Citrus Sinensis ID: 027451

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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---
Protein Sequence
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLdrvkrgrgpvVVKTVAGTVLVMLISSVYNIMMIQKRwiddegavvnptDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNqsrgfedgkaaSSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWrlshsgskkds
Flexible Loop (DISEMBL)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMsldrvkrgrgpvvvktvagTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEaiknqsrgfedgkaasSEEIKALEDQMTTLKLKLKDLESELETkskeanaaetnavALRKQSEGFLFEYDRLLEENQNLRNQlqsldwrlshsgskkds
Low Complexity Region (SEG)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDrvkrgrgpvvvktvagtvlvMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMttlklklkdleseletkskeANAAETNAVALRKQSEGFLFEYDrlleenqnlrnqlqSLDWRLSHSGSKKDS
Disordered region (IsUnstruct)
***LLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRK******************************************************************GFLFEYDRLLE*************************
Disordered Region (DISOPRED)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMM******************VLLANHLLEATLMGASLFLAFMIDRLHHYIRE*************************************************************************FLFEYDRLLEENQN*********************
Disordered Region (DISEMBL)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWR**********
Disordered Region (DISPRO)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSL*************
Transmembrane Helix (TMHMM)
oooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxSEGFLFExxxxxxxxxxxxxxxxxxxxxLSHSGSKKDS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	223	2.2.26 [Sep-21-2011]
P51572	246	B-cell receptor-associate	no	no	0.273	0.247	0.451	7e-05
Q5R8H3	246	B-cell receptor-associate	yes	no	0.273	0.247	0.451	7e-05
Q61335	245	B-cell receptor-associate	yes	no	0.233	0.212	0.480	0.0004

>sp|P51572|BAP31_HUMAN B-cell receptor-associated protein 31 OS=Homo sapiens GN=BCAP31 PE=1 SV=3

 Score = 47.4 bits (111), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 41/62 (66%), Gaps = 1/62 (1%)

Query: 143 EIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQN 202
           E+K LE++  +LK  L+ L+ EL +  ++   AE   +A+RKQSEG   EYDRLLEE+  
Sbjct: 174 EVK-LEEENRSLKADLQKLKDELASTKQKLEKAENQVLAMRKQSEGLTKEYDRLLEEHAK 232

Query: 203 LR 204
           L+
Sbjct: 233 LQ 234

May play a role in anterograde transport of membrane proteins from the endoplasmic reticulum to the Golgi. May be involved in CASP8-mediated apoptosis.
Homo sapiens (taxid: 9606)

>sp|Q5R8H3|BAP31_PONAB B-cell receptor-associated protein 31 OS=Pongo abelii GN=BCAP31 PE=2 SV=3

 Score = 47.4 bits (111), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 41/62 (66%), Gaps = 1/62 (1%)

Query: 143 EIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQN 202
           E+K LE++  +LK  L+ L+ EL +  ++   AE   +A+RKQSEG   EYDRLLEE+  
Sbjct: 174 EVK-LEEENRSLKADLQKLKDELASTKQKLEKAENQVLAMRKQSEGLTKEYDRLLEEHAK 232

Query: 203 LR 204
           L+
Sbjct: 233 LQ 234

May play a role in anterograde transport of membrane proteins from the endoplasmic reticulum to the Golgi. May be involved in CASP8-mediated apoptosis.

Pongo abelii (taxid: 9601)

>sp|Q61335|BAP31_MOUSE B-cell receptor-associated protein 31 OS=Mus musculus GN=Bcap31 PE=1 SV=4

 Score = 45.1 bits (105), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 35/52 (67%)

Query: 153 TLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLR 204
           +LK  L+ L+ EL +  K+   AE  A+A++KQSEG   EYDRLLEE+  L+
Sbjct: 182 SLKNDLRKLKDELASTKKKLEKAENEALAMQKQSEGLTKEYDRLLEEHAKLQ 233

May play a role in anterograde transport of membrane proteins from the endoplasmic reticulum to the Golgi. May be involved in CASP8-mediated apoptosis.

Mus musculus (taxid: 10090)

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	223
225444283	221	PREDICTED: uncharacterized protein LOC10	0.991	1.0	0.784	2e-96
255554819	218	bcr-associated protein, bap, putative [R	0.977	1.0	0.757	3e-90
356532066	222	PREDICTED: uncharacterized protein LOC10	0.991	0.995	0.743	6e-90
118487230	219	unknown [Populus trichocarpa]	0.982	1.0	0.753	2e-89
351724959	222	uncharacterized protein LOC100526943 [Gl	0.991	0.995	0.734	3e-88
255628483	225	unknown [Glycine max]	0.986	0.977	0.733	2e-87
388518573	222	unknown [Lotus japonicus]	0.991	0.995	0.720	3e-87
449433978	221	PREDICTED: uncharacterized protein LOC10	0.991	1.0	0.713	2e-86
224117940	219	predicted protein [Populus trichocarpa]	0.982	1.0	0.713	7e-85
224113707	207	predicted protein [Populus trichocarpa]	0.928	1.0	0.748	1e-83

>gi|225444283|ref|XP_002262807.1| PREDICTED: uncharacterized protein LOC100265893 [Vitis vinifera] gi|302144107|emb|CBI23212.3| unnamed protein product [Vitis vinifera]

 Score =  357 bits (916), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 175/223 (78%), Positives = 199/223 (89%), Gaps = 2/223 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+F+EMA+IMVLLFKTPLRKL+IM LDRVKRGRGP++VKTVA TVLV+LISSV
Sbjct: 1   MIQLLFTVIFAEMAMIMVLLFKTPLRKLVIMGLDRVKRGRGPIMVKTVAATVLVVLISSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y++M I+KR IDD+  VVNPTDQVL+A HLLE +LMG +LFLA MIDRLHHYIRELR+RR
Sbjct: 61  YSMMKIRKRGIDDD--VVNPTDQVLMAKHLLETSLMGFTLFLALMIDRLHHYIRELRLRR 118

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K+MEAIK Q+RGFEDGK   S EIKA+E++M  L  KLK LESE+ETK+KEA AAETNAV
Sbjct: 119 KSMEAIKKQNRGFEDGKTGGSAEIKAMEEEMAALGAKLKQLESEIETKTKEAKAAETNAV 178

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           ALRKQSEGFL EYDRLLEENQNLRNQLQSLD RLSHSGSKK++
Sbjct: 179 ALRKQSEGFLLEYDRLLEENQNLRNQLQSLDRRLSHSGSKKNT 221

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255554819|ref|XP_002518447.1| bcr-associated protein, bap, putative [Ricinus communis] gi|223542292|gb|EEF43834.1| bcr-associated protein, bap, putative [Ricinus communis]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 169/223 (75%), Positives = 195/223 (87%), Gaps = 5/223 (2%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFT +FSEMALI++L+FKTP RKL++M LDRVKRG GP++VKTVAGT+LV+LISSV
Sbjct: 1   MIQLLFTGIFSEMALILILVFKTPFRKLVLMGLDRVKRGSGPIIVKTVAGTILVVLISSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y++M IQKR ID+    VNPTDQVL+A HLLEATLMGA LFLA MIDRLHHYIRELR+RR
Sbjct: 61  YSMMKIQKRGIDE--GFVNPTDQVLMAKHLLEATLMGAMLFLALMIDRLHHYIRELRMRR 118

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K+MEA+K QSR  EDGKA   EE KAL ++MTTL+ +LK LESELE K+KEA+A+ETNAV
Sbjct: 119 KSMEAVKKQSRVAEDGKA---EENKALGEEMTTLRARLKQLESELEVKTKEAHASETNAV 175

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           ALRKQSEGFL EYDRLLEENQNLRNQLQSLD RLS SGSKK++
Sbjct: 176 ALRKQSEGFLLEYDRLLEENQNLRNQLQSLDLRLSRSGSKKNT 218

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356532066|ref|XP_003534595.1| PREDICTED: uncharacterized protein LOC100500010 [Glycine max]

 Score =  335 bits (860), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 165/222 (74%), Positives = 194/222 (87%), Gaps = 1/222 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+FSE A+I +LLFKTPLRKL+IM LDR+KRGRGP++VKTVAGTVLV+  SSV
Sbjct: 1   MIQLLFTVIFSETAMIALLLFKTPLRKLVIMGLDRLKRGRGPLMVKTVAGTVLVVFFSSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKR I+ EGA+VNPTDQVL+A HLLEATLMGA LFLA MIDRLHHYIRELRIRR
Sbjct: 61  YSMVNIQKRGIE-EGAIVNPTDQVLMAKHLLEATLMGAILFLALMIDRLHHYIRELRIRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K MEA+K Q+RG EDGK A+SEEIKA+E++   L+ +L  LESEL++K+K+ +AAE N  
Sbjct: 120 KGMEAVKKQTRGTEDGKVANSEEIKAVEEERARLRAELSRLESELQSKTKDVDAAEANVA 179

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKD 222
           ALRKQSEGFL EYDRLLEENQNLRNQLQSLD +LSHSGSKK+
Sbjct: 180 ALRKQSEGFLLEYDRLLEENQNLRNQLQSLDRKLSHSGSKKN 221

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118487230|gb|ABK95443.1| unknown [Populus trichocarpa]

 Score =  334 bits (856), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 168/223 (75%), Positives = 191/223 (85%), Gaps = 4/223 (1%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+FSEMA+I++ +FKTPLRKLLIMSLDRVKRGRGPV+VKTVAGTV V+L+SSV
Sbjct: 1   MIQLLFTVIFSEMAMILLFVFKTPLRKLLIMSLDRVKRGRGPVMVKTVAGTVFVVLMSSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKRWIDD GA VNPTDQVLLA HLLEATLMG+ LFL  MIDRLHHYIRELR+RR
Sbjct: 61  YSMVKIQKRWIDDGGA-VNPTDQVLLAKHLLEATLMGSILFLGLMIDRLHHYIRELRMRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           KTME +K Q+R FEDGK    EE KALE + +TL+ KLK LESELE K+KE N +E NAV
Sbjct: 120 KTMEDVKKQNRSFEDGKV---EETKALEAEASTLREKLKQLESELEIKTKEVNTSEANAV 176

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           AL KQSEGFL EYDRLLEENQNLR+QLQSLD R S S SKK++
Sbjct: 177 ALSKQSEGFLLEYDRLLEENQNLRSQLQSLDLRFSRSTSKKNT 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724959|ref|NP_001236308.1| uncharacterized protein LOC100526943 [Glycine max] gi|255631201|gb|ACU15966.1| unknown [Glycine max]

 Score =  330 bits (846), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 163/222 (73%), Positives = 193/222 (86%), Gaps = 1/222 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+FSE ++I +LLFKTPLRKL+IM LDR+KRGRGP++VKTVAGTVLV+L+SSV
Sbjct: 1   MIQLLFTVIFSEASMIALLLFKTPLRKLVIMGLDRLKRGRGPLMVKTVAGTVLVVLLSSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKR I  EGAVVNPTDQVL+A HLLEATLM A LFLA MIDRLHHYIRELRIRR
Sbjct: 61  YSMLKIQKRGIQ-EGAVVNPTDQVLMAKHLLEATLMVAVLFLALMIDRLHHYIRELRIRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K MEA+K Q+RG EDGK A+SEEIK++E++   L+ +L  LESEL++K+K+ + AE N  
Sbjct: 120 KGMEAVKKQTRGTEDGKVANSEEIKSVEEERARLRAELSRLESELQSKTKDVDGAEANIA 179

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKD 222
           ALRKQSEGFL EYDRLLEENQNLRNQLQSLD +LSHSGSKK+
Sbjct: 180 ALRKQSEGFLLEYDRLLEENQNLRNQLQSLDRKLSHSGSKKN 221

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255628483|gb|ACU14586.1| unknown [Glycine max]

 Score =  327 bits (839), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 162/221 (73%), Positives = 191/221 (86%), Gaps = 1/221 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+FSE A+I +LLFKTPLRKL+IM LDR+KRGRGP++VKTVAGTVLV+  SSV
Sbjct: 1   MIQLLFTVIFSETAMIALLLFKTPLRKLVIMGLDRLKRGRGPLMVKTVAGTVLVVFFSSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKR I+ EGAVVNPTDQVL+A HLLEATLMGA LFLA MIDRLHHYIRELRIRR
Sbjct: 61  YSMVNIQKRGIE-EGAVVNPTDQVLMAKHLLEATLMGAILFLALMIDRLHHYIRELRIRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K MEA+K Q+RG EDGK A+SEEIKA+E++   L+ +L  LESEL++K+K+ +AAE N  
Sbjct: 120 KGMEAVKKQTRGTEDGKVANSEEIKAVEEERARLRAELSRLESELQSKTKDVDAAEANVA 179

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKK 221
           ALRKQSEGFL EYDRLLEENQNLRNQLQSLD +LSHS  ++
Sbjct: 180 ALRKQSEGFLLEYDRLLEENQNLRNQLQSLDRKLSHSVPRR 220

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388518573|gb|AFK47348.1| unknown [Lotus japonicus]

 Score =  327 bits (837), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 160/222 (72%), Positives = 191/222 (86%), Gaps = 1/222 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M  LLFTV+FSE A+I +LLFKTPLRKL+IM LDR+KRGRGP++V+TV  TVLV+L+SS+
Sbjct: 1   MIHLLFTVIFSEAAMIALLLFKTPLRKLMIMGLDRLKRGRGPLMVRTVGATVLVVLLSSL 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y++  IQKR I+D G VVNPTDQVL+A HLLEATLMGA LFLA MIDRLHHYIRELR+RR
Sbjct: 61  YSMFNIQKRGIED-GGVVNPTDQVLMAKHLLEATLMGAVLFLALMIDRLHHYIRELRVRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           KTMEA+K QSRG +DGKAA SEEI+A+E++ T L+ ++  LESEL++K+KE + AE N  
Sbjct: 120 KTMEAVKKQSRGSDDGKAAHSEEIRAMEEETTKLRAEINRLESELKSKTKEVDGAEANVS 179

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKD 222
           ALRKQSEGFL EYDRLLEENQNLRN+LQS D RLSHSGSKK+
Sbjct: 180 ALRKQSEGFLLEYDRLLEENQNLRNELQSWDRRLSHSGSKKN 221

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433978|ref|XP_004134773.1| PREDICTED: uncharacterized protein LOC101221743 [Cucumis sativus] gi|449526061|ref|XP_004170033.1| PREDICTED: uncharacterized protein LOC101228301 [Cucumis sativus]

 Score =  324 bits (831), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 159/223 (71%), Positives = 191/223 (85%), Gaps = 2/223 (0%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLFTV+ SEM LI++  FKTPLRKL+I+++DR+KRGRGP++VKTVAGTVL++L+SSV
Sbjct: 1   MIQLLFTVIISEMVLILLFSFKTPLRKLVILAVDRMKRGRGPIMVKTVAGTVLIVLLSSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKRWIDD GA+ NPTDQVL+  HLLEATLMG SLFLA MIDRLHHY+RELR+RR
Sbjct: 61  YSMVTIQKRWIDD-GAI-NPTDQVLMVKHLLEATLMGGSLFLALMIDRLHHYMRELRLRR 118

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K MEAIK QSR  EDGK + SEEIKALE++ TTL+ KLK LES L++K+K+   +E N V
Sbjct: 119 KGMEAIKKQSRAVEDGKVSKSEEIKALEEERTTLETKLKQLESVLDSKTKDITTSEANVV 178

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           ALRKQSEG L EYDRLLEENQNLR QLQS++ RLS SGSKK+S
Sbjct: 179 ALRKQSEGLLLEYDRLLEENQNLRGQLQSVERRLSRSGSKKNS 221

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117940|ref|XP_002331516.1| predicted protein [Populus trichocarpa] gi|222873740|gb|EEF10871.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (816), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 159/223 (71%), Positives = 189/223 (84%), Gaps = 4/223 (1%)

Query: 1   MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSV 60
           M QLLF V+FSEMA+I++ +FK+PLRK LIMSLDR+KRGRGPV+VKTVAGTV ++LISSV
Sbjct: 1   MIQLLFAVIFSEMAMILLFVFKSPLRKFLIMSLDRLKRGRGPVMVKTVAGTVFLVLISSV 60

Query: 61  YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
           Y+++ IQKR ID  G VVNPTDQVL+A HLLEATLMG+ LFL+ MIDRLHHYIRELR+RR
Sbjct: 61  YSMVKIQKRGID-VGGVVNPTDQVLMAKHLLEATLMGSILFLSLMIDRLHHYIRELRMRR 119

Query: 121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAV 180
           K+MEA+K Q+R FEDGK    EE KALE +++TL+ KLK L+SELE KSKE N +E NA 
Sbjct: 120 KSMEAVKKQNRSFEDGKV---EETKALETEVSTLQEKLKQLQSELEVKSKEVNTSEANAA 176

Query: 181 ALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           AL KQSEGFL EYDRLLEENQNLR+QLQS+D  LS S SKK++
Sbjct: 177 ALSKQSEGFLLEYDRLLEENQNLRSQLQSMDLGLSRSTSKKNT 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224113707|ref|XP_002316548.1| predicted protein [Populus trichocarpa] gi|222859613|gb|EEE97160.1| predicted protein [Populus trichocarpa]

 Score =  315 bits (807), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 158/211 (74%), Positives = 180/211 (85%), Gaps = 4/211 (1%)

