Psyllid ID: psy3120

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-
Protein Sequence
ALNQVKQYEKEISRLSGTPSIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSSASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLESIVGGTSALSSNNFSPTTSSPLSHFLSSRPPAPGFGTTADNLNQLDSNTNVFINHISQNQFSNT
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccHHHHHHcccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHcccccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEccHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHcccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccEccccccHHHHcHHHEcccEEEcccccccccccccccEcEcccccccccccccHHHHHHHHHcccccccccccccHHHHHHHHcccccccccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccHHHcccHHHHHccccccHHHccccccccEEEEEcccHHcccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccHHHHcccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHcHHHcccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccHHccccccccccHccccccccccc
Coil and Loop (DISEMBL)
ALNQVKQYEKEIsrlsgtpsivclssnadlnsMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEfrveqcplflqhkctqhrpftcfhwhfmnqrrrrpvrkrdgsfnyspdtyctkydettglcpdgdecpflhrtagdterrYHLRYyktcmcvhdtdarglcvkngahcafahgnpdlrppvydikeiqalenpegdpnsnsngpnaldkegklltedpkwqdtnyvlsnykteqckrpprlcrqgyacpqfhnsrdkrrsprtfkyrstpcpnvkhgdewgepancesgdlcqychtrteqqfhpeiykstkcndvqqagycprgvfcafAHVDTEMANAREMagglgpldgtpgsglsdilagglpnsnLDEALLLMQQQQlmnprdellcngnnhsndlelmmdsdssasssnseaslgldkapgaqLTQARLTLVENHVNnafnnnhaggggtglSEAASLTQARLTLVENHVNnafnnnhaggggtglsEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLnstnsgshhfggplesivggtsalssnnfspttssplshflssrppapgfgttadnlnqldsnTNVFINHIsqnqfsnt
Flexible Loop (DISEMBL)
ALNQVKQYEKeisrlsgtpsIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHfmnqrrrrpvrkrdgsfnyspdtyctkYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALenpegdpnsnsnGPNALDKEGKLltedpkwqdtNYVLSNykteqckrpprlcrqgyacpqfhnsrdkrrsprtfkyrstpcpnvkhgdewGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSSASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLESIVGGTSALSSNNFSPTTSSPLSHFLSSRPPAPGFGTTADNLNQLDSNTNVFINHISQNQFSNT
Low Complexity Region (SEG)
ALNQVKQYEKEISRLSGTPSIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEAlllmqqqqlmNPRDELLCNGNNHsndlelmmdsdssasssnseaslGLDKAPGAQLTQARLTLVEnhvnnafnnnhaggggtgLSEAASLTQARLTLVEnhvnnafnnnhaggggtgLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLESIVGGTSAlssnnfspttssplsHFLSSRPPAPGFGTTADNLNQLDSNTNVFINHISQNQFSNT
Disordered region (IsUnstruct)
********************IVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRR********GSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKE*********************************WQDTNYVLSNYKTEQCKRPPRLCRQGYACP******************************WGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMA************************************LL*********************************************************RLTLVENHVNNAFN****************LTQARLTLVENHVNNAFNNNHA*********AASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVL*****************************************************************VFI***********
Disordered Region (DISOPRED)
*****KQ********************ADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQA************NGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDT*****************************************************************************************************************************************************************************************************************************************************************NTNVFINHI********
Disordered Region (DISEMBL)
ALNQVKQYEKEISRLSGTPSIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALEN********SNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMD*****************KAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLESIVGGTSALSSN***********HFLSSRPPAPGFGTTADNLNQLDSNTNVFINHISQNQFSNT
Disordered Region (DISPRO)
ALNQVKQYEKEISRLSGTPSIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEG******NGPN*LDK*G*LLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNS*DKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMA********************************LDEAL*L**QQQL*N****L*******S*D*EL******************************R****ENHVNN*********************Q*RLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLES*VG***A************P***FL**RPPAPGFGTTADNLNQLDSNTNVFINHI********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHHHHHHiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooHHHHHHHHHHHHHHHHHHHHHHHHiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ALNQVKQYEKEISRLSGTPSIVCLSSNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSSASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVLNSTNSGSHHFGGPLESIVGGTSALSSNNFSPTTSSPLSHFLSSRPPAPGFGTTADNLNQLDSNTNVFINHISQNQFSNT
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	711	2.2.26 [Sep-21-2011]
Q86B79	599	RING finger protein unkem	yes	N/A	0.403	0.479	0.809	1e-144
Q8BL48	810	RING finger protein unkem	yes	N/A	0.393	0.345	0.728	1e-132
Q9C0B0	810	RING finger protein unkem	yes	N/A	0.393	0.345	0.728	1e-132
Q6EE22	810	RING finger protein unkem	yes	N/A	0.393	0.345	0.724	1e-131
Q5FWH2	727	Putative E3 ubiquitin-pro	no	N/A	0.407	0.398	0.708	1e-125
Q9H9P5	680	Putative E3 ubiquitin-pro	no	N/A	0.399	0.417	0.684	1e-120
Q9LXV4	706	Zinc finger CCCH domain-c	yes	N/A	0.164	0.165	0.337	7e-10
Q2QPW2	619	Zinc finger CCCH domain-c	yes	N/A	0.123	0.142	0.355	1e-09
P93755	716	Zinc finger CCCH domain-c	no	N/A	0.156	0.155	0.326	3e-09
Q84SL2	657	Zinc finger CCCH domain-c	no	N/A	0.123	0.133	0.326	1e-08

>sp|Q86B79|UNK_DROME RING finger protein unkempt OS=Drosophila melanogaster GN=unk PE=1 SV=1

 Score =  514 bits (1323), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 234/289 (80%), Positives = 255/289 (88%), Gaps = 2/289 (0%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQC  FLQHKC QHRPF CF+WHF NQRRRRPVRKRDG+FNYS D YCTKY
Sbjct: 21  YTYLKEFRVEQCQSFLQHKCNQHRPFVCFNWHFQNQRRRRPVRKRDGTFNYSADNYCTKY 80

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CP+GDECP+LHRTAGDTERRYHLRYYKTCMCVHDTD+RG CVKNG HCAFAHG 
Sbjct: 81  DETTGICPEGDECPYLHRTAGDTERRYHLRYYKTCMCVHDTDSRGYCVKNGLHCAFAHGM 140

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            D RPPVYDIKE++ L+N E   +S +N  NALDKE  L+ EDPKWQDTNYVL+NYKTE 
Sbjct: 141 QDQRPPVYDIKELETLQNAESTLDS-TNALNALDKERNLMNEDPKWQDTNYVLANYKTEP 199

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE+GD CQY
Sbjct: 200 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEAGDNCQY 259

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD-TEMANARE 444
           CHTRTEQQFHPEIYKSTKCNDVQQAGYCPR VFCAFAHV+   M + RE
Sbjct: 260 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRSVFCAFAHVEPCSMDDPRE 308

Essential for late larval/early pupal development.
Drosophila melanogaster (taxid: 7227)

>sp|Q8BL48|UNK_MOUSE RING finger protein unkempt homolog OS=Mus musculus GN=Unk PE=1 SV=1

 Score =  473 bits (1217), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 209/287 (72%), Positives = 241/287 (83%), Gaps = 7/287 (2%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct: 34  YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct: 94  DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query: 277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
            DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct: 154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query: 330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
            NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct: 214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query: 390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
           +GD CQYCHTRTEQQFHPEIYKSTKCND+QQAG CPRG FCAFAH++
Sbjct: 274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQAGSCPRGPFCAFAHIE 320

Mus musculus (taxid: 10090)

>sp|Q9C0B0|UNK_HUMAN RING finger protein unkempt homolog OS=Homo sapiens GN=UNK PE=1 SV=2

 Score =  472 bits (1215), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 209/287 (72%), Positives = 241/287 (83%), Gaps = 7/287 (2%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct: 34  YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct: 94  DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query: 277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
            DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct: 154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query: 330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
            NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct: 214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query: 390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
           +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct: 274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 320

Homo sapiens (taxid: 9606)

>sp|Q6EE22|UNK_CANFA RING finger protein unkempt homolog OS=Canis familiaris GN=UNK PE=2 SV=1

 Score =  470 bits (1210), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 208/287 (72%), Positives = 241/287 (83%), Gaps = 7/287 (2%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct: 34  YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct: 94  DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query: 277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
            DLR PVYDI+E+QA+E         EG     + G  +     K+L+E+P+WQ+T YVL
Sbjct: 154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQTAGAASHAMIEKILSEEPRWQETAYVL 213

Query: 330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
            NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct: 214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query: 390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
           +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct: 274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 320

Canis familiaris (taxid: 9615)

>sp|Q5FWH2|UNKL_MOUSE Putative E3 ubiquitin-protein ligase UNKL OS=Mus musculus GN=Unkl PE=2 SV=2

 Score =  451 bits (1160), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 211/298 (70%), Positives = 246/298 (82%), Gaps = 8/298 (2%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFR EQC LFLQHKC+QHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YC+KY
Sbjct: 25  YRYLKEFRTEQCSLFLQHKCSQHRPFTCFHWHFLNQRRRRPLRRRDGTFNYSPDIYCSKY 84

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DE TGLCPDGDECP+LHRT GDTER+YHLRYYKT  C+H+TDARG CVKNG HCAFAHG 
Sbjct: 85  DEATGLCPDGDECPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVKNGLHCAFAHGP 144

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNG-----PNALDKEG---KLLTEDPKWQDTNYV 328
            DLRPPV DI+E+QA E  +    S  +G     P  L  +    K+L EDP+WQD+N+V
Sbjct: 145 LDLRPPVCDIRELQAQEALQNGQLSGGDGVPDLQPGVLASQAMIEKILGEDPRWQDSNFV 204

Query: 329 LSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANC 388
           L +YKTEQC +PPRLCRQGYACP +HNSRD+RR+PR F+YRSTPCP+VKHGDEWGEP+ C
Sbjct: 205 LGSYKTEQCPKPPRLCRQGYACPHYHNSRDRRRNPRRFQYRSTPCPSVKHGDEWGEPSRC 264

Query: 389 ESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMA 446
           + GD CQYCH+RTEQQFHPEIYKSTKCND++Q GYCPRG FCAFAH +  +A   E +
Sbjct: 265 DGGDSCQYCHSRTEQQFHPEIYKSTKCNDMRQTGYCPRGPFCAFAHTEKSLAMVNEWS 322

May participate in a protein complex showing an E3 ligase activity regulated by Rac1. Ubiquitination is directed towards itself and possibly other substrates, such as Baf60b/Smarcd2. Intrinsic E3 ligase activity has not been proven.

