           31 KVTELT   36 (282)
Q Consensus        31 Ki~kL~   36 (282)
                      -+..++
T Consensus        29 ~L~~vA   34 (138)
T 3hnw_A           29 YLQRVA   34 (138)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            333333

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=89.69  E-value=5.8  Score=30.60  Aligned_cols=48  Identities=19%  Similarity=0.349  Sum_probs=33.8

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHH
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLE  151 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele  151 (282)
                      ++..+...+..+...-..+..++..|++....+...|..++.....+.
T Consensus         5 ~~~~l~~eL~~l~~eE~~L~~eL~~lEke~~~l~~el~~le~E~~~L~   52 (96)
T 3q8t_A            5 DSEQLQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAERLD   52 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence            345566666777777777777777777777777777777777766663

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

Probab=89.58  E-value=4.3  Score=40.42  Aligned_cols=45  Identities=22%  Similarity=0.160  Sum_probs=25.4

Q ss_pred             HHHHHh-hhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH
Q 023459          108 LKRVLG-EKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV  152 (282)
Q Consensus       108 LkseIe-e~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~  152 (282)
                      ...+|. +++..|.-|+..|..--..|+.|+..|+++-.+|..||+
T Consensus       107 tynE~S~ELRRrIqyLKekVdnQlsnIrvLQsnLedq~~kIQRLEv  152 (562)
T 3ghg_A          107 TYNRVSEDLRSRIEVLKRKVIEKVQHIQLLQKNVRAQLVDMKRLEV  152 (562)
T ss_dssp             HHHHTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444 555555555555555556666666666666666666654

>3cve_A Homer protein homolog 1; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, postsynaptic cell membrane, synapse; 1.75A {Rattus norvegicus}

Probab=89.21  E-value=2.7  Score=31.19  Aligned_cols=64  Identities=20%  Similarity=0.337  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHH
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAE  107 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~  107 (282)
                      .+..++..++.+...++.++..++..++..+..+..+.          .++.++...|-.+..+..+++.-|++
T Consensus         4 ~~~~kLq~~E~~N~~Le~~v~~le~~Le~s~~~q~~~~----------~Elk~~~e~Ld~KI~eL~elrq~Lak   67 (72)
T 3cve_A            4 NSHMKLQEVEIRNKDLEGQLSEMEQRLEKSQSEQDAFR----------SNLKTLLEILDGKIFELTELRDNLAK   67 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            45677888888888888888888888888887776666          77777777776666554444444443

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=89.17  E-value=5.7  Score=30.57  Aligned_cols=34  Identities=26%  Similarity=0.319  Sum_probs=18.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      .+..+..++..+..++..+...+..+..+|..+.
T Consensus         4 ~~~~~~~~~~~~~~~l~~L~~~~~~l~~~i~~l~   37 (112)
T 1l8d_A            4 LLEELETKKTTIEEERNEITQRIGELKNKIGDLK   37 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555555555554444

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=89.13  E-value=4  Score=32.61  Aligned_cols=56  Identities=16%  Similarity=0.167  Sum_probs=32.6

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVT   93 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~   93 (282)
                      .+..|..++..++.-+......|+.++.+|...+.+...+       ..|+.++.--..||..
T Consensus        25 ei~~L~~~L~~AEeaL~~Kq~~idelk~ei~q~~~~lE~I-------~vLkaQv~IY~~DF~a   80 (110)
T 2v4h_A           25 QLEDLRQQLQQAEEALVAKQELIDKLKEEAEQHKIVMETV-------PVLKAQADIYKADFQA   80 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH-------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHcc
Confidence            5667777777777777777777777776666655433222       2444555444444443

>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural; 1.70A {Homo sapiens}

Probab=89.01  E-value=2.3  Score=32.26  Aligned_cols=33  Identities=18%  Similarity=0.263  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      |..|+.+|..+..+...+..+++.+...++.++
T Consensus         2 i~eLr~qi~~l~~e~~~l~~e~dn~~~~~edfk   34 (86)
T 3swk_A            2 MRELRRQVDQLTNDKARVEVERDNLAEDIMRLR   34 (86)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            466777777777777777777777777776666

>3l4q_C Phosphatidylinositol 3-kinase regulatory subunit beta; PI3K, phosphoinositide-3-kinase, influenza virus, NS1; 2.30A {Bos taurus} PDB: 2v1y_B