Query: 13  MALIMVLLFKTPLRKLLIMSLDRVKRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWID 72
           MA+I++ +FKTPLRKLLIMSLDRVKRGRGPV+VKTVAGTV V+L+SSVY+++ IQKRWID
Sbjct: 1   MAMILLFVFKTPLRKLLIMSLDRVKRGRGPVMVKTVAGTVFVVLMSSVYSMVKIQKRWID 60

Query: 73  DEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRG 132
           D GAV NPTDQVLLA HLLEATLMG+ LFL  MIDRLHHYIRELR+RRKTME +K Q+R 
Sbjct: 61  DGGAV-NPTDQVLLAKHLLEATLMGSILFLGLMIDRLHHYIRELRMRRKTMEDVKKQNRS 119

Query: 133 FEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFE 192
           FEDGK    EE KALE + +TL+ KLK LESELE K+KE N +E NAVAL KQSEGFL E
Sbjct: 120 FEDGKV---EETKALEAEASTLREKLKQLESELEIKTKEVNTSEANAVALSKQSEGFLLE 176

Query: 193 YDRLLEENQNLRNQLQSLDWRLSHSGSKKDS 223
           YDRLLEENQNLR+QLQSLD R S S SKK++
Sbjct: 177 YDRLLEENQNLRSQLQSLDLRFSRSTSKKNT 207

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	223
TAIR|locus:1005716776	221	AT1G11905 "AT1G11905" [Arabido	0.991	1.0	0.457	3.1e-44
TAIR|locus:2152691	218	AT5G42570 "AT5G42570" [Arabido	0.860	0.880	0.494	3.1e-44
TAIR|locus:2152501	219	AT5G48660 "AT5G48660" [Arabido	0.860	0.876	0.336	1.3e-22
TAIR|locus:2098520	220	AT3G07190 "AT3G07190" [Arabido	0.860	0.872	0.326	3e-21
TAIR|locus:2092364	137	AT3G20450 "AT3G20450" [Arabido	0.587	0.956	0.398	1.2e-19

TAIR|locus:1005716776 AT1G11905 "AT1G11905" [Arabidopsis thaliana (taxid:3702)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 102/223 (45%), Positives = 132/223 (59%)

Query:     1 MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDXXXXXXXXXXXXXXXXXXXXMLISSV 60
             MQQLLF V+  E+ +IM L FKTP+RKLLIMSLD                    +L++SV
Sbjct:     1 MQQLLFAVVLFEVVVIMALSFKTPIRKLLIMSLDRSKRGRGPVVIQTVSATVIVLLVTSV 60

Query:    61 YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
             YN+M IQKRWI+D   VVNPTD+V++A HLLE+TLMG  LFL  MIDRLHHY+RELRIRR
Sbjct:    61 YNMMGIQKRWIED--GVVNPTDEVIMAKHLLESTLMGGFLFLGLMIDRLHHYMRELRIRR 118

Query:   121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMXXXXXXXXXXXXXXXXXXXXANAAETNAV 180
             K ME IK +    E  KA   +E+K L +++                        +T+AV
Sbjct:   119 KNMEVIKKEGALLEGVKARGLDEVKNLMEEITSLRKRQEQLDSELEARSKEIRTEKTSAV 178

Query:   181 ALRKQSEGFLFEYDXXXXXXXXXXXXXXSLDWRLSHSGSKKDS 223
             AL+KQSEGFL E++              ++D +LS S SKK++
Sbjct:   179 ALQKQSEGFLIEFNRLLEENQVLRDQLHTVDSKLSRSSSKKNT 221

GO:0003674 "molecular_function" evidence=ND

GO:0005737 "cytoplasm" evidence=ISM

GO:0005783 "endoplasmic reticulum" evidence=IEA;IDA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2152691 AT5G42570 "AT5G42570" [Arabidopsis thaliana (taxid:3702)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 96/194 (49%), Positives = 126/194 (64%)

Query:     1 MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDXXXXXXXXXXXXXXXXXXXXMLISSV 60
             M  LL+TV+F+EMALI++LLFKTPLRKL+I++ D                    +L+SS+
Sbjct:     1 MIHLLYTVIFAEMALILLLLFKTPLRKLIILTFDRIKRGRGPVVVKTIGTTVFVVLLSSI 60

Query:    61 YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
             Y+++ IQ+R   ++GAV+NPTDQVL + HLLEA+LMG  LFL+ MIDRLHHYIRELR+ R
Sbjct:    61 YSLVNIQRR--SEDGAVLNPTDQVLASKHLLEASLMGFVLFLSLMIDRLHHYIRELRLLR 118

Query:   121 KTMEAIKNQSRGFEDGKAASSEEIKALEDQMXXXXXXXXXXXXXXXXXXXXANAAETNAV 180
             KTME  K Q+RGFEDGK  S EE+KAL +++                       A+    
Sbjct:   119 KTMETAKKQNRGFEDGKTTSGEEVKALGEEIAALKAKIKTLESESESKGKELKGAQGETE 178

Query:   181 ALRKQSEGFLFEYD 194
             ALRKQ++GFL EYD
Sbjct:   179 ALRKQADGFLMEYD 192

GO:0003674 "molecular_function" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA;IDA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016021 "integral to membrane" evidence=IEA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2152501 AT5G48660 "AT5G48660" [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 68/202 (33%), Positives = 105/202 (51%)

Query:     1 MQQLLFTVMFSEMALIMVLLFKT-PLRKLLIMSLDXXXXXXXXXXXXXXXXXXXXMLISS 59
             M QLLF V+F E A+  +LL K  PLR+L+I SLD                    +L S+
Sbjct:     1 MIQLLFLVLFVEGAIAFLLLIKIGPLRELVIKSLDQMKMGKGPATVKTIAGTMSVILFSN 60

Query:    60 VYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIREL-RI 118
             + +I+ IQ +    +   ++P DQVL   HLLEA+L+G  LFL F+IDR+HHY+R+L  +
Sbjct:    61 LMSIVKIQNKGA--KLGTMSPMDQVLWRTHLLEASLLGVVLFLGFIIDRMHHYLRKLINL 118

Query:   119 R------RKTMEAIKNQSRGFEDGKAASSEEIKALEDQMXXXXXXXXXXXXXXXXXXXXA 172
             R      ++ +E ++ +    ++ +  +S+EIK L+ ++                     
Sbjct:   119 RSNVGSSKEELEQLQKERTELKEKEEKASKEIKQLQVKLSSITERLKKAETESKEKEKKL 178

Query:   173 NAAETNAVALRKQSEGFLFEYD 194
               AET+  AL+KQS   L EYD
Sbjct:   179 ETAETHVTALQKQSAELLLEYD 200

GO:0003674 "molecular_function" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2098520 AT3G07190 "AT3G07190" [Arabidopsis thaliana (taxid:3702)]

 Score = 249 (92.7 bits), Expect = 3.0e-21, P = 3.0e-21
 Identities = 66/202 (32%), Positives = 100/202 (49%)

Query:     1 MQQLLFTVMFSEMALIMVLLFKT-PLRKLLIMSLDXXXXXXXXXXXXXXXXXXXXMLISS 59
             M QLLF V+F E A+  +LL K  PLR+L++ SLD                    +L+S+
Sbjct:     1 MIQLLFLVLFVEGAIAFLLLVKIGPLRELVMKSLDQLKLGKRPATLKTIAGTMSVILLSN 60

Query:    60 VYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIR 119
             + NI+ IQ +    +   ++P DQVL   HLLEA+LMG  LF  F+IDR HHY+ +L   
Sbjct:    61 LMNIIKIQNKGA--KLGTMSPMDQVLWRTHLLEASLMGVVLFFGFIIDRTHHYLEKLITL 118

Query:   120 RKT-------MEAIKNQSRGFEDGKAASSEEIKALEDQMXXXXXXXXXXXXXXXXXXXXA 172
             R         +E ++ +    ++ +  +S+EIK L++++                     
Sbjct:   119 RSNVGSSKGELEELRKERIELKEKEEKTSKEIKQLKEKLSCVSENLKKLEKESKEKETKL 178

Query:   173 NAAETNAVALRKQSEGFLFEYD 194
               AE +  AL+KQS   L EYD
Sbjct:   179 ETAEAHVTALQKQSSELLLEYD 200

GO:0003674 "molecular_function" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2092364 AT3G20450 "AT3G20450" [Arabidopsis thaliana (taxid:3702)]

 Score = 234 (87.4 bits), Expect = 1.2e-19, P = 1.2e-19
 Identities = 53/133 (39%), Positives = 75/133 (56%)

Query:     1 MQQLLFTVMFSEMALIMVLLFKTPLRKLLIMSLDXXXXXXXXXXXXXXXXXXXXMLISSV 60
             M QLLFT++  E  LI+ L F TP R++++  LD                    +  S +
Sbjct:     5 MFQLLFTIVTIEAVLILTLGFGTPARRVVVKLLDLSKQGRAPLVAKTVAATMLVLFGSVM 64

Query:    61 YNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLMGASLFLAFMIDRLHHYIRELRIRR 120
             ++ + I  R + + G V N TDQV+ AN LLEA LMG  LFLA +IDR+H+Y REL+I R
Sbjct:    65 FSTIQIHTR-VSESGGVANSTDQVMFANRLLEAFLMGTVLFLAMVIDRMHYYTRELQITR 123

Query:   121 KTME-AIKNQSRG 132
             + +E A+K    G
Sbjct:   124 RNLEIAVKKGKTG 136


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.323   0.134   0.369    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      223       169   0.00082  108 3  10 22  0.47    31
                                                     31  0.47    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  5
  No. of states in DFA:  589 (63 KB)
  Total size of DFA:  180 KB (2105 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  18.61u 0.08s 18.69t   Elapsed:  00:00:02
  Total cpu time:  18.61u 0.08s 18.69t   Elapsed:  00:00:02
  Start:  Fri May 10 16:17:15 2013   End:  Fri May 10 16:17:17 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

---

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: GSVIVG00012113001 SubName- Full=Chromosome chr10 scaffold_179, whole genome shotgun sequence (Chromosome undetermined scaffold_2984, whole genome shotgun sequence); (218 aa) (Vitis vinifera)

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	223
pfam05529	149	pfam05529, Bap31, B-cell receptor-associated prote	3e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-04
pfam11336	514	pfam11336, DUF3138, Protein of unknown function (D	0.002
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	0.002

>gnl|CDD|218624 pfam05529, Bap31, B-cell receptor-associated protein 31-like

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 32/144 (22%), Positives = 67/144 (46%), Gaps = 16/144 (11%)

Query: 3   QLLFTVMFSEMA--LIMVLLFKTPLRKLLIMSLDRVKRGR-GPVVVKTVAGTVLVMLISS 59
            L+F ++++EMA  L++VL   +P+R+ +  S+ +++  +      K +   +LV+ I S
Sbjct: 6   TLVFGLLYAEMAVFLLLVLPLPSPIRRKIFKSVSKLQLSQQFQTGFKILLIFLLVLFIDS 65

Query: 60  VYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLEATLM---------GASLFLAFMIDRLH 110
           V  +          +G+          + +   A L          G +LFL  +I R+ 
Sbjct: 66  VRRVYKYSGE---LQGSGNASLGGGERSEYQTLARLFYAQRNLYLSGFTLFLTLVIRRVV 122

Query: 111 HYIRELRIRRKTMEAIKNQSRGFE 134
             + EL ++ + +EA+K Q+   +
Sbjct: 123 TLVEEL-VKLEELEALKKQAENLQ 145

Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31. Length = 149

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

 Score = 43.5 bits (103), Expect = 5e-05
 Identities = 32/121 (26%), Positives = 57/121 (47%), Gaps = 4/121 (3%)

Query: 106 IDRLHHYIRELRIRRK----TMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDL 161
           I RL    + LR R       +E ++ Q    E      +EE+  LE+++  LK +L+ L
Sbjct: 297 ISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESL 356

Query: 162 ESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHSGSKK 221
           E+ELE    E    E+    L +Q E    +  +L  +  +L N+++ L+ RL     ++
Sbjct: 357 EAELEELEAELEELESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRR 416

Query: 222 D 222
           +
Sbjct: 417 E 417

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

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 20/102 (19%), Positives = 44/102 (43%), Gaps = 7/102 (6%)

Query: 114 RELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEAN 173
           RE+    + +E ++ +            + +  L  ++  L+ +L+ L  ELE  S++ +
Sbjct: 677 REIEELEEKIEELEEKIA-------ELEKALAELRKELEELEEELEQLRKELEELSRQIS 729

Query: 174 AAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLS 215
           A   +   L  + E       +L +E   L  +++ L+ RL 
Sbjct: 730 ALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLE 771

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|221084 pfam11336, DUF3138, Protein of unknown function (DUF3138)

 Score = 38.4 bits (89), Expect = 0.002
 Identities = 19/82 (23%), Positives = 35/82 (42%), Gaps = 6/82 (7%)

Query: 136 GKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEAN------AAETNAVALRKQSEGF 189
             A+ + +IKAL+ Q+T L+ ++ +L + L  K   A       +A   A A        
Sbjct: 19  AAASDASQIKALQAQLTALQQQVNELRAALAAKPAAAGGGAKIQSAAAAAAAAPSSDAAA 78

Query: 190 LFEYDRLLEENQNLRNQLQSLD 211
               D + +  + + NQ   +D
Sbjct: 79  ALTNDDVTQMREQIANQSLKVD 100

This family of proteins with unknown function appear to be restricted to Proteobacteria. Length = 514

>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 37.3 bits (87), Expect = 0.002
 Identities = 22/94 (23%), Positives = 42/94 (44%), Gaps = 10/94 (10%)

Query: 120 RKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEAN---AAE 176
           R+ +  ++ +    ++  A   E++  L+ +   LK +L  LE+ELE   KE        
Sbjct: 65  RERLPELQQELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLS 124

Query: 177 TNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSL 210
            NA+ L ++          L EE   L+ + ++L
Sbjct: 125 ANAIELDEE-------NRELREELAELKQENEAL 151

Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region. Length = 198

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	223
KOG1962	216	consensus B-cell receptor-associated protein and r	100.0
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	100.0
COG5374	192	Uncharacterized conserved protein [Function unknow	100.0
KOG1962	216	consensus B-cell receptor-associated protein and r	98.8
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	96.67
COG4372	499	Uncharacterized protein conserved in bacteria with	96.48
PRK11637	428	AmiB activator; Provisional	96.3
PF02183	45	HALZ: Homeobox associated leucine zipper; InterPro	96.28
KOG0995	581	consensus Centromere-associated protein HEC1 [Cell	95.32
PF00038	312	Filament: Intermediate filament protein; InterPro:	95.24
PRK09039	343	hypothetical protein; Validated	95.01
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	94.56
COG5185	622	HEC1 Protein involved in chromosome segregation, i	94.55
PRK11637	428	AmiB activator; Provisional	94.43
PF14662	193	CCDC155: Coiled-coil region of CCDC155	94.24
PF06810	155	Phage_GP20: Phage minor structural protein GP20; I	93.37
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	93.24
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	92.85
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	92.85
PRK10884	206	SH3 domain-containing protein; Provisional	92.68
COG4942	420	Membrane-bound metallopeptidase [Cell division and	92.65
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	92.64
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	91.96
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	91.64
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	91.62
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	91.34
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	91.24
PF10481	307	CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR0	91.05
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	91.0
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	90.89
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	90.75
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	90.74
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	90.72
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	90.49
PF14662	193	CCDC155: Coiled-coil region of CCDC155	90.4
PF00038	312	Filament: Intermediate filament protein; InterPro:	89.92
PF12777	344	MT: Microtubule-binding stalk of dynein motor; Int	89.84
COG3879	247	Uncharacterized protein conserved in bacteria [Fun	89.82
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	89.78
PRK12704	520	phosphodiesterase; Provisional	89.64
PF10234	267	Cluap1: Clusterin-associated protein-1; InterPro:	89.52
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	89.24
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	89.21
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	89.19
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	88.92
PRK10884	206	SH3 domain-containing protein; Provisional	88.9
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	88.51
PF10186	302	Atg14: UV radiation resistance protein and autopha	88.39
PHA02562	562	46 endonuclease subunit; Provisional	88.37
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	88.05
COG4026	290	Uncharacterized protein containing TOPRIM domain,	87.93
PF13870	177	DUF4201: Domain of unknown function (DUF4201)	87.86
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	87.78
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	87.67
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	87.61
COG2433	652	Uncharacterized conserved protein [Function unknow	87.56
PF04977	80	DivIC: Septum formation initiator; InterPro: IPR00	87.54
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	87.48
PF10211	189	Ax_dynein_light: Axonemal dynein light chain; Inte	87.27
PF07407	420	Seadorna_VP6: Seadornavirus VP6 protein; InterPro:	87.14
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	86.94
PF05266	190	DUF724: Protein of unknown function (DUF724); Inte	86.86
KOG0999	772	consensus Microtubule-associated protein Bicaudal-	86.85
PF05483	786	SCP-1: Synaptonemal complex protein 1 (SCP-1); Int	86.79
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	86.68
PF03954	138	Lectin_N: Hepatic lectin, N-terminal domain; Inter	86.62
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	86.3
PF05529	192	Bap31: B-cell receptor-associated protein 31-like	86.23
KOG0963	629	consensus Transcription factor/CCAAT displacement	85.67
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	85.62
PF14584	151	DUF4446: Protein of unknown function (DUF4446)	85.54
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	85.51
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	85.35
PF15619	194	Lebercilin: Ciliary protein causing Leber congenit	85.3
PF10186	302	Atg14: UV radiation resistance protein and autopha	84.84
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	84.63
PF07061	83	Swi5: Swi5; InterPro: IPR010760 This entry represe	84.62
PF04136	157	Sec34: Sec34-like family ; InterPro: IPR007265 Sec	84.49
PRK03918	880	chromosome segregation protein; Provisional	84.47
COG4026	290	Uncharacterized protein containing TOPRIM domain,	84.26
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	84.12
PF15188	85	CCDC-167: Coiled-coil domain-containing protein 16	84.05
TIGR02894	161	DNA_bind_RsfA transcription factor, RsfA family. I	83.81
KOG0933	1174	consensus Structural maintenance of chromosome pro	83.78
PF12329	74	TMF_DNA_bd: TATA element modulatory factor 1 DNA b	83.63
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	83.58
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	83.57
KOG2264	907	consensus Exostosin EXT1L [Signal transduction mec	83.55
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	83.44
PRK09039	343	hypothetical protein; Validated	83.07
KOG0971	1243	consensus Microtubule-associated protein dynactin	82.86
PF09738	302	DUF2051: Double stranded RNA binding protein (DUF2	82.76
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	82.48
PF07200	150	Mod_r: Modifier of rudimentary (Mod(r)) protein; I	82.48
PF13094	160	CENP-Q: CENP-Q, a CENPA-CAD centromere complex sub	82.41
PRK15422	79	septal ring assembly protein ZapB; Provisional	82.05
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	81.82
PF04849	306	HAP1_N: HAP1 N-terminal conserved region; InterPro	81.58
KOG0996	1293	consensus Structural maintenance of chromosome pro	81.13
PF05615	139	THOC7: Tho complex subunit 7; InterPro: IPR008501	81.12
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	81.08
PF11544	76	Spc42p: Spindle pole body component Spc42p; InterP	80.91
PF10174	775	Cast: RIM-binding protein of the cytomatrix active	80.75
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	80.6
PF09403	126	FadA: Adhesion protein FadA; InterPro: IPR018543 F	80.39
PRK13169	110	DNA replication intiation control protein YabA; Re	80.39
PF04420	161	CHD5: CHD5-like protein; InterPro: IPR007514 Membe	80.16
PRK11281	1113	hypothetical protein; Provisional	80.04