Mus musculus (taxid: 10090)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9H9P5|UNKL_HUMAN Putative E3 ubiquitin-protein ligase UNKL OS=Homo sapiens GN=UNKL PE=1 SV=3

 Score =  433 bits (1114), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 206/301 (68%), Positives = 241/301 (80%), Gaps = 17/301 (5%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFR EQCPLF QHKC QHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YC+KY
Sbjct: 25  YRYLKEFRTEQCPLFSQHKCAQHRPFTCFHWHFLNQRRRRPLRRRDGTFNYSPDVYCSKY 84

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           +E TG+CPDGDECP+LHRT GDTER+YHLRYYKT  C+H+TDARG CVKNG HCAFAHG 
Sbjct: 85  NEATGVCPDGDECPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVKNGLHCAFAHGP 144

Query: 277 PDLRPPVYDIKEIQALE--------NPEGDPNSNSNGPNALDKEG---KLLTEDPKWQDT 325
            DLRPPV D++E+QA E          EG P+     P  L  +    K+L+EDP+WQD 
Sbjct: 145 LDLRPPVCDVRELQAQEALQNGQLGGGEGVPDLQ---PGVLASQAMIEKILSEDPRWQDA 201

Query: 326 NYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEP 385
           N+VL +YKTEQC +PPRLCRQGYACP +HNSRD+RR+PR F+YRSTPCP+VKHGDEWGEP
Sbjct: 202 NFVLGSYKTEQCPKPPRLCRQGYACPHYHNSRDRRRNPRRFQYRSTPCPSVKHGDEWGEP 261

Query: 386 ANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREM 445
           + C+ GD CQYCH+RTEQQFHPE   STKCND++Q GYCPRG FCAFAHV+  +    E 
Sbjct: 262 SRCDGGDGCQYCHSRTEQQFHPE---STKCNDMRQTGYCPRGPFCAFAHVEKSLGMVNEW 318

Query: 446 A 446
            
Sbjct: 319 G 319

May participate in a protein complex showing an E3 ligase activity regulated by RAC1. Ubiquitination is directed towards itself and possibly other substrates, such as SMARCD2/BAF60b. Intrinsic E3 ligase activity has not been proven.

Homo sapiens (taxid: 9606)

EC: 6

EC: .

EC: 3

EC: .

EC: 2

EC: .

EC: -

>sp|Q9LXV4|C3H56_ARATH Zinc finger CCCH domain-containing protein 56 OS=Arabidopsis thaliana GN=At5g12850 PE=2 SV=1

 Score = 66.6 bits (161), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 49/145 (33%), Positives = 66/145 (45%), Gaps = 28/145 (19%)

Query: 342 RLCRQGYA-----CPQFHNSRD-KRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQ 395
           R C + Y+     CP  H   + +RR PR F Y   PCP+ K G       +C+ GD+C+
Sbjct: 266 RPCSRAYSHDWTECPFAHPGENARRRDPRKFHYTCVPCPDFKKG-------SCKQGDMCE 318

Query: 396 YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGT 455
           Y H   E   HP  Y++  C D      C R V C FAH + E          L PL  +
Sbjct: 319 YAHGVFECWLHPAQYRTRLCKD---GMGCNRRV-CFFAHANEE----------LRPLYPS 364

Query: 456 PGSGL-SDILAGGLPNSNLDEALLL 479
            GSGL S   +  +  S +D A +L
Sbjct: 365 TGSGLPSPRASSAVSASTMDMASVL 389

Arabidopsis thaliana (taxid: 3702)

>sp|Q2QPW2|C3H67_ORYSJ Zinc finger CCCH domain-containing protein 67 OS=Oryza sativa subsp. japonica GN=Os12g0515500 PE=2 SV=1

 Score = 65.9 bits (159), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/104 (35%), Positives = 47/104 (45%), Gaps = 16/104 (15%)

Query: 342 RLCRQGYA-----CPQFHNSRD-KRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQ 395
           R C + Y+     CP  H   + +RR PR + Y   PCP  K G      A C  GD+C+
Sbjct: 182 RACSRAYSHDWTECPFVHPGENARRRDPRKYHYSCVPCPEFKKG------AGCRRGDMCE 235

Query: 396 YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEM 439
           Y H   E   HP  Y++  C D      C R V C FAH   E+
Sbjct: 236 YAHGVFESWLHPAQYRTRLCKD---GVGCARRV-CFFAHTPDEL 275

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P93755|C3H30_ARATH Zinc finger CCCH domain-containing protein 30 OS=Arabidopsis thaliana GN=At2g41900 PE=1 SV=2

 Score = 64.7 bits (156), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 47/144 (32%), Positives = 59/144 (40%), Gaps = 33/144 (22%)

Query: 342 RLCRQGYA-----CPQFHNSRD-KRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQ 395
           R C + Y+     CP  H   + +RR PR F Y   PCP+ + G        C  GD+C+
Sbjct: 270 RPCSRAYSHDWTECPFVHPGENARRRDPRKFHYSCVPCPDFRKG-------ACRRGDMCE 322

Query: 396 YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGT 455
           Y H   E   HP  Y++  C D      C R V C FAH   E          L PL  +
Sbjct: 323 YAHGVFECWLHPAQYRTRLCKD---GTGCARRV-CFFAHTPEE----------LRPLYAS 368

Query: 456 PGSGLSDILAGGLPNSNLDEALLL 479
            GS +        P SN D A  L
Sbjct: 369 TGSAVPS------PRSNADYAAAL 386

Arabidopsis thaliana (taxid: 3702)

>sp|Q84SL2|C3H50_ORYSJ Zinc finger CCCH domain-containing protein 50 OS=Oryza sativa subsp. japonica GN=Os07g0568300 PE=2 SV=1

 Score = 62.8 bits (151), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 34/104 (32%), Positives = 49/104 (47%), Gaps = 16/104 (15%)

Query: 342 RLCRQGYA-----CPQFHNSRD-KRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQ 395
           R C + Y+     CP  H   + +RR PR   Y + PCPN +       P  C SGD C+
Sbjct: 243 RPCSRAYSHDWTECPFVHPGENARRRDPRKHPYTAVPCPNFRR------PGGCPSGDSCE 296

Query: 396 YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEM 439
           + H   E   HP  Y++  C   ++   C R + C FAH + E+
Sbjct: 297 FSHGVFESWLHPSQYRTRLC---KEGAACARRI-CFFAHDEDEL 336

Oryza sativa subsp. japonica (taxid: 39947)

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	711
307169353	775	RING finger protein unkempt [Camponotus	0.610	0.56	0.618	1e-167
380021084	788	PREDICTED: RING finger protein unkempt h	0.679	0.612	0.535	1e-164
350398232	794	PREDICTED: RING finger protein unkempt h	0.684	0.613	0.534	1e-164
340725055	788	PREDICTED: RING finger protein unkempt h	0.578	0.521	0.631	1e-164
332028956	780	RING finger protein unkempt-like protein	0.575	0.524	0.638	1e-164
307204450	812	RING finger protein unkempt-like protein	0.599	0.524	0.601	1e-162
345486473	808	PREDICTED: RING finger protein unkempt-l	0.573	0.504	0.611	1e-158
189240519	727	PREDICTED: similar to unkempt protein [T	0.431	0.422	0.806	1e-157
242009985	710	zinc finger protein CCCH domain-containi	0.430	0.430	0.816	1e-155
270012593	739	hypothetical protein TcasGA2_TC006754 [T	0.431	0.415	0.776	1e-155

>gi|307169353|gb|EFN62074.1| RING finger protein unkempt [Camponotus floridanus]

 Score =  594 bits (1532), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 313/506 (61%), Positives = 363/506 (71%), Gaps = 72/506 (14%)

Query: 159 YLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDE 218
           YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKYDE
Sbjct: 11  YLKEFRVEQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKYDE 70

Query: 219 TTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPD 278
           TTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN D
Sbjct: 71  TTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGNHD 130

Query: 279 LRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCK 338
           LRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE CK
Sbjct: 131 LRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEPCK 190

Query: 339 RPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCH 398
           RPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE GD C YCH
Sbjct: 191 RPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEQGDACTYCH 250

Query: 399 TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGS 458
           TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD EM+ AR+MA    P+D   G+
Sbjct: 251 TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDQEMSLARDMA---VPIDC--GA 305

Query: 459 GLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSSASSSNS 518
            L+DIL+  LP              +  + +D+ L + +N S ++        SAS+S+ 
Sbjct: 306 NLADILSNALP------------PDKRSHDKDKQLSDSSNGSGEVS------ESASTSSL 347

Query: 519 EASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLVENHV 578
            ++    KAPGAQL            +N+ N N      +G++ AA   Q +LT +  + 
Sbjct: 348 GSNSSHSKAPGAQL------------HNSNNTN------SGINAAA---QQKLTSILYNP 386

Query: 579 NNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQAL-----LQTVLN 633
           ++    N                IRKQ++AI+SDPL+   EK Q+KQ+L     L   L+
Sbjct: 387 SSLIQVNE---------------IRKQMIAIDSDPLLTKAEKAQQKQSLYIAYNLNGTLS 431

Query: 634 STN--------SGSHHFGGPLESIVG 651
           S +        S S +    +ES+VG
Sbjct: 432 SHSLTTTVSPLSNSFYSNDTVESVVG 457

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380021084|ref|XP_003694404.1| PREDICTED: RING finger protein unkempt homolog [Apis florea]

 Score =  585 bits (1507), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 335/626 (53%), Positives = 391/626 (62%), Gaps = 143/626 (22%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKY
Sbjct: 19  YTYLKEFRVEQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN
Sbjct: 79  DETTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGN 138

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            DLRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE 
Sbjct: 139 HDLRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEP 198

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE GD C Y
Sbjct: 199 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEQGDACTY 258

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD----TEMANAREMAGGLGPL 452
           CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD     EM+ AR+MA    P+
Sbjct: 259 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDLLPTEEMSLARDMA---VPI 315

Query: 453 DGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSS 512
           D   G+ L+DIL+  LP              +  + +D+ L + +N S ++        S
Sbjct: 316 DC--GTNLADILSNALP------------PDKRTHEKDKPLSDSSNGSGEV------SES 355

Query: 513 ASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLT 572
           AS+S+  ++    KAPGAQL  +                             +  Q +LT
Sbjct: 356 ASTSSVGSNSSHSKAPGAQLHNSNSNNT----------------------VNTSNQQKLT 393

Query: 573 LVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQAL-LQTV 631
            +       +N N     G          IRKQ++AI+SDPL+   EK Q+KQ+L +   
Sbjct: 394 SI------LYNPNSLLQVGE---------IRKQMVAIDSDPLLTKAEKAQQKQSLYIAYS 438

Query: 632 LNSTNSGSHHFG---GPL----------ESIVGG-------------------------- 652
           LN T  GSH       PL          ES+VG                           
Sbjct: 439 LNGT-LGSHSLATTVSPLSSSFYPNDTVESVVGSALDELHLDDPLNLVESIHRDTNSPIS 497

Query: 653 ---TSALSSN---------------------NFSPTTSSPLSHFLSSRPPAPGF--GTTA 686
              ++ L+S+                     NFSP+TSSPL H  S+     GF  G+  
Sbjct: 498 NSISAGLASSGLLGSSAPVNIPGMNERSVLTNFSPSTSSPLQHLHST-----GFLTGSRF 552

Query: 687 DNLNQLDSN-------TNVFINHISQ 705
            + + ++S        ++ F NHISQ
Sbjct: 553 SHQDSIESTIPFMNQVSDPFSNHISQ 578

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350398232|ref|XP_003485127.1| PREDICTED: RING finger protein unkempt homolog isoform 1 [Bombus impatiens]