Probab=88.02  E-value=6.4  Score=33.64  Aligned_cols=52  Identities=13%  Similarity=0.166  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHH
Q 023459           82 IEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKGVKLEELEREVDGLKKEK  133 (282)
Q Consensus        82 ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e~eIeelEkeIe~LE~e~  133 (282)
                      ..+......+.+....||.+-++......++......++....-|.=.+...
T Consensus        17 ~~L~e~h~qy~~ks~~yd~l~e~y~r~sqEiq~Kr~AieAF~E~ik~FeeQ~   68 (170)
T 3l4q_C           17 AQLKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIKIFEEQG   68 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777888888888888888888888888888777777665555544433

>3cvf_A Homer-3, homer protein homolog 3; coiled coil, alternative splicing, cell junction, cytoplasm, membrane, phosphoprotein, polymorphism; 2.90A {Homo sapiens}

Probab=87.96  E-value=1.6  Score=32.93  Aligned_cols=67  Identities=25%  Similarity=0.319  Sum_probs=47.0

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAE  107 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~  107 (282)
                      .+..+..++..++.+...++.++..++..++..+..+..+.          .++.++...|-.+..+..+++.-|++
T Consensus         7 e~e~~~~klq~~E~rN~~Le~~v~~le~~Le~s~~~q~~~~----------~Elk~l~e~Ld~KI~eL~elRqgLak   73 (79)
T 3cvf_A            7 EREETQQKVQDLETRNAELEHQLRAMERSLEEARAERERAR----------AEVGRAAQLLDVSLFELSELREGLAR   73 (79)
T ss_dssp             ---CTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            34556677888888888888888888888888887776666          77777777777766665554444444

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=87.95  E-value=6.6  Score=29.07  Aligned_cols=49  Identities=12%  Similarity=0.077  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          102 GAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       102 reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      +..|..++.+.+.........+..+...+......+..|..|..++..+
T Consensus         5 kkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~l   53 (81)
T 1ic2_A            5 KKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGT   53 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            3444445555555555555555555555544444455555555554444

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=86.56  E-value=9.4  Score=29.38  Aligned_cols=58  Identities=12%  Similarity=0.272  Sum_probs=24.8

Q ss_pred             HHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 023459          168 MREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAE  225 (282)
Q Consensus       168 lrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~  225 (282)
                      +..+|..++.+...|..+....-.+...++-.-.+...+..+++..+.-.+..+..+.
T Consensus        37 l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~~~~qLdkL~   94 (96)
T 3q8t_A           37 VAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRYAQMQLDKLK   94 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3344444444444444433333333333322223334444555555555555544443

>2v4h_A NF-kappa-B essential modulator; transcription, metal-binding, NEMO - IKK gamma - NFKB pathwa darpin, transcription regulation; 2.9A {Mus musculus}

Probab=86.53  E-value=11  Score=30.17  Aligned_cols=84  Identities=14%  Similarity=0.124  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccchhHHHHHHHHHHHhhhh
Q 023459           37 KKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSMSEGDELGAEVAELKRVLGEKG  116 (282)
Q Consensus        37 ~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~s~~~e~reEm~~LkseIee~e  116 (282)
                      -++..|...+..+...+......|+.++      .-|+.+.+.|++ +              .=++..+.-.+.++....
T Consensus        24 ~ei~~L~~~L~~AEeaL~~Kq~~idelk------~ei~q~~~~lE~-I--------------~vLkaQv~IY~~DF~aER   82 (110)
T 2v4h_A           24 MQLEDLRQQLQQAEEALVAKQELIDKLK------EEAEQHKIVMET-V--------------PVLKAQADIYKADFQAER   82 (110)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHTH-H--------------HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHH-H--------------HHHHHHHHHHHHHHccch
Confidence            3789999999999999999999999998      445555555532 2              223444455677777777


Q ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHH
Q 023459          117 VKLEELEREVDGLKKEKVESEKKVR  141 (282)
Q Consensus       117 ~eIeelEkeIe~LE~e~~~~ek~i~  141 (282)
                      ...+.+..++..|...+..+..++.
T Consensus        83 adREkl~~eKe~L~~ql~~Lq~q~~  107 (110)
T 2v4h_A           83 HAREKLVEKKEYLQEQLEQLQREFN  107 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHHHHHhHHHHHHHHHHHHHHHHH
Confidence            7777776666666666666555543