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=100.00  E-value=3e-47  Score=322.86  Aligned_cols=207  Identities=31%  Similarity=0.421  Sum_probs=166.2

Q ss_pred             ChHHHHHHHHHHHHHHHHHhcchh-HHHH-HHHHHHHHhhcc-hhHHHHHHHHHHHHHHHHhHHHHHHhhhhcccccCCC
Q 027451            1 MQQLLFTVMFSEMALIMVLLFKTP-LRKL-LIMSLDRVKRGR-GPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAV   77 (223)
Q Consensus         1 ~~~lvf~~L~~Em~~~llLvlPlP-~R~~-~~~~l~~~~~~r-~~~~~~~~~~~l~vlF~Dai~~~~k~~~~~~~~~~~~   77 (223)
                      ||++||++||+||+++++||+|+| .||. ++....+...++ +.+++.+++++++++|+|||+++++|...+.....++
T Consensus         1 ~~tlvf~iL~~Eial~~iL~Lpip~r~~~~~~~~~~~~~~~~~~~~~i~~~~~villlfiDsvr~i~~~~~~~~~~~n~~   80 (216)
T KOG1962|consen    1 YWTLVFTILYAEIALFLILLLPIPPRRRRKIFKDRLKSGLAPQVLKTIATTMIVILLLFIDSVRRIQKYVSEYGSMANPT   80 (216)
T ss_pred             CHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccCCc
Confidence            799999999999999999999997 4444 334444555555 8899999999999999999999999988753321233


Q ss_pred             CCch--hHHHHHHHHHH--HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHH
Q 027451           78 VNPT--DQVLLANHLLE--ATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTT  153 (223)
Q Consensus        78 ~~~~--~~~~~r~~~~q--~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~  153 (223)
                      ++|.  .+.++..|+.|  .|||||+|||||||+|+|+++++++.++++ +.++++++.+.+..+..+    .+.+++++
T Consensus        81 ~~~~a~~~~~~~l~raqrn~YisGf~LFL~lvI~R~~~ll~~l~~l~~~-~~~~~~~~~lk~~~~~~~----~~~~~~~~  155 (216)
T KOG1962|consen   81 DQPLARTHLLEALFRAQRNLYISGFVLFLSLVIRRLHTLLRELATLRAN-EKAMKENEALKKQLENSS----KLEEENDK  155 (216)
T ss_pred             cchHHHHHHHHHHHHHHhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHhh-HHHHHHHHHHHHhhhccc----chhhhHHH
Confidence            4443  56777766665  599999999999999999999999999996 555554444333211111    14556667


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcc
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDW  212 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~  212 (223)
                      ..++.++|+.+++++++++++++++.++|+||++++++|||||++||++||++++.+..
T Consensus       156 ~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~~~~  214 (216)
T KOG1962|consen  156 LKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIESGGK  214 (216)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhccCC
Confidence            78899999999999999999999999999999999999999999999999999987653

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=100.00  E-value=8.6e-43  Score=293.32  Aligned_cols=180  Identities=29%  Similarity=0.468  Sum_probs=147.4

Q ss_pred             hHHHHHHHHHHHHHHHHHhcchh--HHHHHHHHHHHH-hhcchhHHHHHHHHHHHHHHHHhHHHHHHhhhhcccccCCCC
Q 027451            2 QQLLFTVMFSEMALIMVLLFKTP--LRKLLIMSLDRV-KRGRGPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVV   78 (223)
Q Consensus         2 ~~lvf~~L~~Em~~~llLvlPlP--~R~~~~~~l~~~-~~~r~~~~~~~~~~~l~vlF~Dai~~~~k~~~~~~~~~~~~~   78 (223)
                      |++||++|++||+++++||+|+|  +|+.++++++.. ..+++++++++++++++++|+|||++|+||+.++++..+++.
T Consensus         5 ~~lvf~~L~~Ei~~~~lL~lPlp~~~R~~i~~~~~~~~~~~~~~~~~~~~~~~~~~lf~ds~~~~~k~~~~~~~~~~~~~   84 (192)
T PF05529_consen    5 WSLVFGLLYAEIAVLLLLVLPLPSPIRRKIFKFLDKSFFSGKFKTVFKILLAILLLLFLDSIRRMYKYSSEYEEAKDDHP   84 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccCC
Confidence            79999999999999999999995  998999988854 455699999999999999999999999999987654211222


Q ss_pred             --C-chhHHHHHHHHHH--HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHH
Q 027451           79 --N-PTDQVLLANHLLE--ATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTT  153 (223)
Q Consensus        79 --~-~~~~~~~r~~~~q--~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~  153 (223)
                        + +.++++|++||+|  +|||||+|||++||+|+++++.+++.++++.+++.+|+++++++..       ..      
T Consensus        85 ~~~~~~~~~~~~~fraQRN~YIsGf~LfL~l~I~r~~~li~~l~~~~~~~~~~~kq~~~~~~~~~-------~~------  151 (192)
T PF05529_consen   85 NPDRTEDQVLAKKFRAQRNMYISGFALFLSLVIRRVHSLIKELIKLEEKLEALKKQAESASEAAE-------KL------  151 (192)
T ss_pred             CccchhHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh-------hh------
Confidence              2 3588899999999  8999999999999999999999999999999999999887764221       10      


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHH
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYD  194 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYD  194 (223)
                      ..++.++++.|+++.+++++++++|+++||||++|+++|||
T Consensus       152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~eyd  192 (192)
T PF05529_consen  152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQKEYD  192 (192)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            12233444555555555555666789999999999999998

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

>COG5374 Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=1.7e-33  Score=230.73  Aligned_cols=173  Identities=21%  Similarity=0.293  Sum_probs=133.3

Q ss_pred             hHHHHHHHHHHHHHHHHHhcchh--HHHHHHHHHHHHhhcc-hhHHHHHHHHHHHHHHHHhHHHHHHhhhhcccccCCCC
Q 027451            2 QQLLFTVMFSEMALIMVLLFKTP--LRKLLIMSLDRVKRGR-GPVVVKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVV   78 (223)
Q Consensus         2 ~~lvf~~L~~Em~~~llLvlPlP--~R~~~~~~l~~~~~~r-~~~~~~~~~~~l~vlF~Dai~~~~k~~~~~~~~~~~~~   78 (223)
                      |++||.+|++||++|++|+||+|  .||++++.++.++..+ ++++++++++++++||+|||+|+++++.+.....+...
T Consensus         5 ~~lvfslL~vEm~~f~il~LPlp~r~RR~l~~~~~~~~~~~~~k~il~i~~~~IllLFiDS~~Rv~rv~~~~nl~~a~~n   84 (192)
T COG5374           5 YTLVFSLLVVEMVMFFILVLPLPKRLRRSLMKLYSTSKVYRGFKHILKITFIFILLLFIDSWKRVYRVSKEANLYSASIN   84 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhcccccc
Confidence            78999999999999999999999  8899999999777665 99999999999999999999999999988654321111


Q ss_pred             C---chhHHHHHHHHHH--HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHH
Q 027451           79 N---PTDQVLLANHLLE--ATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTT  153 (223)
Q Consensus        79 ~---~~~~~~~r~~~~q--~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~  153 (223)
                      +   ...++++|+||+|  ||||||+|||++|+.|+++++.+++..++...              ++.|.          
T Consensus        85 ~~~~~~i~~las~fy~qrnmyl~g~~L~l~~~v~~~~~~v~~ml~~~~~~~--------------~k~D~----------  140 (192)
T COG5374          85 NYAVTRIAVLASRFYAQRNMYLSGSALFLSIVVMRVMSIVEEMLEENAKKG--------------GKIDK----------  140 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc--------------cchhh----------
Confidence            1   1268999999999  89999999999999999999999998887222              11111          


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      .+++..+||+       ++.++..+++.|+|+-+++.++||...    ++.++.++
T Consensus       141 ~eA~~t~lk~-------~~~~~~~~le~Lqkn~~~~~k~~d~~n----e~~~~v~~  185 (192)
T COG5374         141 MEADSTDLKA-------RLRKAQILLEGLQKNQEELFKLLDKYN----ELREQVQK  185 (192)
T ss_pred             hhcchHHHHH-------HHhhhhHHHHHHHHHHHHHHHHHHHHh----HHHHHHHH
Confidence            1122233443       444555678999998888777776554    44444443

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=98.80  E-value=5.4e-07  Score=77.28  Aligned_cols=158  Identities=23%  Similarity=0.300  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHHHHhHHHHHHhhhhcccccCCCCCchhHHHHHHHHHH-HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027451           45 VKTVAGTVLVMLISSVYNIMMIQKRWIDDEGAVVNPTDQVLLANHLLE-ATLMGASLFLAFMIDRLHHYIRELRIRRKTM  123 (223)
Q Consensus        45 ~~~~~~~l~vlF~Dai~~~~k~~~~~~~~~~~~~~~~~~~~~r~~~~q-~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~  123 (223)
                      .++++++++++++--+-.+++++...... ++..+|+++..++.++.. +|.+++-+|++=++==+.-+|.++..+-..+
T Consensus        45 ~~~i~~~~~villlfiDsvr~i~~~~~~~-~~~~n~~~~~~a~~~~~~~l~raqrn~YisGf~LFL~lvI~R~~~ll~~l  123 (216)
T KOG1962|consen   45 LKTIATTMIVILLLFIDSVRRIQKYVSEY-GSMANPTDQPLARTHLLEALFRAQRNLYISGFVLFLSLVIRRLHTLLREL  123 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhh-hcccCCccchHHHHHHHHHHHHHHhhhHHhHHHHHHHHHHHHHHHHHHHH
Confidence            35566788899999999999999987666 566789999999988888 7999999999866666667777787777766


Q ss_pred             HHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHH
Q 027451          124 EAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNL  203 (223)
Q Consensus       124 ~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l  203 (223)
                      ..++.+ +.+.+    ..+..+...+.-..+.+|..+++.+++.+++++++-..+++...++.+.+.+--+++.+||..|
T Consensus       124 ~~l~~~-~~~~~----~~~~lk~~~~~~~~~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrL  198 (216)
T KOG1962|consen  124 ATLRAN-EKAMK----ENEALKKQLENSSKLEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRL  198 (216)
T ss_pred             HHHHhh-HHHHH----HHHHHHHhhhcccchhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHH
Confidence            666543 11111    1111222211112256778889999999999999999999999999999999999999999998


Q ss_pred             HHhHh
Q 027451          204 RNQLQ  208 (223)
Q Consensus       204 ~~~l~  208 (223)
                      -++-+
T Consensus       199 lee~~  203 (216)
T KOG1962|consen  199 LEEYS  203 (216)
T ss_pred             HHHHH
Confidence            76544

>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=96.67  E-value=0.063  Score=43.27  Aligned_cols=95  Identities=22%  Similarity=0.306  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 027451          105 MIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRK  184 (223)
Q Consensus       105 vI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKk  184 (223)
                      ||+-++.+|.....-....+.+..              +......+++.+...+++|+.+++.++.++..++.+..++++
T Consensus        36 vin~i~~Ll~~~~r~~~~~e~l~~--------------~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~  101 (151)
T PF11559_consen   36 VINCIYDLLQQRDRDMEQREDLSD--------------KLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQK  101 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            677777777666555555554432              333444556667777888888888888888777777888888


Q ss_pred             hHhhHHHHHHHHHHHHHHHHHhHhhhccc
Q 027451          185 QSEGFLFEYDRLLEENQNLRNQLQSLDWR  213 (223)
Q Consensus       185 Qae~l~~EYDrL~~e~~~l~~~l~~~~~~  213 (223)
                      +...+..---...+|.++++..++.-...
T Consensus       102 ~~~~~~~~~k~~kee~~klk~~~~~~~tq  130 (151)
T PF11559_consen  102 QLKSLEAKLKQEKEELQKLKNQLQQRKTQ  130 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88887777777777777777766654433

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.

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

Probab=96.48  E-value=0.074  Score=49.57  Aligned_cols=115  Identities=19%  Similarity=0.276  Sum_probs=80.5

Q ss_pred             HHHHhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHH
Q 027451           93 ATLMGASLFLAFMIDR-LHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKE  171 (223)
Q Consensus        93 ~YIsGF~LFL~lvI~R-~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~e  171 (223)
                      |-||..+|-..|+++| +.+=|.++.....++++++.+.+.++..+..-..|-++...|....++|-+..+.++....++
T Consensus        52 ~liSA~tLailf~~~~~lr~gVfqlddi~~qlr~~rtel~~a~~~k~~~e~er~~~~~El~~~r~e~~~v~~~~~~a~~n  131 (499)
T COG4372          52 MLISAATLAILFLLNRNLRSGVFQLDDIRPQLRALRTELGTAQGEKRAAETEREAARSELQKARQEREAVRQELAAARQN  131 (499)
T ss_pred             chhhHHHHHHHHHhhhhHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5777778877777776 456677888888888888887666554221111111222334455566777778888888889


Q ss_pred             HHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          172 ANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       172 l~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      +.+|..++.-+.+|+.+++.+.-.|.+++.++-.+.
T Consensus       132 ~~kAqQ~lar~t~Q~q~lqtrl~~l~~qr~ql~aq~  167 (499)
T COG4372         132 LAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQA  167 (499)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999888877777776654333

>PRK11637 AmiB activator; Provisional

Probab=96.30  E-value=0.12  Score=48.52  Aligned_cols=58  Identities=9%  Similarity=-0.012  Sum_probs=34.4

Q ss_pred             HhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHH
Q 027451          146 ALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNL  203 (223)
Q Consensus       146 ~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l  203 (223)
                      ...+++..+..+++.++.++...+.++...+.+++.+.++.+.++.+.+...+.....
T Consensus        72 ~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~r  129 (428)
T PRK11637         72 SLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQ  129 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444445555566666666666666666666666666666666666666665555443

>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []

Probab=96.28  E-value=0.011  Score=38.66  Aligned_cols=36  Identities=36%  Similarity=0.523  Sum_probs=32.2

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhc
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      |.|-++||.+.+.|..+||+|..|++.|+.++...-
T Consensus         4 E~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~   39 (45)
T PF02183_consen    4 ERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELK   39 (45)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            458999999999999999999999999999887543

; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

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

Probab=95.32  E-value=1.2  Score=43.59  Aligned_cols=58  Identities=28%  Similarity=0.338  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhH---HHHHHHHHHHHHHHHHhHhhhc
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGF---LFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l---~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      ..++++.|+.|++.++.|+++-+.+.+.||+|.++.   -.++.|..-|.++++..+..+.
T Consensus       292 ~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~  352 (581)
T KOG0995|consen  292 MEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQ  352 (581)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788999999999999999999999999999887   5678888888888887776554

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

Probab=95.24  E-value=0.74  Score=41.02  Aligned_cols=30  Identities=20%  Similarity=0.424  Sum_probs=20.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccccc
Q 027451          105 MIDRLHHYIRELRIRRKTMEAIKNQSRGFE  134 (223)
Q Consensus       105 vI~R~~~li~~l~~~~~~~~al~kQa~~~~  134 (223)
                      .-+|+.++|.+...++.....+..+.....
T Consensus         9 LNdRla~YIekVr~LE~~N~~Le~~i~~~~   38 (312)
T PF00038_consen    9 LNDRLASYIEKVRFLEQENKRLESEIEELR   38 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            456788888888888887777776655444

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 ....