 Score =  585 bits (1507), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 333/623 (53%), Positives = 388/623 (62%), Gaps = 136/623 (21%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKY
Sbjct: 19  YTYLKEFRVEQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN
Sbjct: 79  DETTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGN 138

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            DLRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE 
Sbjct: 139 HDLRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEP 198

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE GD C Y
Sbjct: 199 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEQGDACTY 258

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD----TEMANAREMAGGLGPL 452
           CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD     EM+ AR+MA    P+
Sbjct: 259 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDLLPTEEMSLARDMA---VPI 315

Query: 453 DGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSS 512
           D   G+ L+DIL+  LP              +  + +D+ L + +N S ++        S
Sbjct: 316 DC--GTNLADILSNALP------------PDKRSHEKDKQLSDSSNGSGEV------SES 355

Query: 513 ASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLT 572
           AS+S+  ++    KAPGAQL  +       + N+  N ++     + L   +SL Q    
Sbjct: 356 ASTSSVGSNSSHSKAPGAQLHNS-------NSNSTVNTSNQQKLTSILYNPSSLLQV--- 405

Query: 573 LVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQALLQTVL 632
                                        IRKQ++AI+SDPL+   EK Q KQ L     
Sbjct: 406 ---------------------------GEIRKQVVAIDSDPLLTKAEKAQLKQGLYSAYS 438

Query: 633 NSTNSGSHHFG---GPL----------ESIVGG--------------------------- 652
            +   G+H       PL          ES+VG                            
Sbjct: 439 LNGTLGNHSLATTVSPLSSSFYPNDTVESVVGNALDELHLDDPLNLVESIHRDTNSPISN 498

Query: 653 --TSALSSN---------------------NFSPTTSSPLSHFLSSRPPAPGFGTTADNL 689
             ++ L+S+                     NFSP+TSSPL H  S+     GF  T    
Sbjct: 499 SISAGLASSGLLGSSAPVNIPGMNERSVLTNFSPSTSSPLQHLHST-----GF-LTGSRF 552

Query: 690 NQLDS--NTNVFINHISQNQFSN 710
           +  DS  +T  F+N +S + FSN
Sbjct: 553 SHQDSIESTMPFMNQVS-DPFSN 574

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340725055|ref|XP_003400890.1| PREDICTED: RING finger protein unkempt homolog isoform 1 [Bombus terrestris]

 Score =  584 bits (1506), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 300/475 (63%), Positives = 343/475 (72%), Gaps = 64/475 (13%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKY
Sbjct: 19  YTYLKEFRVEQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN
Sbjct: 79  DETTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGN 138

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            DLRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE 
Sbjct: 139 HDLRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEP 198

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE GD C Y
Sbjct: 199 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEQGDACTY 258

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD----TEMANAREMAGGLGPL 452
           CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD     EM+ AR+MA    P+
Sbjct: 259 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDLLPTEEMSLARDMA---VPI 315

Query: 453 DGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSS 512
           D   G+ L+DIL+  LP              +  + +D+ L + +N S ++        S
Sbjct: 316 DC--GTNLADILSNALP------------PDKRSHEKDKQLSDSSNGSGEV------SES 355

Query: 513 ASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLT 572
           AS+S+  ++    KAPGAQL  +       + N+  N ++     + L   +SL Q    
Sbjct: 356 ASTSSVGSNSSHSKAPGAQLHNS-------NSNSTVNTSNQQKLTSILYNPSSLLQV--- 405

Query: 573 LVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQAL 627
                                        IRKQ++AI+SDPL+   EK Q+KQ+L
Sbjct: 406 ---------------------------GEIRKQVVAIDSDPLLTKAEKAQQKQSL 433

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332028956|gb|EGI68974.1| RING finger protein unkempt-like protein [Acromyrmex echinatior]

 Score =  583 bits (1504), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 302/473 (63%), Positives = 347/473 (73%), Gaps = 64/473 (13%)

Query: 159 YLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDE 218
           YLKEFRV+QCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKYDE
Sbjct: 11  YLKEFRVDQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKYDE 70

Query: 219 TTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPD 278
           TTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN D
Sbjct: 71  TTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGNHD 130

Query: 279 LRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCK 338
           LRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE CK
Sbjct: 131 LRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEPCK 190

Query: 339 RPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCH 398
           RPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE GD C YCH
Sbjct: 191 RPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEQGDACTYCH 250

Query: 399 TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD----TEMANAREMAGGLGPLDG 454
           TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD     EM+ AR+MA    P+D 
Sbjct: 251 TRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDLLPTEEMSLARDMA---VPIDC 307

Query: 455 TPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSSAS 514
             G+ L+DIL+  LP              +  + +D+ L + +N S ++        SAS
Sbjct: 308 --GANLADILSNALP------------PDKRSHDKDKPLSDSSNGSGEVS------ESAS 347

Query: 515 SSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQARLTLV 574
           +S+  ++    KAPGAQL            +N+ N N      +G++ A    Q +LT +
Sbjct: 348 TSSLGSNSSHSKAPGAQL------------HNSNNTN------SGINAA----QQKLTSI 385

Query: 575 ENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQAL 627
             + N+    N                IRKQ++AI+SDPL+   EK Q+K +L
Sbjct: 386 LYNPNSLIQVNE---------------IRKQMVAIDSDPLLTKAEKAQQKHSL 423

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307204450|gb|EFN83157.1| RING finger protein unkempt-like protein [Harpegnathos saltator]

 Score =  577 bits (1487), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 307/510 (60%), Positives = 352/510 (69%), Gaps = 84/510 (16%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRPVRKRD +FNYS D YCTKY
Sbjct: 19  YTYLKEFRVEQCPLFVQRKCTQHRPFTCFNWHFMNQRRRRPVRKRDRTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CPDGDECP+LHRTAGDTERRYHLRYYKTCMCVHDTD RG CVKNG HCAFAHGN
Sbjct: 79  DETTGICPDGDECPYLHRTAGDTERRYHLRYYKTCMCVHDTDTRGFCVKNGPHCAFAHGN 138

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            DLRPPVYDIKEIQALENP+ DPNS+SNGPN LDKE  L+ EDPKWQDTNYVLSNYKTE 
Sbjct: 139 HDLRPPVYDIKEIQALENPDSDPNSSSNGPNILDKERNLMNEDPKWQDTNYVLSNYKTEP 198

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYR------------------STPCPNVKH 378
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYR                  STPCPNVKH
Sbjct: 199 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRQLLNGDSPLLIRCYWAYSSTPCPNVKH 258

Query: 379 GDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD-- 436
           G+EWGEP NCE GD C YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD  
Sbjct: 259 GEEWGEPGNCEQGDGCTYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDLL 318

Query: 437 --TEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLC 494
              EM+ AR+MA    P+D   G+ L++IL+  LP              +  + +D+ L 
Sbjct: 319 PTEEMSLARDMA---VPIDC--GANLAEILSNALP------------PDKRAHDKDKPLS 361

Query: 495 NGNNHSNDLELMMDSDSSASSSNSEASLGLDKAPGAQLTQARLTLVENHVNNAFNNNHAG 554
           + +N S ++        SAS+S+  ++    KAPGAQL                   H  
Sbjct: 362 DSSNGSGEV------SESASTSSLGSNSSHSKAPGAQL-------------------HNS 396

Query: 555 GGGTGLSEAASLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPL 614
               G++ AA   Q +LT +  + N+    N                IRKQ++AI+SDPL
Sbjct: 397 NANPGMNTAA---QQKLTSILYNPNSLIQVNE---------------IRKQMVAIDSDPL 438

Query: 615 IDIHEKLQRKQAL-LQTVLNSTNSGSHHFG 643
           +   EK Q+KQ+L +   LN T  GSH   
Sbjct: 439 LTKSEKAQQKQSLYIAYNLNGT-LGSHSLA 467

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345486473|ref|XP_003425481.1| PREDICTED: RING finger protein unkempt-like [Nasonia vitripennis]

 Score =  567 bits (1460), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 293/479 (61%), Positives = 327/479 (68%), Gaps = 71/479 (14%)

Query: 153 FDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTY 212
            D    YLKEFRVEQCPLF+Q KCTQHRPFTCF+WHFMNQRRRRP RKRD +FNYS D Y
Sbjct: 32  LDSHTKYLKEFRVEQCPLFIQRKCTQHRPFTCFNWHFMNQRRRRPTRKRDRTFNYSADNY 91

Query: 213 CTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAF 272
           CTKYDETTG+CPDGDECP LHRTAGDTERRYHLRYYKTCMCVHDTDARG CVKNG HCAF
Sbjct: 92  CTKYDETTGICPDGDECPNLHRTAGDTERRYHLRYYKTCMCVHDTDARGFCVKNGPHCAF 151

Query: 273 AHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNY 332
           AHGN DLRPPVYDIKEIQA+ENP+ DPN+ SNGPN LDKE  L+ EDPKWQDT YVLSNY
Sbjct: 152 AHGNHDLRPPVYDIKEIQAMENPDLDPNNQSNGPNILDKERNLMNEDPKWQDTTYVLSNY 211

Query: 333 KTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGD 392
           KTE CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NC+ GD
Sbjct: 212 KTEPCKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCDQGD 271

Query: 393 LCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPL 452
            C YCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD  +    EM   +  +
Sbjct: 272 NCVYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD--LLPTEEMVNDMVAM 329

Query: 453 DGTPGSGLSDILAGGLPNSNLDEALLLMQQQQLMNPRDELLCNGNNHSNDLELMMDSDSS 512
           D +  S L D+L   LP    +            N +D+ L + +     L ++ +    
Sbjct: 330 DCS--SNLLDLLRNALPPDKRN------------NDKDKTLSDSS-----LAILQNGSGE 370

Query: 513 ASSSNSEASLGLD----KAPGAQLTQARLTLVENHVNNAFNNNHAGGGGTGLSEAASLTQ 568
            S S S +SLG +    KAPGAQL Q                N AG          SL Q
Sbjct: 371 ISESASTSSLGSNGSHSKAPGAQLHQ----------------NSAGQKLANTLYNPSLLQ 414

Query: 569 ARLTLVENHVNNAFNNNHAGGGGTGLSEAASDVIRKQLLAIESDPLIDIHEKLQRKQAL 627
           A                                IRKQ++AI++DPL+   EK Q+KQ L
Sbjct: 415 A------------------------------SEIRKQMIAIDNDPLLTKAEKAQKKQNL 443

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189240519|ref|XP_971298.2| PREDICTED: similar to unkempt protein [Tribolium castaneum]

 Score =  563 bits (1450), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 254/315 (80%), Positives = 277/315 (87%), Gaps = 8/315 (2%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVR+RDG+FNYS D YCTKY
Sbjct: 19  YSYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRRRDGTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTG+CPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTD+RG CVKNG HCAFAHG+
Sbjct: 79  DETTGICPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDSRGYCVKNGLHCAFAHGS 138

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            D RPPVYDIKEIQALE  E + + ++NGPNALDKE  L+ EDPKWQDTNYVLSNYKTE 
Sbjct: 139 HDHRPPVYDIKEIQALEAAEAEGSGSANGPNALDKERNLMNEDPKWQDTNYVLSNYKTEP 198