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=86.07  E-value=12  Score=35.35  Aligned_cols=47  Identities=13%  Similarity=0.170  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 023459           49 MKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQHDLVTSM   95 (282)
Q Consensus        49 lkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~dl~~~~   95 (282)
                      ..+-++.+...+..+-.+..+-..+.....+|...+.+.|..|.+..
T Consensus       371 ~eeal~~~~~~i~~~l~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~  417 (471)
T 3mq9_A          371 VDEALKDAQTRITAARDGLRAVMEARNVTHLLQQELTEAQKGFQDVE  417 (471)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHhhhHHHHH
Confidence            34445555555554444444444455666667777777777665543

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=85.17  E-value=9.7  Score=29.20  Aligned_cols=33  Identities=21%  Similarity=0.303  Sum_probs=15.0

Q ss_pred             hHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          118 KLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       118 eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+.++...+..|...+..+..++..+...+..+
T Consensus        11 ~~~~~~~~l~~L~~~~~~l~~~i~~l~~~l~~l   43 (112)
T 1l8d_A           11 KKTTIEEERNEITQRIGELKNKIGDLKTAIEEL   43 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333444444444444444444444444444444

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

Probab=84.11  E-value=4.7  Score=30.36  Aligned_cols=65  Identities=23%  Similarity=0.367  Sum_probs=53.5

Q ss_pred             hHHHHHHhHHHHHHHHHHHHHhHHhHHHhhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          164 VEEEMREKLDEKDREISGFKKKVDDLESELGNCKSEKNSAEKTVKEMDERILLWQKEIEEAEKVI  228 (282)
Q Consensus       164 ~keelrekl~eke~ei~~Lk~~~e~L~~~l~~~k~e~~~~e~~~~~~e~~I~~l~~e~~e~~~~~  228 (282)
                      ++-.|++.+.+...+|..|+...+.|..-.+.+++--..+.++...++.+|.-++....++.+++
T Consensus        12 LRrrl~E~~~q~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL~~~l   76 (78)
T 3iv1_A           12 LRWRMKEEMDRAQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEELSSAL   76 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            66778888999999999999999999888777766657777888888888888888888887643

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=84.05  E-value=4.1  Score=33.69  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=6.0

Q ss_pred             HHHHhHHHHHHHHHHHHHhHHhHHH
Q 023459          167 EMREKLDEKDREISGFKKKVDDLES  191 (282)
Q Consensus       167 elrekl~eke~ei~~Lk~~~e~L~~  191 (282)
                      .|..++.+++..+..++.+...|+.
T Consensus       107 ~L~~ql~e~e~ll~~lq~QL~~LK~  131 (135)
T 2e7s_A          107 RLTEQLREKDMLLDTLTLQLKNLKK  131 (135)
T ss_dssp             HHHHTTTHHHHCC------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444445555444444443

>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4 chimera; alpha-helical coiled coil, disorder, salt links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB: 1nkn_A 3bat_A

Probab=84.03  E-value=12  Score=28.29  Aligned_cols=30  Identities=30%  Similarity=0.494  Sum_probs=18.5

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459          119 LEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus       119 IeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      ..+.+.....|.+.+..++.+|.+++.++.
T Consensus        58 l~eaEe~~~~L~~~K~eLE~~l~el~~rl~   87 (89)
T 3bas_A           58 MKQLEDKVEELLSKNYHLENEVARLKKLVG   87 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            455555566666666666666666666554

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=82.70  E-value=19  Score=33.94  Aligned_cols=13  Identities=8%  Similarity=0.240  Sum_probs=6.3

Q ss_pred             HHHHHHHHHHhhh
Q 023459           82 IEVSRLQHDLVTS   94 (282)
Q Consensus        82 ee~~~~q~dl~~~   94 (282)
                      .++...-+-+..-
T Consensus       418 ~~~~~~~~~~~~~  430 (471)
T 3mq9_A          418 AQAATANHTVMAL  430 (471)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHhhhcchhHHHH
Confidence            5555554544443

>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A {Thermococcus SP} PDB: 2zdi_A