>PRK09039 hypothetical protein; Validated

Probab=95.01  E-value=1.8  Score=39.79  Aligned_cols=45  Identities=13%  Similarity=0.124  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHH
Q 027451          153 TLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLL  197 (223)
Q Consensus       153 ~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~  197 (223)
                      .++.+++.|+.++...+.+|..++......+.|.+.+..+-+..+
T Consensus       141 ~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~  185 (343)
T PRK09039        141 LLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVAL  185 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444555555554444444444444444444444444444443

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=94.56  E-value=0.4  Score=40.33  Aligned_cols=65  Identities=31%  Similarity=0.385  Sum_probs=52.3

Q ss_pred             HHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          143 EIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       143 ~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ....+..++..+..++..|+.+++++.+.+.....++.+|.-|..-++....+|.+||..|=+..
T Consensus       117 ~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw  181 (194)
T PF08614_consen  117 RLAELEAELAQLEEKIKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW  181 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566667777888888888888888888888888888888888888888888888888875544

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.

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

Probab=94.55  E-value=4.7  Score=38.84  Aligned_cols=56  Identities=29%  Similarity=0.383  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhH---HHHHHHHHHHHHHHHHhHhhhc
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGF---LFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l---~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      ..+++|+.+++.++.+++.-+.+.+.|++|.++.   ..+|.....|.++|-..|+++.
T Consensus       330 g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~  388 (622)
T COG5185         330 GKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKIN  388 (622)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            3578999999999999999999999999998765   3456556666666666665544

>PRK11637 AmiB activator; Provisional

Probab=94.43  E-value=0.82  Score=42.94  Aligned_cols=44  Identities=18%  Similarity=0.252  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHH
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEEN  200 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~  200 (223)
                      +++.+..+++..+.++...+.+++.+..+.+.++.+-+.+.++.
T Consensus        76 ~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l  119 (428)
T PRK11637         76 QLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ  119 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333333

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=94.24  E-value=0.95  Score=38.45  Aligned_cols=9  Identities=11%  Similarity=0.434  Sum_probs=3.5

Q ss_pred             HHHHHhccc
Q 027451          123 MEAIKNQSR  131 (223)
Q Consensus       123 ~~al~kQa~  131 (223)
                      ...+.+|.+
T Consensus        45 ~~~L~~q~~   53 (193)
T PF14662_consen   45 ITDLRKQLK   53 (193)
T ss_pred             HHHHHHHHH
Confidence            333444433

>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length

Probab=93.37  E-value=0.81  Score=37.49  Aligned_cols=49  Identities=20%  Similarity=0.251  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh---hhHHHHHHHhHhhHHHHHHHHHHHHHH
Q 027451          154 LKLKLKDLESELETKSKEANAA---ETNAVALRKQSEGFLFEYDRLLEENQN  202 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~---~~d~~aLKkQae~l~~EYDrL~~e~~~  202 (223)
                      ..++.+.++.+|+..++.++.-   ..|.+.|++|++.++.+|+.-.++|+.
T Consensus        25 ~~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e~   76 (155)
T PF06810_consen   25 VKEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYEA   76 (155)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445666666666666554443   459999999999999999977777764

The function of this family is unknown.; GO: 0005198 structural molecule activity

>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=93.24  E-value=3.3  Score=32.73  Aligned_cols=60  Identities=25%  Similarity=0.370  Sum_probs=35.5

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhh----hHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAAE----TNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~~----~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      +...+..++..|+.+.+.....+..++    .....|.++.+.+..-++.|.+.|.-|-++++.
T Consensus        67 e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~le~e~~~~~~r~~dL~~QN~lLh~QlE~  130 (132)
T PF07926_consen   67 ELQELQQEINELKAEAESAKAELEESEASWEEQKEQLEKELSELEQRIEDLNEQNKLLHDQLES  130 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            333333444444444444444443332    234567777788888888888777778888764

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

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.85  E-value=1.9  Score=38.48  Aligned_cols=14  Identities=21%  Similarity=0.396  Sum_probs=5.5

Q ss_pred             HHHHHHHHHhHHHH
Q 027451           88 NHLLEATLMGASLF  101 (223)
Q Consensus        88 ~~~~q~YIsGF~LF  101 (223)
                      |.++-+-+.+++.+
T Consensus         3 kk~~~a~~~s~v~~   16 (265)
T COG3883           3 KKILLAVLLSLVII   16 (265)
T ss_pred             hHHHHHHHHHHHHH
Confidence            33444333333333

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

Probab=92.85  E-value=2.2  Score=37.48  Aligned_cols=32  Identities=16%  Similarity=0.248  Sum_probs=16.3

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      +.++++.+.+...+..|-.++.++.+++++++
T Consensus        95 ~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i  126 (239)
T COG1579          95 NIEIQIAKERINSLEDELAELMEEIEKLEKEI  126 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33445555555555555555555555544443

>PRK10884 SH3 domain-containing protein; Provisional

Probab=92.68  E-value=1.2  Score=38.16  Aligned_cols=20  Identities=0%  Similarity=0.046  Sum_probs=9.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhc
Q 027451          110 HHYIRELRIRRKTMEAIKNQ  129 (223)
Q Consensus       110 ~~li~~l~~~~~~~~al~kQ  129 (223)
                      -+...++..++.+++.++.+
T Consensus        89 p~~~~rlp~le~el~~l~~~  108 (206)
T PRK10884         89 PSLRTRVPDLENQVKTLTDK  108 (206)
T ss_pred             ccHHHHHHHHHHHHHHHHHH
Confidence            33444555555555555443

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

Probab=92.65  E-value=2.5  Score=40.07  Aligned_cols=94  Identities=26%  Similarity=0.303  Sum_probs=45.3

Q ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHH
Q 027451           90 LLEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKS  169 (223)
Q Consensus        90 ~~q~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~  169 (223)
                      +...-++|++++.+++   ....-.++-..+.++++..+.              .....++-+.+.+++++++.++...+
T Consensus        17 ~~~~~l~~~~~~~s~s---~~a~~~~l~q~q~ei~~~~~~--------------i~~~~~~~~kL~~~lk~~e~~i~~~~   79 (420)
T COG4942          17 LLASLLSAAVLAAAFS---AAADDKQLKQIQKEIAALEKK--------------IREQQDQRAKLEKQLKSLETEIASLE   79 (420)
T ss_pred             HHHHHHHhcccccchh---HHhHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344566777777766   333324555555555544332              11222222334444555555555555


Q ss_pred             HHHHHhhhHHHHHHHhHhhHHHHHHHHHHHH
Q 027451          170 KEANAAETNAVALRKQSEGFLFEYDRLLEEN  200 (223)
Q Consensus       170 ~el~~~~~d~~aLKkQae~l~~EYDrL~~e~  200 (223)
                      .++...+.+++.+.++++.+...-..|..++
T Consensus        80 ~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~  110 (420)
T COG4942          80 AQLIETADDLKKLRKQIADLNARLNALEVQE  110 (420)
T ss_pred             HHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            5555555555555555555544444444333

>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=92.64  E-value=4.6  Score=32.64  Aligned_cols=29  Identities=17%  Similarity=0.279  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhccccccc
Q 027451          107 DRLHHYIRELRIRRKTMEAIKNQSRGFED  135 (223)
Q Consensus       107 ~R~~~li~~l~~~~~~~~al~kQa~~~~~  135 (223)
                      +++-++=++|...+++.+.+..+++++..
T Consensus        24 ~~v~~LEreLe~~q~~~e~~~~daEn~k~   52 (140)
T PF10473_consen   24 DHVESLERELEMSQENKECLILDAENSKA   52 (140)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            45666667777777777777776665543

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

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

Probab=91.96  E-value=3.2  Score=35.30  Aligned_cols=15  Identities=13%  Similarity=-0.073  Sum_probs=6.1

Q ss_pred             HHHhHHHHHHHHHHH
Q 027451           94 TLMGASLFLAFMIDR  108 (223)
Q Consensus        94 YIsGF~LFL~lvI~R  108 (223)
                      |-...|.=-.=.|..
T Consensus        17 YYndIT~~NL~lIks   31 (201)
T PF13851_consen   17 YYNDITLNNLELIKS   31 (201)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            444444433333333

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=91.64  E-value=1.4  Score=40.06  Aligned_cols=26  Identities=27%  Similarity=0.318  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHH
Q 027451          159 KDLESELETKSKEANAAETNAVALRK  184 (223)
Q Consensus       159 ~~Lk~el~~~~~el~~~~~d~~aLKk  184 (223)
                      ++|+.+-+..++++...+.+.+.++.
T Consensus        67 ~~LE~e~~~l~~el~~le~e~~~l~~   92 (314)
T PF04111_consen   67 EELEKEREELDQELEELEEELEELDE   92 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333

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.

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

Probab=91.62  E-value=6.8  Score=32.34  Aligned_cols=56  Identities=27%  Similarity=0.363  Sum_probs=31.3

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHH
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRN  205 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~  205 (223)
                      .+..++...+++.+++....+++...+..++.++.+.+.++.+|+++.+..++++.
T Consensus       131 ~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  186 (191)
T PF04156_consen  131 RLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERLQENLQQLEEKIQELQE  186 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344445555555555555444445556666666666666666666555544443

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 [].

>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=91.34  E-value=5.7  Score=34.59  Aligned_cols=48  Identities=19%  Similarity=0.210  Sum_probs=24.4

Q ss_pred             HHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHH
Q 027451          145 KALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFE  192 (223)
Q Consensus       145 ~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~E  192 (223)
                      ..+..++..+..+++.|+...+..++.+...+.+++.|+.|.++...-
T Consensus        52 ~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~   99 (251)
T PF11932_consen   52 QELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEET   99 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444455555555555555555555555555555555555443

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.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=91.24  E-value=3.4  Score=37.54  Aligned_cols=29  Identities=28%  Similarity=0.179  Sum_probs=11.6

Q ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          179 AVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       179 ~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ...++.+.-.++.|.+.+...++..++++
T Consensus       101 ~n~~~~~l~~~~~e~~sl~~q~~~~~~~L  129 (314)
T PF04111_consen  101 YNELQLELIEFQEERDSLKNQYEYASNQL  129 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333344444444444443333333

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.

>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []

Probab=91.05  E-value=3.7  Score=36.79  Aligned_cols=63  Identities=24%  Similarity=0.196  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccccC
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSH  216 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~~  216 (223)
                      +....++|..++..++-.+.-.+..+..-|+|.+.|+.|--|+..|.++.|.....+|.-.+.
T Consensus        79 lek~rqKlshdlq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~~~~sl~~  141 (307)
T PF10481_consen   79 LEKTRQKLSHDLQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASSGDVSLNP  141 (307)
T ss_pred             HHHHHHHhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCccccc
Confidence            334456778888888888888888999999999999999999999999999998888866443

Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=91.00  E-value=3.6  Score=40.78  Aligned_cols=78  Identities=18%  Similarity=0.233  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhH
Q 027451          107 DRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQS  186 (223)
Q Consensus       107 ~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQa  186 (223)
                      .++..++.++..++.+++.+.++...+..     .+..+.+.++...+..++.+++.+++..       +.+++.+++|.
T Consensus       391 ~~~~~~~~~~~~~e~el~~l~~~l~~~~~-----~e~i~~l~e~l~~l~~~l~~~~~~~~~~-------~~~~~~~~~~i  458 (650)
T TIGR03185       391 DAKSQLLKELRELEEELAEVDKKISTIPS-----EEQIAQLLEELGEAQNELFRSEAEIEEL-------LRQLETLKEAI  458 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCC-----hHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence            56777777788888888777776554432     1123333333333333444444444433       33444455555


Q ss_pred             hhHHHHHHHH
Q 027451          187 EGFLFEYDRL  196 (223)
Q Consensus       187 e~l~~EYDrL  196 (223)
                      +.+.++++++
T Consensus       459 ~~~~~~~~~~  468 (650)
T TIGR03185       459 EALRKTLDEK  468 (650)
T ss_pred             HHHHHHHHHH
Confidence            5554444444

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.

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=90.89  E-value=4.7  Score=38.70  Aligned_cols=80  Identities=19%  Similarity=0.238  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhh-hHHHHHHHhHh
Q 027451          109 LHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAE-TNAVALRKQSE  187 (223)
Q Consensus       109 ~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~-~d~~aLKkQae  187 (223)
                      +-.++.++-.++.+++.+.+|                     |+.+.+|+++|++.....+..+..+- .....+.+|.+
T Consensus        61 lrTlva~~k~~r~~~~~l~~~---------------------N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~  119 (472)
T TIGR03752        61 LRTLVAEVKELRKRLAKLISE---------------------NEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIE  119 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHH
Confidence            344555666666666666543                     22344455555544444444443332 23445666666


Q ss_pred             hHHHHHHHHHHHHHHHHHhHhh
Q 027451          188 GFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       188 ~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      .++.+-.++....+.|+.+|+.
T Consensus       120 ql~~~~~~~~~~l~~l~~~l~~  141 (472)
T TIGR03752       120 QLKSERQQLQGLIDQLQRRLAG  141 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            6766766777777777777753

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>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=90.75  E-value=3.2  Score=40.55  Aligned_cols=58  Identities=24%  Similarity=0.339  Sum_probs=29.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      .+..+.+++..|+.++...+.++...+...+.|+.+.+.+......+..|.+.|+.+.
T Consensus       158 ~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~  215 (546)
T PF07888_consen  158 ENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQL  215 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555555555555555555555555555555555555555544444333

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 [].

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=90.74  E-value=9.4  Score=32.33  Aligned_cols=12  Identities=0%  Similarity=0.022  Sum_probs=6.4

Q ss_pred             HHHHhHHHHHHh
Q 027451           55 MLISSVYNIMMI   66 (223)
Q Consensus        55 lF~Dai~~~~k~   66 (223)
                      .|++.+..|.+.
T Consensus        51 ~f~~l~e~v~~l   62 (190)
T PF05266_consen   51 TFANLAEKVKKL   62 (190)
T ss_pred             HHHHHHHHHHHc
Confidence            566555544443

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

Probab=90.72  E-value=3.8  Score=37.26  Aligned_cols=8  Identities=13%  Similarity=0.027  Sum_probs=3.5

Q ss_pred             hHHHHHHh
Q 027451           59 SVYNIMMI   66 (223)
Q Consensus        59 ai~~~~k~   66 (223)
                      +.+++.++
T Consensus        76 ~c~EL~~~   83 (325)
T PF08317_consen   76 SCRELKKY   83 (325)
T ss_pred             HHHHHHHH
Confidence            44444333

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

Probab=90.49  E-value=4.4  Score=40.88  Aligned_cols=64  Identities=23%  Similarity=0.298  Sum_probs=42.5

Q ss_pred             hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHh-HhhHHHHHHHHHHHHHHHHHhHhhhc
Q 027451          147 LEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQ-SEGFLFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       147 ~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQ-ae~l~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      .......+..|+++|+.|++.+++.+..+|.++..|+++ -| -++|=+-|+...+-+|++-...+
T Consensus       543 ~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e-~~~~~e~L~~aL~amqdk~~~LE  607 (697)
T PF09726_consen  543 CRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKYEKE-SEKDTEVLMSALSAMQDKNQHLE  607 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHHHHHHHH
Confidence            333445567788888888888888888888888888886 33 34555555555555555544443

; GO: 0016021 integral to membrane

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=90.40  E-value=6.6  Score=33.43  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=10.7

Q ss_pred             hHhhHHHHHHHHHHHHHHHHHhH
Q 027451          185 QSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       185 Qae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ..+++++-|..|..+...||.++
T Consensus       117 e~~~lk~~~~eL~~~~~~Lq~Ql  139 (193)
T PF14662_consen  117 ERDGLKKRSKELATEKATLQRQL  139 (193)
T ss_pred             hhhhHHHHHHHHHHhhHHHHHHH
Confidence            33344444444444555555555

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

Probab=89.92  E-value=12  Score=33.30  Aligned_cols=27  Identities=15%  Similarity=0.285  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027451          103 AFMIDRLHHYIRELRIRRKTMEAIKNQ  129 (223)
Q Consensus       103 ~lvI~R~~~li~~l~~~~~~~~al~kQ  129 (223)
                      .=.|.||..+=.+...++.....+...
T Consensus        14 a~YIekVr~LE~~N~~Le~~i~~~~~~   40 (312)
T PF00038_consen   14 ASYIEKVRFLEQENKRLESEIEELREK   40 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHhc
Confidence            336788888888888888887777654

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 ....

>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=89.84  E-value=0.37  Score=44.12  Aligned_cols=34  Identities=18%  Similarity=0.181  Sum_probs=16.6

Q ss_pred             HHHHhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 027451           93 ATLMGASLFLAF-MIDRLHHYIRELRIRRKTMEAI  126 (223)
Q Consensus        93 ~YIsGF~LFL~l-vI~R~~~li~~l~~~~~~~~al  126 (223)
                      +...+-.|+.|. .+...+.+......++..++.+
T Consensus       192 ~S~Aa~~Lc~WV~A~~~Y~~v~~~V~P~~~~l~~a  226 (344)
T PF12777_consen  192 ASKAAGSLCKWVRAMVKYYEVNKEVEPKRQKLEEA  226 (344)
T ss_dssp             H-TTHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC
T ss_pred             HhhcchHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            445555666663 2444444444555555544443

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.