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNS+DKRRSPR FKYRSTPCPNVKHG+EWGEP NC+SGDLC Y
Sbjct: 199 CKRPPRLCRQGYACPQYHNSKDKRRSPRKFKYRSTPCPNVKHGEEWGEPGNCDSGDLCSY 258

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTP 456
           CHTRTEQQFHPEIYKSTKCNDVQQ+GYCPRGVFCAFAHV+ EM  +R+         G  
Sbjct: 259 CHTRTEQQFHPEIYKSTKCNDVQQSGYCPRGVFCAFAHVEQEMGVSRDT--------GES 310

Query: 457 GSGLSDILAGGLPNS 471
           G+  ++IL+  LP S
Sbjct: 311 GTNFAEILSNALPPS 325

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242009985|ref|XP_002425759.1| zinc finger protein CCCH domain-containing protein, putative [Pediculus humanus corporis] gi|212509673|gb|EEB13021.1| zinc finger protein CCCH domain-containing protein, putative [Pediculus humanus corporis]

 Score =  555 bits (1429), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 250/306 (81%), Positives = 272/306 (88%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRV+QCPLFLQHKCTQHRP+TCFHWHFMNQRRRRPVRKRDGSFNYS D YCTK+
Sbjct: 23  YSYLKEFRVDQCPLFLQHKCTQHRPYTCFHWHFMNQRRRRPVRKRDGSFNYSADNYCTKF 82

Query: 217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
           DETTGLCP+GDECP+LHRTAGDTERRYHLRYYKTCMCVHDTD+RG CVKNG HCAFAHGN
Sbjct: 83  DETTGLCPEGDECPYLHRTAGDTERRYHLRYYKTCMCVHDTDSRGFCVKNGPHCAFAHGN 142

Query: 277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
            DLRPPVYDIKEIQALENP+GD N+  NGPN LDKE  L+ EDPKWQD+ YVLSNYKTE 
Sbjct: 143 HDLRPPVYDIKEIQALENPDGDANATPNGPNVLDKERNLMNEDPKWQDSTYVLSNYKTEP 202

Query: 337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
           CKRPPRLCRQGYACPQ+HNSRDKRRSP+ FKYRSTPCPNVKHGDEWGEP+NC+SGD C Y
Sbjct: 203 CKRPPRLCRQGYACPQYHNSRDKRRSPKKFKYRSTPCPNVKHGDEWGEPSNCDSGDNCAY 262

Query: 397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTP 456
           CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRG FCAFAH+D    +A   + G    +  P
Sbjct: 263 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGAFCAFAHIDQASESASISSIGSNTSNKAP 322

Query: 457 GSGLSD 462
           G+ L++
Sbjct: 323 GAQLTN 328

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270012593|gb|EFA09041.1| hypothetical protein TcasGA2_TC006754 [Tribolium castaneum]

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 254/327 (77%), Positives = 277/327 (84%), Gaps = 20/327 (6%)

Query: 157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
           + YLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVR+RDG+FNYS D YCTKY
Sbjct: 19  YSYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRRRDGTFNYSADNYCTKY 78

Query: 217 DETTGLCPDGDE------------CPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCV 264
           DETTG+CPDGDE            CPFLHRTAGDTERRYHLRYYKTCMCVHDTD+RG CV
Sbjct: 79  DETTGICPDGDESALDQNNNKRSRCPFLHRTAGDTERRYHLRYYKTCMCVHDTDSRGYCV 138

Query: 265 KNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQD 324
           KNG HCAFAHG+ D RPPVYDIKEIQALE  E + + ++NGPNALDKE  L+ EDPKWQD
Sbjct: 139 KNGLHCAFAHGSHDHRPPVYDIKEIQALEAAEAEGSGSANGPNALDKERNLMNEDPKWQD 198

Query: 325 TNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGE 384
           TNYVLSNYKTE CKRPPRLCRQGYACPQ+HNS+DKRRSPR FKYRSTPCPNVKHG+EWGE
Sbjct: 199 TNYVLSNYKTEPCKRPPRLCRQGYACPQYHNSKDKRRSPRKFKYRSTPCPNVKHGEEWGE 258

Query: 385 PANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANARE 444
           P NC+SGDLC YCHTRTEQQFHPEIYKSTKCNDVQQ+GYCPRGVFCAFAHV+ EM  +R+
Sbjct: 259 PGNCDSGDLCSYCHTRTEQQFHPEIYKSTKCNDVQQSGYCPRGVFCAFAHVEQEMGVSRD 318

Query: 445 MAGGLGPLDGTPGSGLSDILAGGLPNS 471
                    G  G+  ++IL+  LP S
Sbjct: 319 T--------GESGTNFAEILSNALPPS 337

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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	711
FB|FBgn0004395	599	unk "unkempt" [Drosophila mela	0.403	0.479	0.809	3e-140
UNIPROTKB|E1BQC4	731	E1BQC4 "Uncharacterized protei	0.428	0.417	0.700	7.1e-132
MGI|MGI:1921404	727	Unkl "unkempt-like (Drosophila	0.405	0.396	0.712	7.6e-128
UNIPROTKB|I3LAS6	822	UNKL "Uncharacterized protein"	0.423	0.366	0.683	9.6e-128
UNIPROTKB|D4A3S7	727	RGD1565247 "Protein RGD1565247	0.405	0.396	0.709	1.2e-127
UNIPROTKB|F6QHJ6	809	UNK "Uncharacterized protein"	0.393	0.346	0.731	1.6e-127
MGI|MGI:2442456	810	Unk "unkempt homolog (Drosophi	0.393	0.345	0.728	2e-127
UNIPROTKB|Q9C0B0	810	UNK "RING finger protein unkem	0.393	0.345	0.728	3.3e-127
UNIPROTKB|F1RVY8	811	UNK "Uncharacterized protein"	0.393	0.345	0.728	3.3e-127
UNIPROTKB|F1P815	885	UNK "RING finger protein unkem	0.393	0.316	0.724	6.8e-127

FB|FBgn0004395 unk "unkempt" [Drosophila melanogaster (taxid:7227)]

 Score = 1372 (488.0 bits), Expect = 3.0e-140, P = 3.0e-140
 Identities = 234/289 (80%), Positives = 255/289 (88%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFRVEQC  FLQHKC QHRPF CF+WHF NQRRRRPVRKRDG+FNYS D YCTKY
Sbjct:    21 YTYLKEFRVEQCQSFLQHKCNQHRPFVCFNWHFQNQRRRRPVRKRDGTFNYSADNYCTKY 80

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DETTG+CP+GDECP+LHRTAGDTERRYHLRYYKTCMCVHDTD+RG CVKNG HCAFAHG 
Sbjct:    81 DETTGICPEGDECPYLHRTAGDTERRYHLRYYKTCMCVHDTDSRGYCVKNGLHCAFAHGM 140

Query:   277 PDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQ 336
              D RPPVYDIKE++ L+N E   +S +N  NALDKE  L+ EDPKWQDTNYVL+NYKTE 
Sbjct:   141 QDQRPPVYDIKELETLQNAESTLDS-TNALNALDKERNLMNEDPKWQDTNYVLANYKTEP 199

Query:   337 CKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQY 396
             CKRPPRLCRQGYACPQ+HNS+DKRRSPR +KYRSTPCPNVKHG+EWGEP NCE+GD CQY
Sbjct:   200 CKRPPRLCRQGYACPQYHNSKDKRRSPRKYKYRSTPCPNVKHGEEWGEPGNCEAGDNCQY 259

Query:   397 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDT-EMANARE 444
             CHTRTEQQFHPEIYKSTKCNDVQQAGYCPR VFCAFAHV+   M + RE
Sbjct:   260 CHTRTEQQFHPEIYKSTKCNDVQQAGYCPRSVFCAFAHVEPCSMDDPRE 308

GO:0007476 "imaginal disc-derived wing morphogenesis" evidence=IMP

GO:0008407 "chaeta morphogenesis" evidence=IMP

GO:0003677 "DNA binding" evidence=NAS

GO:0002164 "larval development" evidence=IMP

GO:0048749 "compound eye development" evidence=IMP

GO:0005737 "cytoplasm" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IEA;NAS

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E1BQC4 E1BQC4 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 1293 (460.2 bits), Expect = 7.1e-132, P = 7.1e-132
 Identities = 220/314 (70%), Positives = 254/314 (80%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLFLQHKCTQHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YCTKY
Sbjct:    26 YTYLKEFRTEQCPLFLQHKCTQHRPFTCFHWHFLNQRRRRPIRRRDGTFNYSPDVYCTKY 85

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DETTG+CPDGD+CP+LHRT GDTER+YHLRYYKT  C+H+TDARG CVKNG HCAFAHG 
Sbjct:    86 DETTGICPDGDDCPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVKNGIHCAFAHGP 145

Query:   277 PDLRPPVYDIKEIQALENPEGDPNSNSNG-----PNALDKEG---KLLTEDPKWQDTNYV 328
              DLRPPVYDI+E+QA E  +        G     P  L  +    K+L+EDP+WQDTN+V
Sbjct:   146 HDLRPPVYDIRELQAQETLQNGQLGCGEGIPDLQPGNLASQAMIEKILSEDPRWQDTNFV 205

Query:   329 LSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANC 388
             L+ YKTEQC +PPRLCRQGYACP +HNSRD+RR+PRTFKYRSTPCP+VKH DEWGEP+ C
Sbjct:   206 LAGYKTEQCTKPPRLCRQGYACPHYHNSRDRRRNPRTFKYRSTPCPSVKHADEWGEPSRC 265

Query:   389 ESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGG 448
             ESGD CQYCH+RTEQQFHPEIYKSTKCND++Q GYCPRG FCAFAH +  +    E +  
Sbjct:   266 ESGDSCQYCHSRTEQQFHPEIYKSTKCNDMRQTGYCPRGPFCAFAHGENSIGITNEWSSS 325

Query:   449 LGPLDG-TPGSGLS 461
             +   +  T  SG S
Sbjct:   326 VNATNSLTSNSGQS 339

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

MGI|MGI:1921404 Unkl "unkempt-like (Drosophila)" [Mus musculus (taxid:10090)]

 Score = 1255 (446.8 bits), Expect = 7.6e-128, P = 7.6e-128
 Identities = 211/296 (71%), Positives = 245/296 (82%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQC LFLQHKC+QHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YC+KY
Sbjct:    25 YRYLKEFRTEQCSLFLQHKCSQHRPFTCFHWHFLNQRRRRPLRRRDGTFNYSPDIYCSKY 84

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCPDGDECP+LHRT GDTER+YHLRYYKT  C+H+TDARG CVKNG HCAFAHG 
Sbjct:    85 DEATGLCPDGDECPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVKNGLHCAFAHGP 144

Query:   277 PDLRPPVYDIKEIQALENPEGDPNSNSNG-----PNALDKEG---KLLTEDPKWQDTNYV 328
              DLRPPV DI+E+QA E  +    S  +G     P  L  +    K+L EDP+WQD+N+V
Sbjct:   145 LDLRPPVCDIRELQAQEALQNGQLSGGDGVPDLQPGVLASQAMIEKILGEDPRWQDSNFV 204