Probab=81.82  E-value=15  Score=28.03  Aligned_cols=42  Identities=21%  Similarity=0.386  Sum_probs=28.0

Q ss_pred             HHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          109 KRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       109 kseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ...+..+...++.++..|..|+..+..+++++.+++.++...
T Consensus        69 ~ea~~~L~~~~e~ie~~i~~le~~~~~l~~~l~~lk~~l~~~  110 (117)
T 2zqm_A           69 DKAVAELKEKIETLEVRLNALERQEKKLNEKLKELTAQIQSA  110 (117)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444455555566666677777777777777777777777665

>1go4_E MAD1 (mitotic arrest deficient)-like 1; mitotic spindle checkpoint, cell cycle, mitosis, nuclear Pro; 2.05A {Homo sapiens} SCOP: h.1.22.1

Probab=81.49  E-value=1.4  Score=34.64  Aligned_cols=64  Identities=11%  Similarity=0.164  Sum_probs=28.9

Q ss_pred             HHHHhHHHHHHHHHH--HHHhHHhHHHhhccchhhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 023459          167 EMREKLDEKDREISG--FKKKVDDLESELGNCKSEK-NSAEKTVKEMDERILLWQKEIEEAEKVIAGLKD  233 (282)
Q Consensus       167 elrekl~eke~ei~~--Lk~~~e~L~~~l~~~k~e~-~~~e~~~~~~e~~I~~l~~e~~e~~~~~~~~~~  233 (282)
                      .|++.++.++.++..  |+...+....++..+.++| ..+.   ++.+..|..|+.++..+...+..|.+
T Consensus        30 rLr~~~~~LE~~Le~~~l~Gd~~~~~TKVlH~~~NPa~~a~---~~~~~~~e~Lq~E~erLr~~v~~lEe   96 (100)
T 1go4_E           30 RLEEEKRMLEAQLERRALQGDYDQSRTKVLHMSLNPTSVAR---QRLREDHSQLQAECERLRGLLRAMER   96 (100)
T ss_dssp             HHHHHHHHHHHHHHHSSCCSCCCTTTEEEEEESSCHHHHHH---HHHHHHHHHHHHHHHHHHHHHTTCC-
T ss_pred             HHHHHHHHHHHHHHHHhhccccCCccCeeeeecCChHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            333333333333332  3334444444555555555 2221   22345556666666665555555443

>2lw1_A ABC transporter ATP-binding protein UUP; ABC REG subfamily, DNA binding protein; NMR {Escherichia coli}

Probab=81.36  E-value=11  Score=28.19  Aligned_cols=59  Identities=14%  Similarity=0.195  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhh---hhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023459           34 ELTKKVESLELENKEMKGTIKKLTIEIEG---SEEDKRILESVAARAEELEIEVSRLQHDLV   92 (282)
Q Consensus        34 kL~~eI~~LE~Ei~elkekI~~le~eIe~---lr~~~~~le~i~~r~~~L~ee~~~~q~dl~   92 (282)
                      +..+++..|+.+|..+..+|..++..+..   +..+-..+..+..+-..++.++..++..|.
T Consensus        19 keqrEle~le~~Ie~LE~~i~~le~~ladp~~y~~d~~~~~~l~~~l~~~e~eLe~~~erWe   80 (89)
T 2lw1_A           19 KLQRELEQLPQLLEDLEAKLEALQTQVADASFFSQPHEQTQKVLADMAAAEQELEQAFERWE   80 (89)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56778888888888888888888888854   334555566566666666666666666553

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=81.04  E-value=29  Score=32.83  Aligned_cols=45  Identities=13%  Similarity=0.140  Sum_probs=19.8

Q ss_pred             HHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 023459          104 EVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVG  148 (282)
Q Consensus       104 Em~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~  148 (282)
                      ++.........+..+..+++..+........+.+..+....+++.
T Consensus       354 ~~~~~~~~~~~l~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~e  398 (487)
T 3oja_A          354 QVTLRKQAKITLEQKKKALDEQVSNGRRAHAELDGTLQQAVGQIE  398 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhchhh
Confidence            333344433344444444444444444444444444444433333