>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.82  E-value=9.5  Score=33.71  Aligned_cols=74  Identities=16%  Similarity=0.204  Sum_probs=36.3

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHH
Q 027451           91 LEATLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSK  170 (223)
Q Consensus        91 ~q~YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~  170 (223)
                      ..+-+.|+++++++-+..+..-+.--+..+.         -+-..  ...+... .+.+++..+.++..+|+.|++..++
T Consensus        11 ~~~l~a~v~~~~s~~~~~~l~~~~~a~~~q~---------~k~~~--~~~~r~~-~L~~e~~s~Q~~~~~L~~ev~~~~~   78 (247)
T COG3879          11 LEMLDAGVFWMLSISLAMLLAGVMLAAVFQT---------SKGES--VRRARDL-DLVKELRSLQKKVNTLAAEVEDLEN   78 (247)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---------ccCcc--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3467788888877766655443332222222         10000  0011111 4444555556666666666666666


Q ss_pred             HHHHhh
Q 027451          171 EANAAE  176 (223)
Q Consensus       171 el~~~~  176 (223)
                      .+.+.+
T Consensus        79 ~~~s~~   84 (247)
T COG3879          79 KLDSVR   84 (247)
T ss_pred             HHHHHH
Confidence            554444

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=89.78  E-value=3.4  Score=34.68  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=9.9

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHH
Q 027451          150 QMTTLKLKLKDLESELETKSKEA  172 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el  172 (223)
                      .+..+..++..|+.++...+.++
T Consensus       117 ~l~~l~~~~~~L~~~~~~l~~~l  139 (194)
T PF08614_consen  117 RLAELEAELAQLEEKIKDLEEEL  139 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444433

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.

>PRK12704 phosphodiesterase; Provisional

Probab=89.64  E-value=12  Score=36.34  Aligned_cols=25  Identities=24%  Similarity=0.197  Sum_probs=11.1

Q ss_pred             hhhHHHHHHHhHhhHHHHHHHHHHH
Q 027451          175 AETNAVALRKQSEGFLFEYDRLLEE  199 (223)
Q Consensus       175 ~~~d~~aLKkQae~l~~EYDrL~~e  199 (223)
                      -+.+++..+++.+...++|+++.++
T Consensus       115 re~~Le~re~eLe~~~~~~~~~~~~  139 (520)
T PRK12704        115 KEKELEQKQQELEKKEEELEELIEE  139 (520)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444433

>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin

Probab=89.52  E-value=4.6  Score=36.07  Aligned_cols=56  Identities=27%  Similarity=0.405  Sum_probs=32.4

Q ss_pred             hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHH
Q 027451          147 LEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQN  202 (223)
Q Consensus       147 ~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~  202 (223)
                      ....+..+..+-..|...++.++.|+.++++-+++|++===..-.||+++-.|.++
T Consensus       181 ~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vRPAfmdEyEklE~EL~~  236 (267)
T PF10234_consen  181 TQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVRPAFMDEYEKLEEELQK  236 (267)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHH
Confidence            33334444455555666666666666666666666655444455677777666554

Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].

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

Probab=89.24  E-value=6.7  Score=38.41  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 027451          104 FMIDRLHHYIRELRIRRKTMEAIKNQSR  131 (223)
Q Consensus       104 lvI~R~~~li~~l~~~~~~~~al~kQa~  131 (223)
                      -.-+|+..||.+...++++...|..+..
T Consensus        46 ~LNDRLA~YIekVR~LEaqN~~L~~di~   73 (546)
T KOG0977|consen   46 ELNDRLAVYIEKVRFLEAQNRKLEHDIN   73 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3578888888888888888777766543

>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=89.21  E-value=2.7  Score=30.17  Aligned_cols=27  Identities=22%  Similarity=0.382  Sum_probs=12.1

Q ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          181 ALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       181 aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      +++.+-+.|..|..+|..|++.-+..+
T Consensus        36 ~L~~e~~~L~~en~~L~~e~~~~~~rl   62 (72)
T PF06005_consen   36 ELKEENEELKEENEQLKQERNAWQERL   62 (72)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444445555554444333

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.

>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=89.19  E-value=5.2  Score=39.15  Aligned_cols=41  Identities=17%  Similarity=0.207  Sum_probs=19.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHH
Q 027451          155 KLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDR  195 (223)
Q Consensus       155 ~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDr  195 (223)
                      .+|.+.|+.+.++....+..-+.++.+|..+.....++-++
T Consensus       205 ~~E~~~L~~q~~e~~~ri~~LEedi~~l~qk~~E~e~~~~~  245 (546)
T PF07888_consen  205 KEERESLKEQLAEARQRIRELEEDIKTLTQKEKEQEKELDK  245 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444455555555555555333333333

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 [].

>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=88.92  E-value=5.6  Score=28.53  Aligned_cols=16  Identities=25%  Similarity=0.247  Sum_probs=6.1

Q ss_pred             HHHHHHhHhhHHHHHH
Q 027451          179 AVALRKQSEGFLFEYD  194 (223)
Q Consensus       179 ~~aLKkQae~l~~EYD  194 (223)
                      +..++++.+....+.+
T Consensus        49 ~~~l~~~~~~~e~~~~   64 (74)
T PF12329_consen   49 IKELKKKLEELEKELE   64 (74)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

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.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=88.90  E-value=12  Score=32.16  Aligned_cols=23  Identities=13%  Similarity=0.276  Sum_probs=14.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhc
Q 027451          107 DRLHHYIRELRIRRKTMEAIKNQ  129 (223)
Q Consensus       107 ~R~~~li~~l~~~~~~~~al~kQ  129 (223)
                      .|+-.+=.++..++++++.+..+
T Consensus        93 ~rlp~le~el~~l~~~l~~~~~~  115 (206)
T PRK10884         93 TRVPDLENQVKTLTDKLNNIDNT  115 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhH
Confidence            45555667777777777666544

>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=88.51  E-value=11  Score=30.08  Aligned_cols=54  Identities=17%  Similarity=0.253  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHH----HHHHHHHHHHHhH
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYD----RLLEENQNLRNQL  207 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYD----rL~~e~~~l~~~l  207 (223)
                      ...+...++.+++.....++....++.-++..+.+...-|.    |---|+++|++++
T Consensus        92 ~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~rL  149 (151)
T PF11559_consen   92 AEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKERL  149 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            33344445555555555555555556666655555544443    3333555566655

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.

>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=88.39  E-value=9.3  Score=33.28  Aligned_cols=13  Identities=23%  Similarity=0.330  Sum_probs=4.9

Q ss_pred             HHHHHHHHHHHHH
Q 027451          114 RELRIRRKTMEAI  126 (223)
Q Consensus       114 ~~l~~~~~~~~al  126 (223)
                      ..+..+.++.+.+
T Consensus        27 ~~l~~~~~~~~~l   39 (302)
T PF10186_consen   27 SELQQLKEENEEL   39 (302)
T ss_pred             HHHHHHHHHHHHH
Confidence            3333333333333

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

>PHA02562 46 endonuclease subunit; Provisional

Probab=88.37  E-value=6.2  Score=37.85  Aligned_cols=51  Identities=16%  Similarity=0.105  Sum_probs=24.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ++...+..+.+...+....+.+++.|......+..+..++.++..+++...
T Consensus       345 ~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l~~~l~~~~~~~  395 (562)
T PHA02562        345 KISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKLQDELDKIVKTK  395 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHHHHHHHHHHHHH
Confidence            333333344443334444445555555555555555555555555544443

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

Probab=88.05  E-value=17  Score=31.50  Aligned_cols=55  Identities=24%  Similarity=0.344  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ....+..|...++..+.....|+..+..|.++...+..+.+...++|..++..+.
T Consensus       174 ~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld  228 (237)
T PF00261_consen  174 YEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELD  228 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456777788888777777788888888888888888888888888877777764

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 ....

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=87.93  E-value=6  Score=34.66  Aligned_cols=50  Identities=20%  Similarity=0.231  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          153 TLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       153 ~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      .+.+++++|+.++++.+.+       ++.|.+.-..|+..++++..|+.+|+++...
T Consensus       153 eL~~eleele~e~ee~~er-------lk~le~E~s~LeE~~~~l~~ev~~L~~r~~E  202 (290)
T COG4026         153 ELLKELEELEAEYEEVQER-------LKRLEVENSRLEEMLKKLPGEVYDLKKRWDE  202 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhchhHHHHHHHHHHH
Confidence            3444555555555554443       3444444445555666666666666665543

>PF13870 DUF4201: Domain of unknown function (DUF4201)

Probab=87.86  E-value=13  Score=30.57  Aligned_cols=67  Identities=25%  Similarity=0.398  Sum_probs=43.2

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhH-----HHHHHHHHHHHHHHHHhHhhhcccc
Q 027451          148 EDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGF-----LFEYDRLLEENQNLRNQLQSLDWRL  214 (223)
Q Consensus       148 ~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l-----~~EYDrL~~e~~~l~~~l~~~~~~~  214 (223)
                      ..++....+.+.++..++...+.+..+..+....|+.|...+     -..||+..++.+.++..+....+++
T Consensus        97 ~~~l~~~~~~~~~~r~~l~~~k~~r~k~~~~~~~l~~~~~~~~~P~ll~Dy~~~~~~~~~l~~~i~~l~rk~  168 (177)
T PF13870_consen   97 KQELKDREEELAKLREELYRVKKERDKLRKQNKKLRQQGGLLGVPALLRDYDKTKEEVEELRKEIKELERKV  168 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444445555566666665555556666666777776653     3579999898888888887665543

>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=87.78  E-value=4.3  Score=33.21  Aligned_cols=62  Identities=24%  Similarity=0.376  Sum_probs=27.7

Q ss_pred             HHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhH--HHHHHHhHhhHHHHHHHHHHHHHHHH
Q 027451          143 EIKALEDQMTTLKLKLKDLESELETKSKEANAAETN--AVALRKQSEGFLFEYDRLLEENQNLR  204 (223)
Q Consensus       143 ~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d--~~aLKkQae~l~~EYDrL~~e~~~l~  204 (223)
                      +...+..++..+.+++..|+.+++..+.++....+.  .+-|..+.+.+..|-..+.+..+.++
T Consensus        73 el~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~  136 (169)
T PF07106_consen   73 ELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLR  136 (169)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555555555555555544444333221  13344444444444444444433333

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 [].

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

Probab=87.67  E-value=14  Score=30.37  Aligned_cols=56  Identities=20%  Similarity=0.325  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          153 TLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       153 ~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ...++++.++...+...++.....++....+.+++.+..++.++.++++.+.+.++
T Consensus       127 ~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  182 (191)
T PF04156_consen  127 SVEERLDSLDESIKELEKEIRELQKELQDSREEVQELRSQLERLQENLQQLEEKIQ  182 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555666666666666666655555666667777777777777777777766654

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 [].

>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=87.61  E-value=3.5  Score=33.73  Aligned_cols=64  Identities=27%  Similarity=0.410  Sum_probs=48.3

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhH--hhHHHHHHHHHHHHHHHHHhHhhhc
Q 027451          148 EDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQS--EGFLFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       148 ~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQa--e~l~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      .+++..++.++.+|+.++...+.+.+..++++..|.++-  +.+...-..|.+|...+..++....
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~  136 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLR  136 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445666777888888888888888888888888887776  5566777778888888887777543

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 [].

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=87.56  E-value=12  Score=37.22  Aligned_cols=27  Identities=7%  Similarity=0.076  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027451          103 AFMIDRLHHYIRELRIRRKTMEAIKNQ  129 (223)
Q Consensus       103 ~lvI~R~~~li~~l~~~~~~~~al~kQ  129 (223)
                      |.=..|+..+|-.-..+.+.++..+.+
T Consensus       374 ~~d~~rika~VIrG~~l~eal~~~~e~  400 (652)
T COG2433         374 WKDVERIKALVIRGYPLAEALSKVKEE  400 (652)
T ss_pred             hhhHHHHHHHeecCCcHHHHHHHHHhh
Confidence            455666666666666666655555444

>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=87.54  E-value=2  Score=30.13  Aligned_cols=11  Identities=27%  Similarity=0.468  Sum_probs=4.4

Q ss_pred             HHHHHHHHHHH
Q 027451          156 LKLKDLESELE  166 (223)
Q Consensus       156 ~e~~~Lk~el~  166 (223)
                      +++++|+.+++
T Consensus        38 ~e~~~L~~ei~   48 (80)
T PF04977_consen   38 KENEELKEEIE   48 (80)
T ss_pred             HHHHHHHHHHH
Confidence            33444444333

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

>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=87.48  E-value=14  Score=29.92  Aligned_cols=34  Identities=32%  Similarity=0.428  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhH
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGF  189 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l  189 (223)
                      +++..|+.++.....++...+.++.++++.-+++
T Consensus        52 ~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L   85 (140)
T PF10473_consen   52 AEIETLEEELEELTSELNQLELELDTLRSEKENL   85 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555444444444444444444333

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

>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=87.27  E-value=17  Score=30.65  Aligned_cols=61  Identities=20%  Similarity=0.297  Sum_probs=31.4

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHH-HHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          149 DQMTTLKLKLKDLESELETKSKEANAAETNAV-ALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       149 ~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~-aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      .++..+..+.+.|+.++...+......+...+ ......+..+.|.|-|...++.+++++..
T Consensus       127 ~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~ql~~~l~~  188 (189)
T PF10211_consen  127 EEIEELEEEKEELEKQVQELKNKCEQLEKREEELRQEEEKKHQEEIDFLKKQNQQLKAQLEQ  188 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34444444555555555444443333333232 23333445566777777777777777653

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 [].

>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus

Probab=87.14  E-value=2.7  Score=38.67  Aligned_cols=55  Identities=18%  Similarity=0.090  Sum_probs=38.1

Q ss_pred             hHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHH--hhhHHHHHHHhHhhHHHHHHH
Q 027451          141 SEEIKALEDQMTTLKLKLKDLESELETKSKEANA--AETNAVALRKQSEGFLFEYDR  195 (223)
Q Consensus       141 ~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~--~~~d~~aLKkQae~l~~EYDr  195 (223)
                      -++...+..||.+|++|+++|+.+++..+.+..+  ...+.+++..|++.+.+--|+
T Consensus        31 ~~e~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l~s~V~E~vet~dv~~d~i~Kimnk   87 (420)
T PF07407_consen   31 IDENFALRMENHSLKKENNDLKIEVERLENEMLRSHVCEDVETNDVIYDKIVKIMNK   87 (420)
T ss_pred             hhhhhhHHHHhHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            4566778888888888888898888888776654  234455555555555555555

Members of this family are typically of around 420 residues in length. The function of this family is unknown.

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

Probab=86.94  E-value=3.6  Score=36.16  Aligned_cols=18  Identities=22%  Similarity=0.111  Sum_probs=8.7

Q ss_pred             HHHHHHHHHHHHHHHhHh
Q 027451          191 FEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       191 ~EYDrL~~e~~~l~~~l~  208 (223)
                      +||+.|..|-+.++++..
T Consensus        89 ~e~~aL~~E~~~ak~r~~  106 (239)
T COG1579          89 RELRALNIEIQIAKERIN  106 (239)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            445555555554444443

>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana

Probab=86.86  E-value=17  Score=30.71  Aligned_cols=20  Identities=10%  Similarity=-0.027  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHHHHHhHHHH
Q 027451           44 VVKTVAGTVLVMLISSVYNI   63 (223)
Q Consensus        44 ~~~~~~~~l~vlF~Dai~~~   63 (223)
                      +..+...+.+.-.+|+|+.+
T Consensus        43 g~A~Glm~~f~~l~e~v~~l   62 (190)
T PF05266_consen   43 GMAVGLMVTFANLAEKVKKL   62 (190)
T ss_pred             HHHHHHHHHHHHHHHHHHHc
Confidence            34444445566666666666

>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.85  E-value=4.1  Score=39.98  Aligned_cols=60  Identities=27%  Similarity=0.347  Sum_probs=45.8

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHh-h------hHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAA-E------TNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~-~------~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      +.+.++.+|+.|-.+++....+...| +      .+..+|++|.+.++.+||-.-.|..+++..+..
T Consensus         9 ~ve~lr~eierLT~el~q~t~e~~qaAeyGL~lLeeK~~Lkqq~eEleaeyd~~R~Eldqtkeal~q   75 (772)
T KOG0999|consen    9 EVEKLRQEIERLTEELEQTTEEKIQAAEYGLELLEEKEDLKQQLEELEAEYDLARTELDQTKEALGQ   75 (772)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34457778888888887776655443 2      256899999999999999999999888877753

>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=86.79  E-value=7.6  Score=38.96  Aligned_cols=43  Identities=23%  Similarity=0.237  Sum_probs=32.8

Q ss_pred             HhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccccC
Q 027451          174 AAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSH  216 (223)
Q Consensus       174 ~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~~  216 (223)
                      --++....|+||.++-.+-.+.|-.++.-|++++...+.+.+.
T Consensus       591 ~lenk~~~LrKqvEnk~K~ieeLqqeNk~LKKk~~aE~kq~~~  633 (786)
T PF05483_consen  591 ILENKCNNLRKQVENKNKNIEELQQENKALKKKITAESKQSNV  633 (786)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3345577889999988888888888888888888777666543

Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex

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

Probab=86.68  E-value=6.7  Score=31.60  Aligned_cols=21  Identities=33%  Similarity=0.504  Sum_probs=8.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHHH
Q 027451          150 QMTTLKLKLKDLESELETKSK  170 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~  170 (223)
                      +|..+..++..|+.+++..+.
T Consensus        36 EI~sL~~K~~~lE~eld~~~~   56 (143)
T PF12718_consen   36 EITSLQKKNQQLEEELDKLEE   56 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            333333333334433333333

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 [].