Query:   329 LSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANC 388
             L +YKTEQC +PPRLCRQGYACP +HNSRD+RR+PR F+YRSTPCP+VKHGDEWGEP+ C
Sbjct:   205 LGSYKTEQCPKPPRLCRQGYACPHYHNSRDRRRNPRRFQYRSTPCPSVKHGDEWGEPSRC 264

Query:   389 ESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANARE 444
             + GD CQYCH+RTEQQFHPEIYKSTKCND++Q GYCPRG FCAFAH +  +A   E
Sbjct:   265 DGGDSCQYCHSRTEQQFHPEIYKSTKCNDMRQTGYCPRGPFCAFAHTEKSLAMVNE 320

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|I3LAS6 UNKL "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 1254 (446.5 bits), Expect = 9.6e-128, P = 9.6e-128
 Identities = 216/316 (68%), Positives = 250/316 (79%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQC LF+QHKC QHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YC+KY
Sbjct:    25 YRYLKEFRTEQCSLFVQHKCAQHRPFTCFHWHFLNQRRRRPLRRRDGTFNYSPDVYCSKY 84

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE +G+CPDGD CP+LHRT GDTER+YHLRYYKT  C+H+TDARG CV+NG HCAFAHG 
Sbjct:    85 DEASGVCPDGDACPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVRNGLHCAFAHGP 144

Query:   277 PDLRPPVYDIKEIQALENPEGDPNSNSNG-----PNALDKEG---KLLTEDPKWQDTNYV 328
              DLRPPV DI+E+QA E  +       +G     P  L  +    K+L EDP+WQDTN+V
Sbjct:   145 LDLRPPVCDIRELQAQEALQNGQLGTGDGVPDLQPGVLASQALMEKILGEDPRWQDTNFV 204

Query:   329 LSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANC 388
             L +YKTEQC +PPRLCRQGYACP FHNSRD+RR PR F YRSTPCP+VKHGDEWGEP+ C
Sbjct:   205 LGSYKTEQCPKPPRLCRQGYACPHFHNSRDRRRDPRRFPYRSTPCPSVKHGDEWGEPSRC 264

Query:   389 ESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANA-----R 443
             ESGD CQYCH+RTEQQFHPEIYKSTKCND++Q GYCPRG FCAFAHV+  +  A     R
Sbjct:   265 ESGDSCQYCHSRTEQQFHPEIYKSTKCNDMRQTGYCPRGPFCAFAHVEKSLGTASDWGCR 324

Query:   444 EMAGGLGPL--DGTPG 457
             ++A   GP    G PG
Sbjct:   325 DLASVSGPAAPSGQPG 340

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|D4A3S7 RGD1565247 "Protein RGD1565247" [Rattus norvegicus (taxid:10116)]

 Score = 1253 (446.1 bits), Expect = 1.2e-127, P = 1.2e-127
 Identities = 210/296 (70%), Positives = 245/296 (82%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQC LFLQHKC+QHRPFTCFHWHF+NQRRRRP+R+RDG+FNYSPD YC+KY
Sbjct:    25 YRYLKEFRTEQCSLFLQHKCSQHRPFTCFHWHFLNQRRRRPLRRRDGTFNYSPDVYCSKY 84

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCPDGDECP+LHRT GDTER+YHLRYYKT  C+H+TDARG CVKNG HCAFAHG 
Sbjct:    85 DEATGLCPDGDECPYLHRTTGDTERKYHLRYYKTGTCIHETDARGHCVKNGLHCAFAHGP 144

Query:   277 PDLRPPVYDIKEIQALENPEGDPNSNSNG-----PNALDKEG---KLLTEDPKWQDTNYV 328
              DLRPPV DI+E+QA E  +    S  +G     P  L  +    K+L EDP+WQD+N+V
Sbjct:   145 LDLRPPVCDIRELQAQEALQNGQLSGGDGVPDLQPGVLASQAMIEKILGEDPRWQDSNFV 204

Query:   329 LSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANC 388
             L +YKTEQC +PPRLCRQGYACP +HNSRD+RR+PR F+YRSTPCP+VKHGDEWGEP+ C
Sbjct:   205 LGSYKTEQCPKPPRLCRQGYACPHYHNSRDRRRNPRRFQYRSTPCPSVKHGDEWGEPSRC 264

Query:   389 ESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANARE 444
             + GD CQYCH+RTEQQFHPEIYKSTKCND++Q GYCPRG FCAFAH++  +    E
Sbjct:   265 DVGDSCQYCHSRTEQQFHPEIYKSTKCNDMRQTGYCPRGPFCAFAHIEKSLGMVNE 320

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F6QHJ6 UNK "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 1252 (445.8 bits), Expect = 1.6e-127, P = 1.6e-127
 Identities = 210/287 (73%), Positives = 241/287 (83%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct:    34 YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TDA+G C KNG HCAFAHG 
Sbjct:    94 DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDAKGNCTKNGLHCAFAHGP 153

Query:   277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
              DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct:   154 HDLRSPVYDIRELQAMEALQNGQTTVEGSMEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query:   330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
              NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct:   214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query:   390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
             +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct:   274 NGDSCQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 320

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:2442456 Unk "unkempt homolog (Drosophila)" [Mus musculus (taxid:10090)]

 Score = 1251 (445.4 bits), Expect = 2.0e-127, P = 2.0e-127
 Identities = 209/287 (72%), Positives = 241/287 (83%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct:    34 YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct:    94 DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query:   277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
              DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct:   154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query:   330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
              NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct:   214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query:   390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
             +GD CQYCHTRTEQQFHPEIYKSTKCND+QQAG CPRG FCAFAH++
Sbjct:   274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQAGSCPRGPFCAFAHIE 320

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q9C0B0 UNK "RING finger protein unkempt homolog" [Homo sapiens (taxid:9606)]

 Score = 1249 (444.7 bits), Expect = 3.3e-127, P = 3.3e-127
 Identities = 209/287 (72%), Positives = 241/287 (83%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct:    34 YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct:    94 DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query:   277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
              DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct:   154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query:   330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
              NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct:   214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query:   390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
             +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct:   274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 320

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1RVY8 UNK "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 1249 (444.7 bits), Expect = 3.3e-127, P = 3.3e-127
 Identities = 209/287 (72%), Positives = 241/287 (83%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct:    34 YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 93

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct:    94 DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 153

Query:   277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
              DLR PVYDI+E+QA+E         EG     S G  +     K+L+E+P+WQ+T YVL
Sbjct:   154 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQSAGAASHAMIEKILSEEPRWQETAYVL 213

Query:   330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
              NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct:   214 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 273

Query:   390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
             +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct:   274 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 320

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1P815 UNK "RING finger protein unkempt homolog" [Canis lupus familiaris (taxid:9615)]

 Score = 1246 (443.7 bits), Expect = 6.8e-127, P = 6.8e-127
 Identities = 208/287 (72%), Positives = 241/287 (83%)

Query:   157 FMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKY 216
             + YLKEFR EQCPLF+QHKCTQHRP+TCFHWHF+NQRRRR +R+RDG+FNYSPD YCTKY
Sbjct:   109 YTYLKEFRTEQCPLFVQHKCTQHRPYTCFHWHFVNQRRRRSIRRRDGTFNYSPDVYCTKY 168

Query:   217 DETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN 276
             DE TGLCP+GDECPFLHRT GDTERRYHLRYYKT +C+H+TD++G C KNG HCAFAHG 
Sbjct:   169 DEATGLCPEGDECPFLHRTTGDTERRYHLRYYKTGICIHETDSKGNCTKNGLHCAFAHGP 228

Query:   277 PDLRPPVYDIKEIQALE-------NPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVL 329
              DLR PVYDI+E+QA+E         EG     + G  +     K+L+E+P+WQ+T YVL
Sbjct:   229 HDLRSPVYDIRELQAMEALQNGQTTVEGSIEGQTAGAASHAMIEKILSEEPRWQETAYVL 288

Query:   330 SNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCE 389
              NYKTE CK+PPRLCRQGYACP +HNS+D+RRSPR  KYRS+PCPNVKHGDEWG+P  CE
Sbjct:   289 GNYKTEPCKKPPRLCRQGYACPYYHNSKDRRRSPRKHKYRSSPCPNVKHGDEWGDPGKCE 348

Query:   390 SGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVD 436
             +GD CQYCHTRTEQQFHPEIYKSTKCND+QQ+G CPRG FCAFAHV+
Sbjct:   349 NGDACQYCHTRTEQQFHPEIYKSTKCNDMQQSGSCPRGPFCAFAHVE 395