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=80.94  E-value=7.5  Score=29.43  Aligned_cols=37  Identities=27%  Similarity=0.320  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDK   67 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~   67 (282)
                      .|..|.-+++++++++....-++++...+|..++...
T Consensus        27 Ei~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qL   63 (81)
T 3qh9_A           27 ELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQV   63 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            5666777777777777777777777777777777333

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

Probab=80.83  E-value=16  Score=27.47  Aligned_cols=50  Identities=28%  Similarity=0.294  Sum_probs=36.8

Q ss_pred             hHHHHHHHHHHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459          101 LGAEVAELKRVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus       101 ~reEm~~LkseIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      ..++|..|+.--+++..--..++.-|..|+.+...+++.|..|..+..+|
T Consensus        23 ~qaEl~sLrrT~~EL~~G~~KL~~mi~~l~~E~~~l~~ni~~lk~K~~EL   72 (78)
T 3iv1_A           23 AQAELNALKRTEEDLKKGHQKLEEMVTRLDQEVAEVDKNIELLKKKDEEL   72 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566667777777777777777777777777777777777777777776

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=80.37  E-value=19  Score=28.10  Aligned_cols=56  Identities=23%  Similarity=0.317  Sum_probs=38.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILESVAARAEELEIEVSRLQH   89 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le~i~~r~~~L~ee~~~~q~   89 (282)
                      .+..+..++..|+.+...+..++..+...+..-+..+..++   .....++.++..+-.
T Consensus         6 ~~e~lre~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE---~~~~~ie~ElEeLTa   61 (97)
T 2eqb_B            6 NYNQLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAE---EEADKLNKEVEDLTA   61 (97)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHH
Confidence            47788888888888888888888888888877765555555   333334444444443

>1fxk_A Prefoldin; archaeal protein, chaperone; 2.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: a.2.5.1 PDB: 1fxk_B

Probab=80.22  E-value=17  Score=27.42  Aligned_cols=38  Identities=24%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             HhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhH
Q 023459          112 LGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGL  149 (282)
Q Consensus       112 Iee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~e  149 (282)
                      ...+...++.++..|..|+..+..++.++.+++.+|..
T Consensus        67 ~~~L~~~~e~i~~~i~~le~~~~~~~~~l~~lk~~l~~  104 (107)
T 1fxk_A           67 TEELQEKLETLQLREKTIERQEERVMKKLQEMQVNIQE  104 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444445555555666666666666666655543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	282
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	93.24
d1fxkc_	133	Prefoldin alpha subunit {Archaeon Methanobacterium	87.33
d2ap3a1	185	Hypothetical protein MW0975 (SA0943) {Staphylococc	86.3
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	84.55
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	82.99
d1fxka_	107	Prefoldin beta subunit {Archaeon Methanobacterium	82.85

>d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: MW0975(SA0943)-like
family: MW0975(SA0943)-like
domain: Hypothetical protein MW0975 (SA0943)
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.24  E-value=1.1  Score=32.88  Aligned_cols=25  Identities=12%  Similarity=0.179  Sum_probs=10.5

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHH
Q 023459          203 AEKTVKEMDERILLWQKEIEEAEKV  227 (282)
Q Consensus       203 ~e~~~~~~e~~I~~l~~e~~e~~~~  227 (282)
                      +...+..+...+..+...+..+...
T Consensus       149 l~~~~~~l~~~~~~~~~~~~~~~~~  173 (185)
T d2ap3a1         149 VNEKSKAIEQNYKKLKEVSDKYTKV  173 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444433

>d1fxkc_ a.2.5.1 (C:) Prefoldin alpha subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin alpha subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=87.33  E-value=4.4  Score=30.15  Aligned_cols=41  Identities=10%  Similarity=0.169  Sum_probs=33.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHH
Q 023459           31 KVTELTKKVESLELENKEMKGTIKKLTIEIEGSEEDKRILE   71 (282)
Q Consensus        31 Ki~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr~~~~~le   71 (282)
                      .+.+|...+..|+.+++.+...+..+...+.++..-..+|+
T Consensus         2 ~L~eL~~~~~~l~~~l~~l~~~i~~l~~~~~e~~~~~~~L~   42 (133)
T d1fxkc_           2 ALAEIVAQLNIYQSQVELIQQQMEAVRATISELEILEKTLS   42 (133)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47788888888888998888888888888888885555555