>PF03954 Lectin_N: Hepatic lectin, N-terminal domain; InterPro: IPR005640 Animal lectins display a wide variety of architectures

Probab=86.62  E-value=4.8  Score=32.44  Aligned_cols=75  Identities=24%  Similarity=0.355  Sum_probs=46.7

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027451           94 TLMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEAN  173 (223)
Q Consensus        94 YIsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~  173 (223)
                      --.||++.|..+|.-+.   ++-.+++.++.+++..-.|.+.+   ..+|.+++......+.+++.-|+.++++.+.+++
T Consensus        38 lsLgl~~LLLV~IcVig---sQ~~qlq~dl~tLretfsNFsss---t~aEvqaL~S~G~sl~~kVtSLea~lEkqqQeLk  111 (138)
T PF03954_consen   38 LSLGLSLLLLVVICVIG---SQNSQLQRDLRTLRETFSNFSSS---TLAEVQALSSQGGSLQDKVTSLEAKLEKQQQELK  111 (138)
T ss_pred             HHHHHHHHHHHHHHhhc---CccHHHHHHHHHHHHHHhcccHH---HHHHHHHHHhccccHHhHcccHHHHHHHHHHHHh
Confidence            44577777766555443   35577788888887665555531   1234455554445566777778888887777765


Q ss_pred             H
Q 027451          174 A  174 (223)
Q Consensus       174 ~  174 (223)
                      .
T Consensus       112 A  112 (138)
T PF03954_consen  112 A  112 (138)
T ss_pred             h
Confidence            4

They are classified according to the carbohydrate-recognition domain (CRD) of which there are two main types, S-type and C-type. C-type lectins display a wide range of specificities. They require Ca2+ for their activity They are found predominantly but not exclusively in vertebrates. This entry presents N-terminal domain, which is found in C-type lectins.; GO: 0005529 sugar binding, 0016020 membrane

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

Probab=86.30  E-value=6.8  Score=41.59  Aligned_cols=19  Identities=26%  Similarity=0.226  Sum_probs=7.2

Q ss_pred             HHHHHhHhhHHHHHHHHHH
Q 027451          180 VALRKQSEGFLFEYDRLLE  198 (223)
Q Consensus       180 ~aLKkQae~l~~EYDrL~~  198 (223)
                      +.++.+...+..+|.++.+
T Consensus       456 ~~~~~~~~~~~~~~~~~~~  474 (1163)
T COG1196         456 EELRDRLKELERELAELQE  474 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333

>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8

Probab=86.23  E-value=18  Score=30.06  Aligned_cols=30  Identities=20%  Similarity=0.220  Sum_probs=20.4

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHHHHHH
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQNLRN  205 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~~l~~  205 (223)
                      +.+++.+|++.+..+.|++.|.+..+++++
T Consensus       160 ~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~  189 (192)
T PF05529_consen  160 SEEIEKLKKELEKKEKEIEALKKQSEGLQK  189 (192)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            345677777777777777777766666654

Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane

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

Probab=85.67  E-value=20  Score=35.64  Aligned_cols=109  Identities=13%  Similarity=0.232  Sum_probs=61.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccc-cchHHH-------HHhHHHhHHHHH----------
Q 027451           95 LMGASLFLAFMIDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKA-ASSEEI-------KALEDQMTTLKL----------  156 (223)
Q Consensus        95 IsGF~LFL~lvI~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~-~~~~~~-------~~~~~~~~~l~~----------  156 (223)
                      .++=.==.++|+.-+-.-=..+..++...+.+..|...+..+.. ++++..       ...+++|..|..          
T Consensus       230 ~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~  309 (629)
T KOG0963|consen  230 VAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLV  309 (629)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            34433444555555555555556667777777776655543221 111111       123334444333          


Q ss_pred             -HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHH
Q 027451          157 -KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLR  204 (223)
Q Consensus       157 -e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~  204 (223)
                       +.+..+.+|...++++++....++.|+++.++. ..||.+..|..-|+
T Consensus       310 ~e~e~~~~qI~~le~~l~~~~~~leel~~kL~~~-sDYeeIK~ELsiLk  357 (629)
T KOG0963|consen  310 EEREKHKAQISALEKELKAKISELEELKEKLNSR-SDYEEIKKELSILK  357 (629)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-ccHHHHHHHHHHHH
Confidence             334455566666666666666778888888877 77888877776665

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=85.62  E-value=7.7  Score=29.89  Aligned_cols=50  Identities=34%  Similarity=0.415  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcc
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDW  212 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~  212 (223)
                      ..+..++.++...-.       ++.+||+|...+..|=.+|.-|+++|+..+...+.
T Consensus         8 ~~l~~le~~l~~l~~-------~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    8 DRLDQLEQQLGQLLE-------ELEELKKQLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            345666666665554       57999999999999999999999999999876544

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PF14584 DUF4446: Protein of unknown function (DUF4446)

Probab=85.54  E-value=11  Score=30.72  Aligned_cols=36  Identities=14%  Similarity=0.147  Sum_probs=22.1

Q ss_pred             HHHhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhc
Q 027451           94 TLMGASLFLA-FMIDRLHHYIRELRIRRKTMEAIKNQ  129 (223)
Q Consensus        94 YIsGF~LFL~-lvI~R~~~li~~l~~~~~~~~al~kQ  129 (223)
                      ||..+.+.+. +.+-.+..+..++.+++..++.+++-
T Consensus         2 ~i~i~l~~l~iilli~~~~~~~kl~kl~r~Y~~lm~g   38 (151)
T PF14584_consen    2 YIIIGLLVLVIILLILIIILNIKLRKLKRRYDALMRG   38 (151)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            3443333333 33445566667888888888888753

>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=85.51  E-value=24  Score=30.79  Aligned_cols=50  Identities=20%  Similarity=0.341  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHh
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQ  206 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~  206 (223)
                      ++......+...+..++.++.+.+..+..+..+..||.+|.++-++++.+
T Consensus        54 eLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e  103 (230)
T PF10146_consen   54 ELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE  103 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444666666667777777788888999999999999999999998877

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.

>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=85.35  E-value=21  Score=30.97  Aligned_cols=46  Identities=17%  Similarity=0.120  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHH
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQ  201 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~  201 (223)
                      ++-.+|..+++..++++...+...+.+.++.+.++.+-++|..+.+
T Consensus        49 ~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~   94 (251)
T PF11932_consen   49 DEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIE   94 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444433333445555555555555555544443

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.

>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease

Probab=85.30  E-value=22  Score=30.16  Aligned_cols=36  Identities=19%  Similarity=0.179  Sum_probs=18.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHH
Q 027451          159 KDLESELETKSKEANAAETNAVALRKQSEGFLFEYD  194 (223)
Q Consensus       159 ~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYD  194 (223)
                      ++|..+|...+.++..++..+..|.+|++-.++.|.
T Consensus       121 eeL~~kL~~~~~~l~~~~~ki~~Lek~leL~~k~~~  156 (194)
T PF15619_consen  121 EELQRKLSQLEQKLQEKEKKIQELEKQLELENKSFR  156 (194)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            344445555555555555555556555555555443

>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=84.84  E-value=25  Score=30.50  Aligned_cols=56  Identities=16%  Similarity=0.231  Sum_probs=26.9

Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHH
Q 027451          149 DQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLR  204 (223)
Q Consensus       149 ~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~  204 (223)
                      ++++..++++++++..++.+...+.+...-.+...++.+....+..+.......++
T Consensus        84 ~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~  139 (302)
T PF10186_consen   84 KRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQNELEERKQRLSQLQ  139 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555555555543333334444555555555554444443333

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

>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=84.63  E-value=19  Score=31.45  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=13.8

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhh
Q 027451          189 FLFEYDRLLEENQNLRNQLQSL  210 (223)
Q Consensus       189 l~~EYDrL~~e~~~l~~~l~~~  210 (223)
                      ....-.|+.+||..|++++...
T Consensus        79 ~~~~i~r~~eey~~Lk~~in~~  100 (230)
T PF10146_consen   79 RQEKIQRLYEEYKPLKDEINEL  100 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3344456777777777777644

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.

>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []

Probab=84.62  E-value=4.3  Score=29.88  Aligned_cols=23  Identities=17%  Similarity=0.286  Sum_probs=14.1

Q ss_pred             HhHhhHHHHHHHHHHHHHHHHHh
Q 027451          184 KQSEGFLFEYDRLLEENQNLRNQ  206 (223)
Q Consensus       184 kQae~l~~EYDrL~~e~~~l~~~  206 (223)
                      ..++...+.+=+++-+||++++-
T Consensus        32 ~~~~~~v~~hI~lLheYNeiKD~   54 (83)
T PF07061_consen   32 EDPEKIVKRHIKLLHEYNEIKDI   54 (83)
T ss_pred             cCHHHHHHHHHHHHHHHhHHHHH
Confidence            45555556666666777766653

It is known to interact with Swi2, Rhp51 and Swi6 [].

>PF04136 Sec34: Sec34-like family ; InterPro: IPR007265 Sec34 and Sec35 form a sub-complex in a seven-protein complex that includes Dor1

Probab=84.49  E-value=15  Score=30.03  Aligned_cols=64  Identities=23%  Similarity=0.331  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh------hcccccCCCC
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS------LDWRLSHSGS  219 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~------~~~~~~~~~~  219 (223)
                      .++++....+............+-.++..+++++-.|..+|.+-.+.+...|..      .-+++++++.
T Consensus        21 ~~~~~~~~~l~~l~~~~~~Vs~kT~~l~~~ce~Ll~eq~~L~~~ae~I~~~L~yF~~Ld~itr~Ln~p~~   90 (157)
T PF04136_consen   21 DQTDEILDQLDELQEQYNSVSEKTNSLHEACEQLLEEQTRLEELAEEISEKLQYFEELDPITRRLNSPGS   90 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhhHHHHHHHHcCCCC
Confidence            344444444555555555556677899999999999999998888777766654      4466666543

This complex is thought to be important for tethering vesicles to the Golgi [].; GO: 0006886 intracellular protein transport, 0005801 cis-Golgi network, 0016020 membrane

>PRK03918 chromosome segregation protein; Provisional

Probab=84.47  E-value=11  Score=38.16  Aligned_cols=11  Identities=18%  Similarity=0.015  Sum_probs=4.0

Q ss_pred             HhhHHHHHHHH
Q 027451          186 SEGFLFEYDRL  196 (223)
Q Consensus       186 ae~l~~EYDrL  196 (223)
                      .+.+...|..+
T Consensus       247 ~~~l~~~~~~l  257 (880)
T PRK03918        247 LESLEGSKRKL  257 (880)
T ss_pred             HHHHHHHHHHH
Confidence            33333333333

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=84.26  E-value=9.9  Score=33.33  Aligned_cols=32  Identities=16%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             HHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027451          143 EIKALEDQMTTLKLKLKDLESELETKSKEANA  174 (223)
Q Consensus       143 ~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~  174 (223)
                      +..++.++++.+..+++.++.+|+..+.+...
T Consensus       150 EkeeL~~eleele~e~ee~~erlk~le~E~s~  181 (290)
T COG4026         150 EKEELLKELEELEAEYEEVQERLKRLEVENSR  181 (290)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44456667777777777777777766665433

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.12  E-value=21  Score=31.84  Aligned_cols=38  Identities=16%  Similarity=0.389  Sum_probs=15.5

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHh
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSE  187 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae  187 (223)
                      +++.+..+++++..++.+.+++....+.+++.++++++
T Consensus        53 ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~   90 (265)
T COG3883          53 EIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIA   90 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444444443333333333333333

>PF15188 CCDC-167: Coiled-coil domain-containing protein 167

Probab=84.05  E-value=5.9  Score=29.41  Aligned_cols=27  Identities=26%  Similarity=0.223  Sum_probs=20.0

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHHH
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQN  202 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~~  202 (223)
                      +.+..++++++++.+++--.|-.||.+
T Consensus        42 E~E~~~l~~~l~~~E~eL~~LrkENrK   68 (85)
T PF15188_consen   42 EKELNELKEKLENNEKELKLLRKENRK   68 (85)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHhhhh
Confidence            556778888888888877777666654

>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family

Probab=83.81  E-value=14  Score=30.51  Aligned_cols=42  Identities=19%  Similarity=0.248  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHH
Q 027451          158 LKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEE  199 (223)
Q Consensus       158 ~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e  199 (223)
                      .++|+.+++....+.+..+++++.|+++..-.+.+|.-|..=
T Consensus       106 ~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~I  147 (161)
T TIGR02894       106 NERLKNQNESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDI  147 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333334556666666666666555433

In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.

>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=83.78  E-value=9.7  Score=39.82  Aligned_cols=31  Identities=16%  Similarity=0.304  Sum_probs=19.7

Q ss_pred             HHHhHHHHHH--------HHHHHHHHHHHHHHHHHHHHH
Q 027451           94 TLMGASLFLA--------FMIDRLHHYIRELRIRRKTME  124 (223)
Q Consensus        94 YIsGF~LFL~--------lvI~R~~~li~~l~~~~~~~~  124 (223)
                      -.-+.+|+.-        -++.++-.+..++-..+.+..
T Consensus       720 ~~~~l~l~~~r~~~~e~~~~~~~~~~~~e~v~e~~~~Ik  758 (1174)
T KOG0933|consen  720 KLHELALLEKRLEQNEFHKLLDDLKELLEEVEESEQQIK  758 (1174)
T ss_pred             HHHHHHHHHHHHhcChHhhHHHHHHHHHHHHHHHHHHHH
Confidence            4456666643        456777778777766666543

>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=83.63  E-value=14  Score=26.47  Aligned_cols=38  Identities=24%  Similarity=0.297  Sum_probs=19.7

Q ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhccccc
Q 027451          178 NAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLS  215 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~  215 (223)
                      -+.-|+.+...+...-+.+....+.+...+.....|++
T Consensus        34 ~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~~~l~   71 (74)
T PF12329_consen   34 TIKKLRAKIKELEKQIKELKKKLEELEKELESLEERLK   71 (74)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            34555555555555555555555555555544444443

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.

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

Probab=83.58  E-value=15  Score=38.59  Aligned_cols=28  Identities=25%  Similarity=0.268  Sum_probs=11.1

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHHHH
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQNL  203 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~~l  203 (223)
                      +.+++-|++|.+.++..-.+|-+|.+..
T Consensus       400 e~k~~~L~~evek~e~~~~~L~~e~~~~  427 (1074)
T KOG0250|consen  400 ENKLEQLKKEVEKLEEQINSLREELNEV  427 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444433333443333333

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=83.57  E-value=18  Score=38.03  Aligned_cols=101  Identities=18%  Similarity=0.228  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHHHHHhcccc--cccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHH-------HhhhHHHH
Q 027451          111 HYIRELRIRRKTMEAIKNQSRG--FEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEAN-------AAETNAVA  181 (223)
Q Consensus       111 ~li~~l~~~~~~~~al~kQa~~--~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~-------~~~~d~~a  181 (223)
                      -+..++.+++.++.|++...=-  +++.......+.+...+.++.+..+++.++.+++..+...-       ....+.+.
T Consensus       408 d~~~EIerLK~dl~AaReKnGvyisee~y~~~e~e~~~~~~~ieele~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~  487 (1041)
T KOG0243|consen  408 DLYEEIERLKRDLAAAREKNGVYISEERYTQEEKEKKEMAEQIEELEEELENLEKQLKDLTELYMNQLEIKELLKEEKEK  487 (1041)
T ss_pred             HHHHHHHHHHHHHHHhHhhCceEechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            4556778888888877642100  00001111122333444444455555555555554444322       23446778


Q ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHhHhhhc
Q 027451          182 LRKQSEGFLFEYDRLLEENQNLRNQLQSLD  211 (223)
Q Consensus       182 LKkQae~l~~EYDrL~~e~~~l~~~l~~~~  211 (223)
                      +|++..+...|..++.+|+.+++.++...+
T Consensus       488 ~k~~L~~~~~el~~~~ee~~~~~~~l~~~e  517 (1041)
T KOG0243|consen  488 LKSKLQNKNKELESLKEELQQAKATLKEEE  517 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888888777765443

>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]

Probab=83.55  E-value=4.4  Score=40.02  Aligned_cols=48  Identities=17%  Similarity=0.252  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHH
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQ  201 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~  201 (223)
                      ++.|++++...+++.++.+..++.|+.+||--.|+.+..|..+.+.++
T Consensus       105 l~seI~~~n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~~El~~~n~  152 (907)
T KOG2264|consen  105 LNSEIEEINTKIEELKRLIPQKQLELSALKGEIEQAQRQLEELRETNN  152 (907)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHHHhhcC
Confidence            344555555555555555556666789999999999888888876654

>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=83.44  E-value=16  Score=28.66  Aligned_cols=33  Identities=27%  Similarity=0.414  Sum_probs=21.4

Q ss_pred             hhhHHHHHHHhHhhHHHHHHHHHH-------HHHHHHHhH
Q 027451          175 AETNAVALRKQSEGFLFEYDRLLE-------ENQNLRNQL  207 (223)
Q Consensus       175 ~~~d~~aLKkQae~l~~EYDrL~~-------e~~~l~~~l  207 (223)
                      ....+..|+.+.+.++..|+.+++       +.++|+..+
T Consensus        66 ~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv  105 (120)
T PF12325_consen   66 LKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADV  105 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            334577788888888888876654       334555554

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 [].