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q86B79	UNK_DROME	No assigned EC number	0.8096	0.4036	0.4791	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	711
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	2e-15
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	8e-12
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	3e-10
pfam12730	230	pfam12730, ABC2_membrane_4, ABC-2 family transport	9e-10
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	1e-09
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	2e-09
COG1277	278	COG1277, NosY, ABC-type transport system involved	3e-09
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	6e-09
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	7e-09
pfam05656	112	pfam05656, DUF805, Protein of unknown function (DU	7e-09
cd10322	455	cd10322, SLC5sbd, Solute carrier 5 family, sodium/	1e-08
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	1e-08
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	2e-08
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	2e-08
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	2e-08
pfam07907	244	pfam07907, YibE_F, YibE/F-like protein	2e-08
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	3e-08
pfam12730	230	pfam12730, ABC2_membrane_4, ABC-2 family transport	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	4e-08
pfam12698	278	pfam12698, ABC2_membrane_3, ABC-2 family transport	4e-08
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	4e-08
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	5e-08
COG0842	286	COG0842, COG0842, ABC-type multidrug transport sys	5e-08
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	6e-08
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	6e-08
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	6e-08
PRK09609	312	PRK09609, PRK09609, hypothetical protein; Provisio	6e-08
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	7e-08
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	7e-08
COG2244	480	COG2244, RfbX, Membrane protein involved in the ex	9e-08
pfam06157	283	pfam06157, DUF973, Protein of unknown function (DU	9e-08
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	9e-08
pfam07695	207	pfam07695, 7TMR-DISM_7TM, 7TM diverse intracellula	9e-08
pfam13346	206	pfam13346, ABC2_membrane_5, ABC-2 family transport	1e-07
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	1e-07
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	1e-07
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	1e-07
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	1e-07
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	1e-07
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	2e-07
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	2e-07
COG2244	480	COG2244, RfbX, Membrane protein involved in the ex	2e-07
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	2e-07
cd13128	402	cd13128, MATE_Wzx_like, Wzx, a subfamily of the mu	2e-07
COG0628	355	COG0628, yhhT, Predicted permease, member of the P	2e-07
pfam13789	109	pfam13789, DUF4181, Domain of unknown function (DU	3e-07
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	3e-07
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	4e-07
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	4e-07
COG0842	286	COG0842, COG0842, ABC-type multidrug transport sys	4e-07
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	4e-07
pfam00335	221	pfam00335, Tetraspannin, Tetraspanin family	4e-07
pfam01594	327	pfam01594, UPF0118, Domain of unknown function DUF	4e-07
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	5e-07
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	5e-07
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	6e-07
pfam07242	100	pfam07242, DUF1430, Protein of unknown function (D	6e-07
pfam05656	112	pfam05656, DUF805, Protein of unknown function (DU	7e-07
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	7e-07
MTH00161	113	MTH00161, ND3, NADH dehydrogenase subunit 3; Provi	8e-07
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	9e-07
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	9e-07
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	1e-06
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	1e-06
COG2244	480	COG2244, RfbX, Membrane protein involved in the ex	1e-06
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	1e-06
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	1e-06
cd13128	402	cd13128, MATE_Wzx_like, Wzx, a subfamily of the mu	1e-06
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	1e-06
pfam01594	327	pfam01594, UPF0118, Domain of unknown function DUF	1e-06
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	2e-06
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	2e-06
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	2e-06
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	2e-06
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	2e-06
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	2e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	2e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	2e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	2e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	2e-06
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	2e-06
COG5438	385	COG5438, COG5438, Predicted multitransmembrane pro	2e-06
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	2e-06
COG0591	493	COG0591, PutP, Na+/proline symporter [Amino acid t	2e-06
pfam13197	167	pfam13197, DUF4013, Protein of unknown function (D	3e-06
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	3e-06
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	3e-06
pfam01594	327	pfam01594, UPF0118, Domain of unknown function DUF	3e-06
pfam07242	100	pfam07242, DUF1430, Protein of unknown function (D	3e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	3e-06
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	3e-06
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-06
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	4e-06
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	4e-06
pfam12698	278	pfam12698, ABC2_membrane_3, ABC-2 family transport	4e-06
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	4e-06
pfam07242	100	pfam07242, DUF1430, Protein of unknown function (D	4e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	4e-06
pfam14184	134	pfam14184, YrvL, Regulatory protein YrvL	4e-06
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	4e-06
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	5e-06
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	5e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	5e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	5e-06
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	5e-06
pfam07907	244	pfam07907, YibE_F, YibE/F-like protein	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	6e-06
COG5438	385	COG5438, COG5438, Predicted multitransmembrane pro	6e-06
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	6e-06
pfam13425	136	pfam13425, O-antigen_lig, O-antigen ligase like me	6e-06
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	7e-06
PRK09609	312	PRK09609, PRK09609, hypothetical protein; Provisio	7e-06
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	7e-06
cd13128	402	cd13128, MATE_Wzx_like, Wzx, a subfamily of the mu	7e-06
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	7e-06
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	8e-06
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	8e-06
pfam13789	109	pfam13789, DUF4181, Domain of unknown function (DU	8e-06
TIGR01218	208	TIGR01218, Gpos_tandem_5TM, tandem five-transmembr	8e-06
COG0842	286	COG0842, COG0842, ABC-type multidrug transport sys	9e-06
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	1e-05
pfam12698	278	pfam12698, ABC2_membrane_3, ABC-2 family transport	1e-05
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	1e-05
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	1e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	1e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	1e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	1e-05
pfam09685	104	pfam09685, Tic20, Tic20-like protein	1e-05
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	1e-05
COG0475	397	COG0475, KefB, Kef-type K+ transport systems, memb	1e-05
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	1e-05
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	1e-05
pfam09586	835	pfam09586, YfhO, Bacterial membrane protein YfhO	1e-05
pfam04549	156	pfam04549, CD47, CD47 transmembrane region	1e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	2e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	2e-05
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	2e-05
pfam07907	244	pfam07907, YibE_F, YibE/F-like protein	2e-05
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	2e-05
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	2e-05
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	2e-05
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	2e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	2e-05
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	2e-05
pfam04549	156	pfam04549, CD47, CD47 transmembrane region	2e-05
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	2e-05
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	2e-05
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	2e-05
cd11477	495	cd11477, SLC5sbd_u1, Uncharacterized bacterial sol	2e-05
COG3704	406	COG3704, VirB6, Type IV secretory pathway, VirB6 c	2e-05
pfam12730	230	pfam12730, ABC2_membrane_4, ABC-2 family transport	3e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	3e-05
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	3e-05
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	3e-05
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	3e-05
COG2244	480	COG2244, RfbX, Membrane protein involved in the ex	3e-05
COG0619	252	COG0619, CbiQ, ABC-type cobalt transport system, p	3e-05
pfam01594	327	pfam01594, UPF0118, Domain of unknown function DUF	3e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	3e-05
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	3e-05
pfam07694	169	pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT	3e-05
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	3e-05
pfam04610	223	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal trans	3e-05
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	4e-05
pfam06157	283	pfam06157, DUF973, Protein of unknown function (DU	4e-05
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	4e-05
MTH00166	160	MTH00166, ND6, NADH dehydrogenase subunit 6; Provi	4e-05
pfam06161	251	pfam06161, DUF975, Protein of unknown function (DU	4e-05
pfam12420	106	pfam12420, DUF3671, Protein of unknown function	4e-05
pfam07694	169	pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT	4e-05
pfam03845	320	pfam03845, Spore_permease, Spore germination prote	4e-05
PRK06041	553	PRK06041, PRK06041, flagellar assembly protein J;	4e-05
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	4e-05
COG1215	439	COG1215, COG1215, Glycosyltransferases, probably i	5e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	5e-05
COG3704	406	COG3704, VirB6, Type IV secretory pathway, VirB6 c	5e-05
COG0762	96	COG0762, COG0762, Predicted integral membrane prot	5e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam04547	449	pfam04547, Anoctamin, Calcium-activated chloride c	6e-05
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	6e-05
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	6e-05
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	6e-05
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	6e-05
PRK07668	254	PRK07668, PRK07668, hypothetical protein; Validate	6e-05
pfam10318	302	pfam10318, 7TM_GPCR_Srh, Serpentine type 7TM GPCR	6e-05
TIGR00912	359	TIGR00912, 2A0309, spore germination protein (amin	6e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	7e-05
cd13128	402	cd13128, MATE_Wzx_like, Wzx, a subfamily of the mu	7e-05
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	7e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	8e-05
pfam13789	109	pfam13789, DUF4181, Domain of unknown function (DU	8e-05
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-05
pfam06195	139	pfam06195, DUF996, Protein of unknown function (DU	8e-05
COG2237	364	COG2237, COG2237, Predicted membrane protein [Func	8e-05
pfam12730	230	pfam12730, ABC2_membrane_4, ABC-2 family transport	9e-05
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	9e-05
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	9e-05
COG4758	235	COG4758, COG4758, Predicted membrane protein [Func	9e-05
smart00793	184	smart00793, AgrB, Accessory gene regulator B	9e-05
COG3152	125	COG3152, COG3152, Predicted membrane protein [Func	9e-05
pfam04156	186	pfam04156, IncA, IncA protein	9e-05
pfam04156	186	pfam04156, IncA, IncA protein	9e-05
COG1277	278	COG1277, NosY, ABC-type transport system involved	1e-04
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	1e-04
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	1e-04
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	1e-04
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	1e-04
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	1e-04
pfam04610	223	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal trans	1e-04
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	1e-04
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	1e-04
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	1e-04
COG0772	381	COG0772, FtsW, Bacterial cell division membrane pr	1e-04
pfam02118	275	pfam02118, Srg, Srg family chemoreceptor	1e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	1e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	1e-04
pfam12822	168	pfam12822, DUF3816, Protein of unknown function (D	1e-04
COG0575	265	COG0575, CdsA, CDP-diglyceride synthetase [Lipid m	1e-04
PRK15086	372	PRK15086, PRK15086, ethanolamine utilization prote	1e-04
COG1914	416	COG1914, MntH, Mn2+ and Fe2+ transporters of the N	1e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	1e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	1e-04
pfam00642	27	pfam00642, zf-CCCH, Zinc finger C-x8-C-x5-C-x3-H t	1e-04
pfam04932	152	pfam04932, Wzy_C, O-Antigen ligase	1e-04