>d2ap3a1 a.24.27.1 (A:12-196) Hypothetical protein MW0975 (SA0943) {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: MW0975(SA0943)-like
family: MW0975(SA0943)-like
domain: Hypothetical protein MW0975 (SA0943)
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.30  E-value=4.5  Score=29.18  Aligned_cols=19  Identities=16%  Similarity=0.046  Sum_probs=7.9

Q ss_pred             HHHHHHHHHHHHHHHhhhh
Q 023459           45 ENKEMKGTIKKLTIEIEGS   63 (282)
Q Consensus        45 Ei~elkekI~~le~eIe~l   63 (282)
                      .+.....++..+...+..+
T Consensus        23 ~~~~~~~k~~~~e~~~~~~   41 (185)
T d2ap3a1          23 PIKTVGKKIAELDEKKKKL   41 (185)
T ss_dssp             HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444333

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=84.55  E-value=3.6  Score=29.97  Aligned_cols=61  Identities=18%  Similarity=0.159  Sum_probs=28.2

Q ss_pred             HHhhhhcccchhHHHHHHHHHHHhh-hhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHH
Q 023459           90 DLVTSMSEGDELGAEVAELKRVLGE-KGVKLEELEREVDGLKKEKVESEKKVRELERNVGLL  150 (282)
Q Consensus        90 dl~~~~s~~~e~reEm~~LkseIee-~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~el  150 (282)
                      .+-+.....+.++++...+...|.. ......++..+...|..+++.++..+..++..+..+
T Consensus        36 ~rr~l~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~   97 (110)
T d1seta1          36 EVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAKRLEEALREKEARLEAL   97 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333444444555555555533 222334444455555555555555555555544443

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=82.99  E-value=4.6  Score=29.35  Aligned_cols=87  Identities=15%  Similarity=0.207  Sum_probs=42.6

Q ss_pred             HHHhhhhhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhHHHH-HHH----HHhhhhhchHHHHHHhHHHHHHHHHHHHH
Q 023459          110 RVLGEKGVKLEELEREVDGLKKEKVESEKKVRELERNVGLLEV-REM----EEKSKRVRVEEEMREKLDEKDREISGFKK  184 (282)
Q Consensus       110 seIee~e~eIeelEkeIe~LE~e~~~~ek~i~~LE~kl~ele~-~~~----~~~~~~gg~keelrekl~eke~ei~~Lk~  184 (282)
                      ..+......+..+...+..++..+.+++..+.+|+.--..-.+ |-.    =+. .+......+..+++.++..|+.|.+
T Consensus         8 ~~~q~lq~el~~~~~q~~~le~q~~E~~~vl~eL~~l~~d~~vyk~vG~vLv~~-~~~e~~~~l~~~~e~l~~~i~~l~~   86 (107)
T d1fxka_           8 AQFQQLQQQAQAISVQKQTVEMQINETQKALEELSRAADDAEVYKSSGNILIRV-AKDELTEELQEKLETLQLREKTIER   86 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCTTCCEEEEETTEEEEE-CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHhcchhhcC-cHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444455555555555555555555555532211000 000    001 1144566666667776666666666


Q ss_pred             hHHhHHHhhccch
Q 023459          185 KVDDLESELGNCK  197 (282)
Q Consensus       185 ~~e~L~~~l~~~k  197 (282)
                      ....+..++.+++
T Consensus        87 q~~~l~~~l~~~~   99 (107)
T d1fxka_          87 QEERVMKKLQEMQ   99 (107)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666655555443

>d1fxka_ a.2.5.1 (A:) Prefoldin beta subunit {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Prefoldin
family: Prefoldin
domain: Prefoldin beta subunit
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=82.85  E-value=6.7  Score=28.38  Aligned_cols=33  Identities=9%  Similarity=0.234  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 023459           32 VTELTKKVESLELENKEMKGTIKKLTIEIEGSE   64 (282)
Q Consensus        32 i~kL~~eI~~LE~Ei~elkekI~~le~eIe~lr   64 (282)
                      +...-.++..+..++..+...+..++..+....
T Consensus         3 lqe~~~~~q~lq~el~~~~~q~~~le~q~~E~~   35 (107)
T d1fxka_           3 VQHQLAQFQQLQQQAQAISVQKQTVEMQINETQ   35 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555555666666666655555555444