>PRK09039 hypothetical protein; Validated

Probab=83.07  E-value=23  Score=32.59  Aligned_cols=47  Identities=13%  Similarity=0.043  Sum_probs=25.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHH
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQN  202 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~  202 (223)
                      .++..|+.+|+..+..+...+..+++.+.|-...+..++.|..+.+.
T Consensus       137 ~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~  183 (343)
T PRK09039        137 AQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNV  183 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555555555555555555555555555555555555544444

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

Probab=82.86  E-value=31  Score=36.05  Aligned_cols=94  Identities=26%  Similarity=0.264  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHhccccccccc-ccchHHHHHhHHHhHHHHHHHHHH-------HHHHHHHHHHHHHhhhHHHHHHHhH
Q 027451          115 ELRIRRKTMEAIKNQSRGFEDGK-AASSEEIKALEDQMTTLKLKLKDL-------ESELETKSKEANAAETNAVALRKQS  186 (223)
Q Consensus       115 ~l~~~~~~~~al~kQa~~~~~~~-~~~~~~~~~~~~~~~~l~~e~~~L-------k~el~~~~~el~~~~~d~~aLKkQa  186 (223)
                      ++..++.+++-++.+.++...+. .+.+-+.+.+...|.++++-+-+|       +.......+++++-..+++-|+.|.
T Consensus       340 r~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~sE~~eL~r~k  419 (1243)
T KOG0971|consen  340 RVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKNSELEELRRQK  419 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            33444444555555443332211 233444556666666655432222       2333344445555555778888888


Q ss_pred             hhHHHHHHHHHHHHHHHHHhHh
Q 027451          187 EGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       187 e~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      |+|.++-|..-.....++.|++
T Consensus       420 E~Lsr~~d~aEs~iadlkEQVD  441 (1243)
T KOG0971|consen  420 ERLSRELDQAESTIADLKEQVD  441 (1243)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888887777777777775

>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=82.76  E-value=29  Score=31.54  Aligned_cols=84  Identities=20%  Similarity=0.162  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHH
Q 027451          113 IRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFE  192 (223)
Q Consensus       113 i~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~E  192 (223)
                      =-+|..+++++..++=.....       ..+...+.=+++.|+.++++++..+-.+.++...-..+++.+|.....+..|
T Consensus        83 k~~l~evEekyrkAMv~naQL-------DNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e  155 (302)
T PF09738_consen   83 KDSLAEVEEKYRKAMVSNAQL-------DNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREE  155 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHhhh-------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566677666444221111       1233344445555666666666666666665554445677777777777777


Q ss_pred             HHHHHHHHHHH
Q 027451          193 YDRLLEENQNL  203 (223)
Q Consensus       193 YDrL~~e~~~l  203 (223)
                      .|.|.++....
T Consensus       156 ~~~Lre~L~~r  166 (302)
T PF09738_consen  156 LDELREQLKQR  166 (302)
T ss_pred             HHHHHHHHHHH
Confidence            77766665443

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.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=82.48  E-value=19  Score=35.69  Aligned_cols=44  Identities=20%  Similarity=0.158  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHH
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEEN  200 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~  200 (223)
                      +++++..+++..++++.+.+.++..++.+.+.+.++-.++..+.
T Consensus       422 ~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~  465 (650)
T TIGR03185       422 QIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTL  465 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444445555555544444444444333

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.

>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins

Probab=82.48  E-value=20  Score=28.47  Aligned_cols=23  Identities=13%  Similarity=0.020  Sum_probs=11.0

Q ss_pred             HHHHHHHhHhhHHHHHHHHHHHH
Q 027451          178 NAVALRKQSEGFLFEYDRLLEEN  200 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL~~e~  200 (223)
                      ++..|+.+......+|+.+...+
T Consensus        70 ~~~~L~~~~~~k~~~~~~l~~~~   92 (150)
T PF07200_consen   70 ELKELESEYQEKEQQQDELSSNY   92 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHccC
Confidence            34445555555555555444444

The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.

>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit

Probab=82.41  E-value=11  Score=30.62  Aligned_cols=50  Identities=16%  Similarity=0.134  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHH-HHHHHH
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEE-NQNLRN  205 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e-~~~l~~  205 (223)
                      ..++.|+.|++..+..+++....+..|++.+..+..++.+..++ |.-++.
T Consensus        41 ~~l~lLq~e~~~~e~~le~d~~~L~~Le~~~~~~~~e~~~~~~~~~~vL~~   91 (160)
T PF13094_consen   41 HQLELLQEEIEKEEAALERDYEYLQELEKNAKALEREREEEEKKAHPVLQL   91 (160)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhcc
Confidence            34566677777766677777778999999999999999998877 555543

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=82.05  E-value=8  Score=28.28  Aligned_cols=57  Identities=21%  Similarity=0.323  Sum_probs=37.9

Q ss_pred             HHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          145 KALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       145 ~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ....|+|+-+.-|+++||.+=.....       +.+.++.+-+.|..|.+.|.+|++.=++++.
T Consensus        14 qqAvdtI~LLqmEieELKekn~~L~~-------e~~~~~~~r~~L~~en~qLk~E~~~WqerLr   70 (79)
T PRK15422         14 QQAIDTITLLQMEIEELKEKNNSLSQ-------EVQNAQHQREELERENNHLKEQQNGWQERLQ   70 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455666666666666654444333       4677777777888888888888877666554

>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=81.82  E-value=15  Score=37.33  Aligned_cols=20  Identities=0%  Similarity=0.106  Sum_probs=10.0

Q ss_pred             HHHHHHHHHHHHHHHHhccc
Q 027451          112 YIRELRIRRKTMEAIKNQSR  131 (223)
Q Consensus       112 li~~l~~~~~~~~al~kQa~  131 (223)
                      +..++..++.++..++.+..
T Consensus        32 ~~~~i~~l~~elk~~~~~~~   51 (717)
T PF09730_consen   32 LQQRILELENELKQLRQELS   51 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            34445555555555544433

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

>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=81.58  E-value=26  Score=31.93  Aligned_cols=59  Identities=24%  Similarity=0.342  Sum_probs=46.4

Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          150 QMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       150 ~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      +....+.++..|..+|..+..+....+.++..|..|.-.+++..-.+..|+++++..|.
T Consensus       207 QL~~An~qia~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~  265 (306)
T PF04849_consen  207 QLSEANQQIASLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQ  265 (306)
T ss_pred             HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            44445567788888888888888888888888888888888888888888887776664

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 [].

>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=81.13  E-value=11  Score=40.11  Aligned_cols=53  Identities=17%  Similarity=0.246  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      +++++++.++...+..++.+..++.-..+-..++.++++.+.+|...|..++.
T Consensus       914 ~~~~~l~~~i~k~~~~i~~s~~~i~k~q~~l~~le~~~~~~e~e~~~L~e~~~  966 (1293)
T KOG0996|consen  914 EQLDKLEADIAKLTVAIKTSDRNIAKAQKKLSELEREIEDTEKELDDLTEELK  966 (1293)
T ss_pred             HHHHHHHHHHHHhHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44445555555555555556666777777777777777777776666655543

>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []

Probab=81.12  E-value=22  Score=27.99  Aligned_cols=10  Identities=40%  Similarity=0.620  Sum_probs=6.8

Q ss_pred             HHHHHHHHHH
Q 027451          192 EYDRLLEENQ  201 (223)
Q Consensus       192 EYDrL~~e~~  201 (223)
                      |||.|.+..+
T Consensus       116 eyd~La~~I~  125 (139)
T PF05615_consen  116 EYDALAKKIN  125 (139)
T ss_pred             HHHHHHHHHh
Confidence            7887776544

This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=81.08  E-value=11  Score=31.76  Aligned_cols=24  Identities=17%  Similarity=0.216  Sum_probs=9.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Q 027451          104 FMIDRLHHYIRELRIRRKTMEAIK  127 (223)
Q Consensus       104 lvI~R~~~li~~l~~~~~~~~al~  127 (223)
                      |=-......-..+..++++.+.+.
T Consensus        59 Fps~~~~~~~~~~~~l~~~~~~~~   82 (188)
T PF03962_consen   59 FPSQAKQKRQNKLEKLQKEIEELE   82 (188)
T ss_pred             cChHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333444444444444333

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S

Probab=80.91  E-value=10  Score=27.52  Aligned_cols=48  Identities=25%  Similarity=0.223  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      +.+++++|+..|..++.|       ++-|+..++++...--...+-+.+|+.+..
T Consensus         3 Li~qNk~L~~kL~~K~eE-------I~rLn~lv~sLR~KLiKYt~LnkkLq~~~~   50 (76)
T PF11544_consen    3 LIKQNKELKKKLNDKQEE-------IDRLNILVGSLRGKLIKYTELNKKLQDQLL   50 (76)
T ss_dssp             ---HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666664       455555555554443333333344444433

cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.

>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=80.75  E-value=6.9  Score=39.97  Aligned_cols=51  Identities=24%  Similarity=0.228  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          158 LKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       158 ~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      +..|..+.+....++......++.+.-+.+.++.++|...++..+|+..|+
T Consensus       116 ~~rl~~E~er~~~El~~lr~~lE~~q~~~e~~q~~l~~~~eei~kL~e~L~  166 (775)
T PF10174_consen  116 FERLQAERERLQRELERLRKTLEELQLRIETQQQTLDKADEEIEKLQEMLQ  166 (775)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            333444444444444444445666666677777777777777777777665

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 [].

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

Probab=80.60  E-value=39  Score=29.56  Aligned_cols=58  Identities=16%  Similarity=0.231  Sum_probs=27.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          151 MTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       151 ~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      +..+..+++.|+.+.............+.+.+.++++.|......+...-+.+-.++.
T Consensus        54 l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~  111 (264)
T PF06008_consen   54 LESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVE  111 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444444444444444444444444455555555555555555444444444443

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

>PF09403 FadA: Adhesion protein FadA; InterPro: IPR018543 FadA (Fusobacterium adhesin A) is an adhesin which forms two alpha helices

Probab=80.39  E-value=27  Score=27.69  Aligned_cols=22  Identities=9%  Similarity=0.045  Sum_probs=15.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 027451          107 DRLHHYIRELRIRRKTMEAIKN  128 (223)
Q Consensus       107 ~R~~~li~~l~~~~~~~~al~k  128 (223)
                      .+.-.+.+++..++++++.+.+
T Consensus        20 ~~~~~v~~~l~~LEae~q~L~~   41 (126)
T PF09403_consen   20 TATASVESELNQLEAEYQQLEQ   41 (126)
T ss_dssp             ---HHHHHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHH
Confidence            3445788888889998888764

; PDB: 3ETZ_B 3ETY_A 2GL2_B 3ETX_C 3ETW_A.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=80.39  E-value=10  Score=29.43  Aligned_cols=47  Identities=40%  Similarity=0.434  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhh
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSL  210 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~  210 (223)
                      .+..+++++...-.       ++..||.++..+-.|=-+|.-|+++|+..+...
T Consensus         9 ~l~~le~~l~~l~~-------el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~   55 (110)
T PRK13169          9 ALDDLEQNLGVLLK-------ELGALKKQLAELLEENTALRLENDKLRERLEEL   55 (110)
T ss_pred             HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45666666666555       578999999999999999999999999988854

>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein

Probab=80.16  E-value=11  Score=30.79  Aligned_cols=57  Identities=28%  Similarity=0.275  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027451          110 HHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKLKLKDLESELETKSKEANAA  175 (223)
Q Consensus       110 ~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~  175 (223)
                      .....+...++.+..+++++..+-+..    ++.++-.     +++.+++++++|+++..++..+.
T Consensus        36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~q----DeFAkwa-----Kl~Rk~~kl~~el~~~~~~~~~~   92 (161)
T PF04420_consen   36 SKSSKEQRQLRKEILQLKRELNAISAQ----DEFAKWA-----KLNRKLDKLEEELEKLNKSLSSE   92 (161)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHTTS-TT----TSHHHHH-----HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             ccccHHHHHHHHHHHHHHHHHHcCCcH----HHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566667777777777765544321    1123221     24556666666666555544443

The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.

>PRK11281 hypothetical protein; Provisional

Probab=80.04  E-value=19  Score=38.35  Aligned_cols=103  Identities=16%  Similarity=0.195  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHHHHH-------------HHHHHHHHHHHHHHHH
Q 027451          106 IDRLHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTTLKL-------------KLKDLESELETKSKEA  172 (223)
Q Consensus       106 I~R~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~l~~-------------e~~~Lk~el~~~~~el  172 (223)
                      +......+.+..+.+++.++++++.+.+.+.       ..+...+++.+++             -..+|++.+.+.+.++
T Consensus        65 l~~tL~~L~qi~~~~~~~~~L~k~l~~Ap~~-------l~~a~~~Le~Lk~~~~~~~~~~~~~~Sl~qLEq~L~q~~~~L  137 (1113)
T PRK11281         65 LEQTLALLDKIDRQKEETEQLKQQLAQAPAK-------LRQAQAELEALKDDNDEETRETLSTLSLRQLESRLAQTLDQL  137 (1113)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH-------HHHHHHHHHHhhccccccccccccccCHHHHHHHHHHHHHHH
Confidence            4455566666666667666666665554431       1111111111110             1234555555555566


Q ss_pred             HHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhccccc
Q 027451          173 NAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLS  215 (223)
Q Consensus       173 ~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~  215 (223)
                      ..+++++.+.-+|.-+++...+|-...-...+.+++..+.+..
T Consensus       138 q~~Q~~La~~NsqLi~~qT~PERAQ~~lsea~~RlqeI~~~L~  180 (1113)
T PRK11281        138 QNAQNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQIRNLLK  180 (1113)
T ss_pred             HHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHh
Confidence            6666666666666666666666655555455555555544443

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	223
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	95.64
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	95.39
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	95.2
3hnw_A	138	Uncharacterized protein; coiled-coil, structural g	94.84
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	94.84
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	94.67
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	94.37
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	93.64
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	93.28
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	92.53
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	92.34
3q8t_A	96	Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90	92.27
3ol1_A	119	Vimentin; structural genomics, PSI-2, protein stru	92.2
3mq7_A	121	Bone marrow stromal antigen 2; HIV, antiviral prot	92.09
3cl3_D	130	NF-kappa-B essential modulator; death effector dom	92.05
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	91.59
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	91.59
3qh9_A	81	Liprin-beta-2; coiled-coil, dimerization, structur	89.57
3a7o_A	75	Autophagy protein 16; coiled-coil, coiled coil, cy	89.54
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	89.42
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	87.33
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	87.28
3s4r_A	93	Vimentin; alpha-helix, cytoskeleton, intermediate	86.99
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	86.45
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	85.86
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	85.53
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	83.61
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	83.38
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	83.36
3viq_B	85	Mating-type switching protein SWI5; recombination	81.81

>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=95.64  E-value=0.19  Score=35.53  Aligned_cols=59  Identities=20%  Similarity=0.246  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhccc
Q 027451          155 KLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWR  213 (223)
Q Consensus       155 ~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~  213 (223)
                      ....+.++.+++..++....++.++.+|++...+++.++|+..+.....+.+|...+.+
T Consensus        19 ~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l~~a~~kLeeaek~   77 (81)
T 1ic2_A           19 LDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESLKDAQEKLELADKK   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566777788888888888899999999999999999999999999999988876654

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=95.39  E-value=0.2  Score=36.94  Aligned_cols=58  Identities=14%  Similarity=0.199  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhccc
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWR  213 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~  213 (223)
                      ...+.++.+++..+....+++.++.+|+++..+++.++|+..+.....+..+...+.+
T Consensus        23 d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~   80 (101)
T 3u59_A           23 DRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKK   80 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456667777777777777888899999999999999999888888777777655544

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=95.20  E-value=0.22  Score=38.98  Aligned_cols=30  Identities=17%  Similarity=0.176  Sum_probs=16.3

Q ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhH
Q 027451          178 NAVALRKQSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ..+.++++.+.+.++++.|..+..+|+..+
T Consensus       104 k~e~~~~e~~~l~~~~~~l~~~~~~le~~~  133 (138)
T 3hnw_A          104 KAESSAKEIKELKSEINKYQKNIVKLETEL  133 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555555555555555555554443

>3hnw_A Uncharacterized protein; coiled-coil, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.20A {Eubacterium eligens}

Probab=94.84  E-value=0.19  Score=39.26  Aligned_cols=53  Identities=21%  Similarity=0.244  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhh
Q 027451          158 LKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSL  210 (223)
Q Consensus       158 ~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~  210 (223)
                      .+.|+.+++.+++++..-..++..++-+.+++.++...+.++++.|+.++...
T Consensus        77 ~~~L~~~l~~~~kE~~~lK~el~~~~~k~e~~~~e~~~l~~~~~~l~~~~~~l  129 (138)
T 3hnw_A           77 ADSLSLDIENKDKEIYDLKHELIAAQIKAESSAKEIKELKSEINKYQKNIVKL  129 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444333333455556666666666666666666666555443