COG1822	349	COG1822, COG1822, Predicted archaeal membrane prot	1e-04
COG1277	278	COG1277, NosY, ABC-type transport system involved	2e-04
pfam12698	278	pfam12698, ABC2_membrane_3, ABC-2 family transport	2e-04
pfam12698	278	pfam12698, ABC2_membrane_3, ABC-2 family transport	2e-04
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	2e-04
COG0842	286	COG0842, COG0842, ABC-type multidrug transport sys	2e-04
COG2244	480	COG2244, RfbX, Membrane protein involved in the ex	2e-04
COG0628	355	COG0628, yhhT, Predicted permease, member of the P	2e-04
pfam07242	100	pfam07242, DUF1430, Protein of unknown function (D	2e-04
pfam13630	72	pfam13630, SdpI, SdpI/YhfL protein family	2e-04
COG0668	316	COG0668, MscS, Small-conductance mechanosensitive	2e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	2e-04
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	2e-04
pfam09972	503	pfam09972, DUF2207, Predicted membrane protein (DU	2e-04
pfam04549	156	pfam04549, CD47, CD47 transmembrane region	2e-04
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	2e-04
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	2e-04
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	2e-04
PRK06041	553	PRK06041, PRK06041, flagellar assembly protein J;	2e-04
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	2e-04
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam04156	186	pfam04156, IncA, IncA protein	2e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	2e-04
COG0575	265	COG0575, CdsA, CDP-diglyceride synthetase [Lipid m	2e-04
COG0575	265	COG0575, CdsA, CDP-diglyceride synthetase [Lipid m	2e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	2e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	2e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	2e-04
pfam01943	272	pfam01943, Polysacc_synt, Polysaccharide biosynthe	2e-04
COG1757	485	COG1757, NhaC, Na+/H+ antiporter [Energy productio	2e-04
TIGR04104	94	TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein	2e-04
pfam07698	189	pfam07698, 7TM-7TMR_HD, 7TM receptor with intracel	2e-04
pfam13273	96	pfam13273, DUF4064, Protein of unknown function (D	2e-04
pfam02687	121	pfam02687, FtsX, FtsX-like permease family	3e-04
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	3e-04
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	3e-04
PRK09609	312	PRK09609, PRK09609, hypothetical protein; Provisio	3e-04
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	3e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	3e-04
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	3e-04
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	3e-04
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	3e-04
COG1682	263	COG1682, TagG, ABC-type polysaccharide/polyol phos	3e-04
pfam01529	167	pfam01529, zf-DHHC, DHHC palmitoyltransferase	3e-04
COG0772	381	COG0772, FtsW, Bacterial cell division membrane pr	3e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	3e-04
COG1822	349	COG1822, COG1822, Predicted archaeal membrane prot	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	3e-04
pfam00953	158	pfam00953, Glycos_transf_4, Glycosyl transferase f	3e-04
pfam00344	340	pfam00344, SecY, SecY translocase	3e-04
COG0472	319	COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide pho	3e-04
TIGR03766	483	TIGR03766, TIGR03766, conserved hypothetical integ	3e-04
pfam04276	197	pfam04276, DUF443, Protein of unknown function (DU	3e-04
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	4e-04
pfam06157	283	pfam06157, DUF973, Protein of unknown function (DU	4e-04
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	4e-04
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	4e-04
cd13128	402	cd13128, MATE_Wzx_like, Wzx, a subfamily of the mu	4e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	4e-04
TIGR01218	208	TIGR01218, Gpos_tandem_5TM, tandem five-transmembr	4e-04
COG0475	397	COG0475, KefB, Kef-type K+ transport systems, memb	4e-04
pfam04549	156	pfam04549, CD47, CD47 transmembrane region	4e-04
pfam04610	223	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal trans	4e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	4e-04
COG1822	349	COG1822, COG1822, Predicted archaeal membrane prot	4e-04
pfam04276	197	pfam04276, DUF443, Protein of unknown function (DU	4e-04
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	4e-04
COG3307	424	COG3307, RfaL, Lipid A core - O-antigen ligase and	4e-04
COG0201	436	COG0201, SecY, Preprotein translocase subunit SecY	4e-04
pfam14296	440	pfam14296, O-ag_pol_Wzy, O-antigen polysaccharide	4e-04
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	5e-04
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	5e-04
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	5e-04
pfam04156	186	pfam04156, IncA, IncA protein	5e-04
pfam04156	186	pfam04156, IncA, IncA protein	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	5e-04
COG0575	265	COG0575, CdsA, CDP-diglyceride synthetase [Lipid m	5e-04
PRK15086	372	PRK15086, PRK15086, ethanolamine utilization prote	5e-04
COG1914	416	COG1914, MntH, Mn2+ and Fe2+ transporters of the N	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
pfam02361	217	pfam02361, CbiQ, Cobalt transport protein	5e-04
COG1822	349	COG1822, COG1822, Predicted archaeal membrane prot	5e-04
cd01115	382	cd01115, SLC13_permease, Permease SLC13 (solute ca	5e-04
COG0534	455	COG0534, NorM, Na+-driven multidrug efflux pump [D	5e-04
COG3431	142	COG3431, COG3431, Predicted membrane protein [Func	5e-04
pfam11877	116	pfam11877, DUF3397, Protein of unknown function (D	5e-04
COG0628	355	COG0628, yhhT, Predicted permease, member of the P	6e-04
pfam04156	186	pfam04156, IncA, IncA protein	6e-04
pfam13273	96	pfam13273, DUF4064, Protein of unknown function (D	6e-04
pfam13273	96	pfam13273, DUF4064, Protein of unknown function (D	6e-04
pfam13273	96	pfam13273, DUF4064, Protein of unknown function (D	6e-04
COG0201	436	COG0201, SecY, Preprotein translocase subunit SecY	6e-04
pfam14093	207	pfam14093, DUF4271, Domain of unknown function (DU	6e-04
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	7e-04
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	7e-04
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	7e-04
COG2237	364	COG2237, COG2237, Predicted membrane protein [Func	7e-04
PRK15086	372	PRK15086, PRK15086, ethanolamine utilization prote	7e-04
pfam13858	162	pfam13858, DUF4199, Protein of unknown function (D	7e-04
PHA02972	109	PHA02972, PHA02972, hypothetical protein; Provisio	7e-04
COG1295	303	COG1295, Rbn, Ribonuclease BN family enzyme [Repli	7e-04
pfam00528	183	pfam00528, BPD_transp_1, Binding-protein-dependent	7e-04
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	8e-04
COG0577	419	COG0577, SalY, ABC-type antimicrobial peptide tran	8e-04
COG0628	355	COG0628, yhhT, Predicted permease, member of the P	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	8e-04
pfam13520	425	pfam13520, AA_permease_2, Amino acid permease	8e-04
pfam10066	115	pfam10066, DUF2304, Uncharacterized conserved prot	8e-04
PHA03042	286	PHA03042, PHA03042, CD47-like protein; Provisional	8e-04
COG2064	320	COG2064, TadC, Flp pilus assembly protein TadC [Ce	8e-04
pfam12730	230	pfam12730, ABC2_membrane_4, ABC-2 family transport	9e-04
smart00793	184	smart00793, AgrB, Accessory gene regulator B	9e-04
pfam04123	344	pfam04123, DUF373, Domain of unknown function (DUF	9e-04
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	0.001
pfam06157	283	pfam06157, DUF973, Protein of unknown function (DU	0.001
COG0628	355	COG0628, yhhT, Predicted permease, member of the P	0.001
pfam10325	266	pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR	0.001
pfam07694	169	pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT	0.001
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	0.001
TIGR00912	359	TIGR00912, 2A0309, spore germination protein (amin	0.001
COG2237	364	COG2237, COG2237, Predicted membrane protein [Func	0.001
smart00793	184	smart00793, AgrB, Accessory gene regulator B	0.001
smart00793	184	smart00793, AgrB, Accessory gene regulator B	0.001
COG0472	319	COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide pho	0.001
pfam04276	197	pfam04276, DUF443, Protein of unknown function (DU	0.001
COG0201	436	COG0201, SecY, Preprotein translocase subunit SecY	0.001
pfam00528	183	pfam00528, BPD_transp_1, Binding-protein-dependent	0.001
pfam05975	385	pfam05975, EcsB, Bacterial ABC transporter protein	0.001
pfam00499	140	pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquin	0.001
pfam00499	140	pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquin	0.001
MTH00160	335	MTH00160, ND2, NADH dehydrogenase subunit 2; Provi	0.001
cd06174	352	cd06174, MFS, The Major Facilitator Superfamily (M	0.001
TIGR02454	198	TIGR02454, CbiQ_TIGR, cobalt ABC transporter, perm	0.001
TIGR03732	241	TIGR03732, lanti_perm_MutE, lantibiotic protection	0.001
cd06856	280	cd06856, GT_GPT_archaea, UDP-GlcNAc:dolichol-P Glc	0.001
pfam09847	449	pfam09847, DUF2074, Predicted permease (DUF2074)	0.001
pfam10316	272	pfam10316, 7TM_GPCR_Srbc, Serpentine type 7TM GPCR	0.001
pfam02378	313	pfam02378, PTS_EIIC, Phosphotransferase system, EI	0.001
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	0.002
COG0531	466	COG0531, PotE, Amino acid transporters [Amino acid	0.002
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	0.002
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	0.002
pfam07666	133	pfam07666, MpPF26, M penetrans paralogue family 26	0.002
pfam08006	181	pfam08006, DUF1700, Protein of unknown function (D	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam09685	104	pfam09685, Tic20, Tic20-like protein	0.002
pfam07694	169	pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT	0.002
pfam04610	223	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal trans	0.002
PRK06041	553	PRK06041, PRK06041, flagellar assembly protein J;	0.002
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	0.002
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	0.002
pfam10318	302	pfam10318, 7TM_GPCR_Srh, Serpentine type 7TM GPCR	0.002
TIGR00912	359	TIGR00912, 2A0309, spore germination protein (amin	0.002
pfam06195	139	pfam06195, DUF996, Protein of unknown function (DU	0.002
smart00793	184	smart00793, AgrB, Accessory gene regulator B	0.002
pfam12822	168	pfam12822, DUF3816, Protein of unknown function (D	0.002
TIGR04104	94	TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein	0.002
pfam07698	189	pfam07698, 7TM-7TMR_HD, 7TM receptor with intracel	0.002
pfam07698	189	pfam07698, 7TM-7TMR_HD, 7TM receptor with intracel	0.002
TIGR03766	483	TIGR03766, TIGR03766, conserved hypothetical integ	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG1132	567	COG1132, MdlB, ABC-type multidrug transport system	0.002
COG0534	455	COG0534, NorM, Na+-driven multidrug efflux pump [D	0.002
pfam00528	183	pfam00528, BPD_transp_1, Binding-protein-dependent	0.002
TIGR03732	241	TIGR03732, lanti_perm_MutE, lantibiotic protection	0.002
COG1989	254	COG1989, PulO, Type II secretory pathway, prepilin	0.002
COG1989	254	COG1989, PulO, Type II secretory pathway, prepilin	0.002
COG4194	350	COG4194, COG4194, Predicted membrane protein [Gene	0.002
COG5063	351	COG5063, CTH1, CCCH-type Zn-finger protein [Genera	0.002
pfam01758	188	pfam01758, SBF, Sodium Bile acid symporter family	0.002
pfam06011	531	pfam06011, TRP, Transient receptor potential (TRP)	0.002
pfam10328	275	pfam10328, 7TM_GPCR_Srx, Serpentine type 7TM GPCR	0.002
cd06261	190	cd06261, TM_PBP2, Transmembrane subunit (TM) found	0.003
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	0.003
COG0392	322	COG0392, COG0392, Predicted integral membrane prot	0.003
TIGR00912	359	TIGR00912, 2A0309, spore germination protein (amin	0.003
COG3152	125	COG3152, COG3152, Predicted membrane protein [Func	0.003
pfam12650	96	pfam12650, DUF3784, Domain of unknown function (DU	0.003
pfam12822	168	pfam12822, DUF3816, Protein of unknown function (D	0.003
TIGR04104	94	TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein	0.003
COG0472	319	COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide pho	0.003
COG2064	320	COG2064, TadC, Flp pilus assembly protein TadC [Ce	0.003
pfam04123	344	pfam04123, DUF373, Domain of unknown function (DUF	0.003
pfam04123	344	pfam04123, DUF373, Domain of unknown function (DUF	0.003
pfam04123	344	pfam04123, DUF373, Domain of unknown function (DUF	0.003
pfam07895	204	pfam07895, DUF1673, Protein of unknown function (D	0.003
pfam03631	255	pfam03631, Virul_fac_BrkB, Virulence factor BrkB	0.003
smart00730	249	smart00730, PSN, Presenilin, signal peptide peptid	0.003
cd06550	261	cd06550, TM_ABC_iron-siderophores_like, Transmembr	0.003
cd06550	261	cd06550, TM_ABC_iron-siderophores_like, Transmembr	0.003
COG1266	226	COG1266, COG1266, Predicted metal-dependent membra	0.003
COG4709	195	COG4709, COG4709, Predicted membrane protein [Func	0.003
COG1277	278	COG1277, NosY, ABC-type transport system involved	0.004
COG1277	278	COG1277, NosY, ABC-type transport system involved	0.004
cd10322	455	cd10322, SLC5sbd, Solute carrier 5 family, sodium/	0.004
pfam04647	185	pfam04647, AgrB, Accessory gene regulator B	0.004
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	0.004
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	0.004
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	0.004
pfam01901	331	pfam01901, DUF70, Protein of unknown function DUF7	0.004
TIGR00912	359	TIGR00912, 2A0309, spore germination protein (amin	0.004
COG2237	364	COG2237, COG2237, Predicted membrane protein [Func	0.004
pfam04123	344	pfam04123, DUF373, Domain of unknown function (DUF	0.004
pfam00499	140	pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquin	0.004
pfam00499	140	pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquin	0.004
TIGR02454	198	TIGR02454, CbiQ_TIGR, cobalt ABC transporter, perm	0.004
cd06550	261	cd06550, TM_ABC_iron-siderophores_like, Transmembr	0.004
COG2274	709	COG2274, SunT, ABC-type bacteriocin/lantibiotic ex	0.004
COG5305	552	COG5305, COG5305, Predicted membrane protein [Func	0.004
pfam00122	222	pfam00122, E1-E2_ATPase, E1-E2 ATPase	0.004
pfam07314	180	pfam07314, DUF1461, Protein of unknown function (D	0.004
pfam07314	180	pfam07314, DUF1461, Protein of unknown function (D	0.004
TIGR00813	407	TIGR00813, sss, transporter, SSS family	0.004
pfam00957	89	pfam00957, Synaptobrevin, Synaptobrevin	0.004