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=94.84  E-value=0.36  Score=35.62  Aligned_cols=58  Identities=19%  Similarity=0.166  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccc
Q 027451          157 KLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRL  214 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~  214 (223)
                      ..+.++.+++..+.+...++.++..|.+...++..+.|+..+.....+.++...+.+.
T Consensus        24 rae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~   81 (101)
T 3u1c_A           24 RAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENA   81 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666667667777777788888888888898888888888777777776655443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=94.67  E-value=0.099  Score=58.67  Aligned_cols=61  Identities=15%  Similarity=0.266  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccccC
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSH  216 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~~  216 (223)
                      +++++++.+++..+.++..+++.+..+..+.+.++.+|+....|.++++.+.+....|..+
T Consensus      2014 ~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ek~~L~~e~~~~~~kl~r 2074 (3245)
T 3vkg_A         2014 EEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSKVKNKVDR 2074 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566777888888888888888899999999999999999999999999888877666543

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=94.37  E-value=0.58  Score=34.28  Aligned_cols=63  Identities=17%  Similarity=0.317  Sum_probs=35.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccccC
Q 027451          154 LKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSH  216 (223)
Q Consensus       154 l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~~  216 (223)
                      +.+++++|+++=...+.++...+.+...|..|-+..-++|..+.-+.-..++++.+.+.++.+
T Consensus        23 L~~eL~~lEke~~~l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~e~~dE~~Sl~~q~~~   85 (96)
T 3q8t_A           23 LIQELEDVEKNRKVVAENLEKVQAEAERLDQEEAQYQREYSEFKRQQLELDDELKSVENQMRY   85 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455555555555555555555556666666666666666655555566666666555543

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=93.64  E-value=0.79  Score=36.37  Aligned_cols=63  Identities=11%  Similarity=0.211  Sum_probs=48.4

Q ss_pred             HHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHh
Q 027451          144 IKALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQ  206 (223)
Q Consensus       144 ~~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~  206 (223)
                      ...+..+...+..++.+|+.+++.+.+.+.....++.+|.-|..-++..-.+|.+||+.|=++
T Consensus        70 I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~R  132 (152)
T 3a7p_A           70 LAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVAR  132 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334555666677788888989998888888888888888888888888888888888775433

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=93.28  E-value=0.16  Score=33.40  Aligned_cols=32  Identities=25%  Similarity=0.406  Sum_probs=21.8

Q ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          178 NAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      |+++||..-+.|...|+.|.+++++++.++..
T Consensus        20 d~eaLk~E~~eLk~k~~~L~~~~~el~~~l~~   51 (53)
T 2yy0_A           20 EIELLRLELAEMKEKYEAIVEENKKLKAKLAQ   51 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            56666666666666777777777777776654

>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=92.53  E-value=2.3  Score=39.51  Aligned_cols=54  Identities=22%  Similarity=0.251  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      .++++.+++++++.+++...+.+.+.++++.+...+...++.+|.++++.++..
T Consensus       523 ~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~  576 (597)
T 3oja_B          523 RETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQ  576 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            344555555555555555555666666666666666666666666655444443

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=92.34  E-value=2  Score=30.52  Aligned_cols=55  Identities=22%  Similarity=0.317  Sum_probs=34.4

Q ss_pred             hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          147 LEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       147 ~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ..++|+-+.-|+++||.+-....       .+.+.++...+.+..|..+|.+|++.-+.++.
T Consensus        18 avdtI~lLqmEieELKekN~~L~-------~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~   72 (81)
T 2jee_A           18 AIDTITLLQMEIEELKEKNNSLS-------QEVQNAQHQREELERENNHLKEQQNGWQERLQ   72 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444545555555554444333       34667777777788888888888877666654

>3q8t_A Beclin-1; autophagy, ATG14L uvrag, apoptosis; 1.90A {Rattus norvegicus}

Probab=92.27  E-value=1.3  Score=32.44  Aligned_cols=64  Identities=20%  Similarity=0.242  Sum_probs=35.1

Q ss_pred             HHhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          145 KALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       145 ~~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ++...++..+..+=..|-.+|+..+++-.....++.+++.+++.+..+-.+.-.+|+..+-++.
T Consensus         7 ~~l~~eL~~l~~eE~~L~~eL~~lEke~~~l~~el~~le~E~~~L~~eE~~~w~eyn~~~~ql~   70 (96)
T 3q8t_A            7 EQLQRELKELALEEERLIQELEDVEKNRKVVAENLEKVQAEAERLDQEEAQYQREYSEFKRQQL   70 (96)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            3444444444444455555555555555555555666666666665555555556665554443

>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A

Probab=92.09  E-value=2.2  Score=32.31  Aligned_cols=39  Identities=23%  Similarity=0.268  Sum_probs=19.1

Q ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhhhcccccCC
Q 027451          178 NAVALRKQSEGFLFEYDRLLEENQNLRNQLQSLDWRLSHS  217 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~~~~~~~~~  217 (223)
                      ++..|+.+..+...|-.||..+++.+.-.+..-++ +++|
T Consensus        79 EI~~Lnq~Lq~a~ae~erlr~~~~~~~~r~~~~~~-~~~~  117 (121)
T 3mq7_A           79 EITTLNHKLQDASAEVERLRRENQVLSVRIADKKY-YPSS  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhchhhhhHhhhccc-Cccc
Confidence            34555555555566666676677766666655443 4443

>3cl3_D NF-kappa-B essential modulator; death effector domain, coiled-coil, coiled coil, cytoplasm, disease mutation, ectodermal dysplasia; 3.20A {Homo sapiens}

Probab=92.05  E-value=0.67  Score=35.69  Aligned_cols=99  Identities=16%  Similarity=0.234  Sum_probs=40.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhcccccccccccchHHHHHhHHHhHH----HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 027451          109 LHHYIRELRIRRKTMEAIKNQSRGFEDGKAASSEEIKALEDQMTT----LKLKLKDLESELETKSKEANAAETNAVALRK  184 (223)
Q Consensus       109 ~~~li~~l~~~~~~~~al~kQa~~~~~~~~~~~~~~~~~~~~~~~----l~~e~~~Lk~el~~~~~el~~~~~d~~aLKk  184 (223)
                      +.+++.+|-..+..++++....++.++.....+........+++.    ..-.+++|+-+.++.+.+++-...-...=|.
T Consensus         4 vtSL~~ELqEsqskL~~Ae~~k~~Leek~~~~e~~~~~~~~Elee~kqq~~~~~d~L~lQ~esmeaalkmEr~~~~eEKr   83 (130)
T 3cl3_D            4 ASGSLGELQESQSRLEAATKECQALEGRARAASEQARQLESEREALQQQHSVQVDQLRMQGQSVEAALRMERQAASEEKR   83 (130)
T ss_dssp             -----------------------------------------------CTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666666666555443333332110001112222223222    2235677777777777777665555566788


Q ss_pred             hHhhHHHHHHHHHHHHHHHHHhH
Q 027451          185 QSEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       185 Qae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ....|+-.|+.|..||++.-+..
T Consensus        84 kLAqLQ~AY~~LfqeYd~~lK~~  106 (130)
T 3cl3_D           84 KLAQLQVAYHQLFQEYDNHIKSS  106 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            89999999999999998844333

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=91.59  E-value=1.7  Score=36.81  Aligned_cols=47  Identities=17%  Similarity=0.143  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHh
Q 027451          160 DLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQ  206 (223)
Q Consensus       160 ~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~  206 (223)
                      .|.++++..++++...+.++..+-.+.+.+..+.+.+.++...++..
T Consensus        94 aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~  140 (256)
T 3na7_A           94 SLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKL  140 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444333333444444444444444444444444444433333

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=91.59  E-value=0.69  Score=47.22  Aligned_cols=34  Identities=15%  Similarity=0.090  Sum_probs=16.5

Q ss_pred             HHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHH
Q 027451          171 EANAAETNAVALRKQSEGFLFEYDRLLEENQNLR  204 (223)
Q Consensus       171 el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~  204 (223)
                      ++...+.+++.++++.+.+.+|++.+.+++++++
T Consensus       985 ~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~~~ 1018 (1080)
T 2dfs_A          985 RVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYK 1018 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334444455555555555555555544444443

>3qh9_A Liprin-beta-2; coiled-coil, dimerization, structural protein; 2.01A {Homo sapiens}

Probab=89.57  E-value=3.5  Score=29.24  Aligned_cols=54  Identities=24%  Similarity=0.283  Sum_probs=41.3

Q ss_pred             HhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHH
Q 027451          146 ALEDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEE  199 (223)
Q Consensus       146 ~~~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e  199 (223)
                      .+.-|+..++-.|.+++.|=-.-+++|++...++..|+.|.++-..|..||.++
T Consensus        23 ~L~qEi~~Lr~kv~elEnErlQyEkKLKsTK~El~~Lq~qLe~kd~ei~rL~~~   76 (81)
T 3qh9_A           23 ELLQELRHLKIKVEELENERNQYEWKLKATKAEVAQLQEQVALKDAEIERLHSQ   76 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            344455666667777777777777788888889999999999999888887654

>3a7o_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.50A {Saccharomyces cerevisiae}

Probab=89.54  E-value=3.8  Score=28.34  Aligned_cols=55  Identities=24%  Similarity=0.149  Sum_probs=37.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHhh
Q 027451          155 KLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQS  209 (223)
Q Consensus       155 ~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~~  209 (223)
                      ..-+..|+++|+.++.++..-+.-+.-=-|-+|.|+.|.=.+.-|++-|+++++.
T Consensus        17 ~~~l~~Lr~eL~~Ke~eI~~L~e~i~lk~kd~ErLNDEiislNIENNlL~~rl~~   71 (75)
T 3a7o_A           17 LNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNDELISGTIENNVLQQKLSD   71 (75)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHhhHHHHHhHHHHHHHHHHHHH
Confidence            3456677888888887776655433333355677777777777788888888764

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=89.42  E-value=4.9  Score=29.38  Aligned_cols=24  Identities=13%  Similarity=0.191  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHH
Q 027451          157 KLKDLESELETKSKEANAAETNAV  180 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~  180 (223)
                      ++..|+..+...+.++.+++..+.
T Consensus        45 Ei~sL~kk~~~lE~eld~~ee~L~   68 (101)
T 3u1c_A           45 DIVQLEKQLRVTEDSRDQVLEELH   68 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344333333333333333333

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=87.33  E-value=11  Score=30.85  Aligned_cols=22  Identities=5%  Similarity=-0.031  Sum_probs=12.2

Q ss_pred             HhhHHHHHHHHHHHHHHHHHhH
Q 027451          186 SEGFLFEYDRLLEENQNLRNQL  207 (223)
Q Consensus       186 ae~l~~EYDrL~~e~~~l~~~l  207 (223)
                      ...+++|...|.+.+..++..+
T Consensus        90 ~~~Lq~el~~l~~~~~~l~~~i  111 (189)
T 2v71_A           90 VSVLEDDLSQTRAIKEQLHKYV  111 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            5555566666655555554443

>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=87.28  E-value=3.1  Score=38.56  Aligned_cols=61  Identities=13%  Similarity=0.046  Sum_probs=41.3

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHHhHh
Q 027451          148 EDQMTTLKLKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRNQLQ  208 (223)
Q Consensus       148 ~~~~~~l~~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~~l~  208 (223)
                      ..++....+++++.+.+++..+++....+...+..|+|.+.+..|-+.+..|..++.++++
T Consensus       522 ~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~~  582 (597)
T 3oja_B          522 LRETQARRTEADAKQKETEDLEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKN  582 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhhhhhhcchhhHHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            3344455556666666666666666666667777777777777777777777777766665

>3s4r_A Vimentin; alpha-helix, cytoskeleton, intermediate filament, structural; 2.45A {Homo sapiens} PDB: 3ssu_A

Probab=86.99  E-value=5.6  Score=28.72  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh
Q 027451          106 IDRLHHYIRELRIRRKTMEAIKN  128 (223)
Q Consensus       106 I~R~~~li~~l~~~~~~~~al~k  128 (223)
                      -+|+.++|.+...++.+...+..
T Consensus        15 NdRlAsyIdKVR~LEqqN~~Le~   37 (93)
T 3s4r_A           15 NDRFANLIDKVRFLEQQNKILLA   37 (93)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            45777777777777766555543

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=86.45  E-value=7.6  Score=28.20  Aligned_cols=27  Identities=11%  Similarity=0.185  Sum_probs=10.1

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 027451          157 KLKDLESELETKSKEANAAETNAVALR  183 (223)
Q Consensus       157 e~~~Lk~el~~~~~el~~~~~d~~aLK  183 (223)
                      ++..|+..+...+.++..++..+...+
T Consensus        45 ei~sL~kKiq~lE~eld~~~e~l~~a~   71 (101)
T 3u59_A           45 EQQGLQKKLKGTEDEVEKYSESVKEAQ   71 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333344434333333333333333333

>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=85.86  E-value=3.6  Score=28.77  Aligned_cols=26  Identities=19%  Similarity=0.119  Sum_probs=9.7

Q ss_pred             hhHHHHHHHhHhhHHHHHHHHHHHHH
Q 027451          176 ETNAVALRKQSEGFLFEYDRLLEENQ  201 (223)
Q Consensus       176 ~~d~~aLKkQae~l~~EYDrL~~e~~  201 (223)
                      +.++....+.......|++.|....+
T Consensus        26 e~~l~~~e~~~~~~E~ev~~L~kKiq   51 (81)
T 1ic2_A           26 EADKKAAEERSKQLEDELVALQKKLK   51 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33333333333333333333333333

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=85.53  E-value=41  Score=38.39  Aligned_cols=44  Identities=16%  Similarity=0.085  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHHHHHHHHHHHHH
Q 027451          162 ESELETKSKEANAAETNAVALRKQSEGFLFEYDRLLEENQNLRN  205 (223)
Q Consensus       162 k~el~~~~~el~~~~~d~~aLKkQae~l~~EYDrL~~e~~~l~~  205 (223)
                      +.++++.+.++..+++.+++.+.+...++..-+.|.++|++...
T Consensus      2013 r~~l~~ae~~l~~~~~~L~~~~~~L~~le~~l~~L~~~~~~~~~ 2056 (3245)
T 3vkg_A         2013 REEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIR 2056 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555555666666666666666666666666667666665443

>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=83.61  E-value=15  Score=29.09  Aligned_cols=39  Identities=23%  Similarity=0.211  Sum_probs=19.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhHHHHHHHhHhhHHHHHH
Q 027451          156 LKLKDLESELETKSKEANAAETNAVALRKQSEGFLFEYD  194 (223)
Q Consensus       156 ~e~~~Lk~el~~~~~el~~~~~d~~aLKkQae~l~~EYD  194 (223)
                      .+++.|...++..+....-|+..+.-|.+.++.+..+.+
T Consensus        77 eqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~  115 (155)
T 2efr_A           77 EEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELY  115 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555544444444555555555554444433

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=83.38  E-value=11  Score=29.77  Aligned_cols=19  Identities=16%  Similarity=0.163  Sum_probs=9.4

Q ss_pred             HHHHHHHhHhhHHHHHHHH
Q 027451          178 NAVALRKQSEGFLFEYDRL  196 (223)
Q Consensus       178 d~~aLKkQae~l~~EYDrL  196 (223)
                      .+..+......+++|++.|
T Consensus       111 q~n~lE~kl~kLq~EN~~L  129 (152)
T 3a7p_A          111 ENNVLQQKLSDLKKEHSQL  129 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444555555555555433

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=83.36  E-value=19  Score=30.15  Aligned_cols=17  Identities=12%  Similarity=-0.035  Sum_probs=6.3

Q ss_pred             hHHHHHHHhHhhHHHHH
Q 027451          177 TNAVALRKQSEGFLFEY  193 (223)
Q Consensus       177 ~d~~aLKkQae~l~~EY  193 (223)
                      ..++.++...+....++
T Consensus       132 ~~l~~~~~~l~~~~~~~  148 (256)
T 3na7_A          132 KEMLELEKLALELESLV  148 (256)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

>3viq_B Mating-type switching protein SWI5; recombination activator; 2.20A {Schizosaccharomyces pombe} PDB: 3vir_A*

Probab=81.81  E-value=2.2  Score=30.65  Aligned_cols=19  Identities=16%  Similarity=0.128  Sum_probs=10.4

Q ss_pred             hHHHHHHHHHHHHHHHHHh
Q 027451          188 GFLFEYDRLLEENQNLRNQ  206 (223)
Q Consensus       188 ~l~~EYDrL~~e~~~l~~~  206 (223)
                      ...+.|=+++-+||++++-
T Consensus        38 ~~~~~hI~~Lh~YNeiKD~   56 (85)
T 3viq_B           38 QTVQKHIDLLHTYNEIRDI   56 (85)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHH
Confidence            3344555566666665543

---

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	223
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	80.32

>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=80.32  E-value=6.8  Score=26.79  Aligned_cols=22  Identities=18%  Similarity=0.329  Sum_probs=9.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 027451          107 DRLHHYIRELRIRRKTMEAIKN  128 (223)
Q Consensus       107 ~R~~~li~~l~~~~~~~~al~k  128 (223)
                      ..+..+-.+...++..++.++.
T Consensus        28 d~i~~ld~~rr~l~~~~e~l~~   49 (110)
T d1seta1          28 EALLALDREVQELKKRLQEVQT   49 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444433