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 75.0 bits (185), Expect = 2e-15
 Identities = 33/98 (33%), Positives = 53/98 (54%), Gaps = 12/98 (12%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----- 128
           SKY+  +I+ +I III  +I  I+ +I   I I  +++I++I +II +I   I++     
Sbjct: 81  SKYLFSLILGLIGIIISFLIAFIVSLIFGNITISELLLILLIGLIIALIFGAILLPLYYK 140

Query: 129 -------IIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
                  II+IIII +II II  I  I++LI       
Sbjct: 141 FGYEKGRIILIIIIFLIIFIIFAIFKILNLILSLINNS 178

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 64.6 bits (158), Expect = 8e-12
 Identities = 28/96 (29%), Positives = 52/96 (54%), Gaps = 6/96 (6%)

Query: 64  CMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIII 117
             +   +        +++I++I +II +I   I++ +          II+IIII +II I
Sbjct: 101 AFIVSLIFGNITISELLLILLIGLIIALIFGAILLPLYYKFGYEKGRIILIIIIFLIIFI 160

Query: 118 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           I  I  I+ +I+ +I    +++III+++IIII  I 
Sbjct: 161 IFAIFKILNLILSLINNSSLLLIIILLVIIIILYII 196

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 60.0 bits (146), Expect = 3e-10
 Identities = 30/86 (34%), Positives = 49/86 (56%), Gaps = 12/86 (13%)

Query: 76  YIIIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
            +I +II +I   I++            II+IIII +II II  I  I+ +I+ +I    
Sbjct: 120 LLIGLIIALIFGAILLPLYYKFGYEKGRIILIIIIFLIIFIIFAIFKILNLILSLINNSS 179

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIII 149
           +++III+++IIII+ II   I + I 
Sbjct: 180 LLLIIILLVIIIILYIISYFISLKIY 205

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein

 Score = 59.3 bits (144), Expect = 9e-10
 Identities = 11/102 (10%), Positives = 64/102 (62%), Gaps = 15/102 (14%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIII 121
           +K ++++I+ ++  ++++++ +I  +++             +++++++ ++ +++I++I+
Sbjct: 94  AKLLVLLILSLLASLLLLLLSLIAGLLLGGSGFSLSLLLGALLLLLLLSLLALLLILLIL 153

Query: 122 IIIIII---IIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
            + +++    + I I +++I++ +++  + + L+F ++++ L
Sbjct: 154 FLSLLLRNSAVAIGIGLLLILLGLLLGSLPLWLLFPWSYLPL 195

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 230

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 58.0 bits (141), Expect = 1e-09
 Identities = 25/118 (21%), Positives = 53/118 (44%), Gaps = 32/118 (27%)

Query: 75  KYIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIII--------------- 114
           KY+ I++II ++++I+I I       I  II++I+I+I++++                  
Sbjct: 12  KYLKILLIIFLLLLIVIFIFLNEDGSIFFIILLILILIMLVLTTFSYDEKSKWNKYLLTL 71

Query: 115 ------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
                       +  +I+ +I III  +I  I+ +I   I I  +++ L+       +
Sbjct: 72  PVSRKEIVLSKYLFSLILGLIGIIISFLIAFIVSLIFGNITISELLLILLIGLIIALI 129

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 57.6 bits (140), Expect = 2e-09
 Identities = 29/131 (22%), Positives = 59/131 (45%), Gaps = 40/131 (30%)

Query: 70  VRKRSKYIIIIIIIIIIIIII-------IIIIIIIIIIIIIIII---------------- 106
           ++K  K ++II ++++I+I I       I  II++I+I+I++++                
Sbjct: 10  IKKYLKILLIIFLLLLIVIFIFLNEDGSIFFIILLILILIMLVLTTFSYDEKSKWNKYLL 69

Query: 107 -----------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
                            +I+ +I III  +I  I+ +I   I I  +++I++I +II +I
Sbjct: 70  TLPVSRKEIVLSKYLFSLILGLIGIIISFLIAFIVSLIFGNITISELLLILLIGLIIALI 129

Query: 150 DLIFDFTFMYL 160
                    Y 
Sbjct: 130 FGAILLPLYYK 140

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 58.2 bits (141), Expect = 3e-09
 Identities = 18/98 (18%), Positives = 52/98 (53%), Gaps = 10/98 (10%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIII----------IIIIIIIIIIIIIIIIIIIIIIII 123
            K++  +++I+III+I  I ++ +++          I  +++ +   ++  ++++ I ++
Sbjct: 108 GKFLGALLVILIIILISFISLLTLLLLFGFPGNVSSISRLLLFLGSSLLYGLVLLSISLL 167

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
           I  +     + +++ II++++ II   LI  F  + L 
Sbjct: 168 ISSLFSSSSLALLVSIILLLLFIIAFSLILLFISVLLI 205

Length = 278

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 55.3 bits (134), Expect = 6e-09
 Identities = 15/116 (12%), Positives = 51/116 (43%), Gaps = 41/116 (35%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIIIIII 122
           K  +I ++ +II III+ ++ +++              +  +++I+++I+ I+I +++  
Sbjct: 52  KAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLPA 111

Query: 123 III-----------------------------IIIIIIIIIIIIIIIIIIIIIIII 149
            +                              ++  +++I+I +++ ++  +I+ I
Sbjct: 112 ALARYARTGSFGAAFDFGEIFKMISRIGWLAYLLAFLVVIVIGLVVGLLGALIVGI 167

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 58.3 bits (141), Expect = 7e-09
 Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 7/90 (7%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------III 128
           Y+I +  I I     +  +     ++ I  ++II+I + +I ++ ++ +        I  
Sbjct: 102 YVIALAAIAIGAASYLSYLFPGPGLLSIGPLLIILIALALIALLTLLNLRGIKASAKINS 161

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           II I+ III++I II+ +          F 
Sbjct: 162 IITILKIIILLIFIILGLFAFGFSNGNLFA 191

Length = 466

>gnl|CDD|218678 pfam05656, DUF805, Protein of unknown function (DUF805)

 Score = 53.8 bits (130), Expect = 7e-09
 Identities = 12/88 (13%), Positives = 47/88 (53%), Gaps = 10/88 (11%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----- 127
           RS+Y   ++  I+I ++++I+  ++     ++    +++ +I + I I  + + +     
Sbjct: 11  RSEYWWFVLFNILITLVLLILAALLSGSSSLLSGGGLLLGLISLAIFIPSLAVTVRRLHD 70

Query: 128 -----IIIIIIIIIIIIIIIIIIIIIID 150
                  +++++I +I  I++++++++ 
Sbjct: 71  TGRSGWWLLLLLIPLIGFIVLLVLLLLP 98

This family consists of several bacterial proteins of unknown function. Length = 112

>gnl|CDD|212032 cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain

 Score = 57.5 bits (140), Expect = 1e-08
 Identities = 22/103 (21%), Positives = 48/103 (46%), Gaps = 12/103 (11%)

Query: 61  ATKCMVCEFVRKR--SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 118
                + E + +R  SK + I+  IIIII +I  +   +I   II+  ++ I      II
Sbjct: 95  LGVKTIPETLLERYYSKGVRILSAIIIIIFLIGYLAAQLIGGGIILSTLLGIPYWTGAII 154

Query: 119 IIIIIIIIIII----------IIIIIIIIIIIIIIIIIIIIDL 151
           + +I+I+  +           +I  ++++I +I++    +  +
Sbjct: 155 LAVIVILYTVFGGLRAVAWTDVIQGVLMLIGVILLAFFALSKV 197

This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease. Length = 455

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 53.4 bits (129), Expect = 1e-08
 Identities = 9/76 (11%), Positives = 41/76 (53%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
             K I  ++++  +++ +I  ++ +++  ++  ++   I   +   + + I  I+I++ +
Sbjct: 39  SKKQIFKLLLLEALLLGLIGSLLGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSL 98

Query: 133 IIIIIIIIIIIIIIII 148
           ++I++I ++  ++   
Sbjct: 99  LLILLIALLASLLPAR 114

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 54.9 bits (133), Expect = 2e-08
 Identities = 28/117 (23%), Positives = 54/117 (46%), Gaps = 24/117 (20%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIII---------------------III---IIIII 104
           F+       I  II++I+I+I++++                        I++   +  +I
Sbjct: 29  FIFLNEDGSIFFIILLILILIMLVLTTFSYDEKSKWNKYLLTLPVSRKEIVLSKYLFSLI 88

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
           + +I III  +I  I+ +I   I I  +++I++I +II +I   I L   + F Y K
Sbjct: 89  LGLIGIIISFLIAFIVSLIFGNITISELLLILLIGLIIALIFGAILLPLYYKFGYEK 145

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 54.9 bits (133), Expect = 2e-08
 Identities = 26/61 (42%), Positives = 40/61 (65%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K  II+IIII +II II  I  I+ +I+ +I    +++III+++IIII+ II   I + I
Sbjct: 145 KGRIILIIIIFLIIFIIFAIFKILNLILSLINNSSLLLIIILLVIIIILYIISYFISLKI 204

Query: 135 I 135
            
Sbjct: 205 Y 205

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 54.6 bits (132), Expect = 2e-08
 Identities = 25/65 (38%), Positives = 42/65 (64%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F  ++ + I+IIII +II II  I  I+ +I+ +I    +++III+++IIII+ II   I
Sbjct: 141 FGYEKGRIILIIIIFLIIFIIFAIFKILNLILSLINNSSLLLIIILLVIIIILYIISYFI 200

Query: 129 IIIII 133
            + I 
Sbjct: 201 SLKIY 205

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|149146 pfam07907, YibE_F, YibE/F-like protein

 Score = 55.1 bits (134), Expect = 2e-08
 Identities = 15/100 (15%), Positives = 53/100 (53%), Gaps = 23/100 (23%)

Query: 75  KYIIIIIIIIIIIIIII--------IIIIIIIIIIIIIIIIIII-----IIIIIIIIIII 121
             ++I+ I+ I++++++        ++ +++  +++ +++I II      I++ II+ II
Sbjct: 1   NVLVILAILFILLMLLVGGKKGLRSLLSLVLNFVLLFLVLIPIILAGFNPILVTIILAII 60

Query: 122 IIIIIIIII----------IIIIIIIIIIIIIIIIIIIDL 151
           I  + + ++           +  ++ +++  I+ +++I L
Sbjct: 61  ITAVTLFLVNGFNKKTLAAFLGTLLGVLLAGILALLVIKL 100

The sequences featured in this family are similar to two proteins expressed by Lactococcus lactis, YibE and YibF. Most of the members of this family are annotated as being putative membrane proteins, and in fact the sequences contain a high proportion of hydrophobic residues. Length = 244

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 53.7 bits (130), Expect = 3e-08
 Identities = 25/98 (25%), Positives = 52/98 (53%), Gaps = 21/98 (21%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------------I 114
           +II +I+ ++I ++I +I +   I II+ II +III                       I
Sbjct: 80  FIISLILFVLIPLLIKLISLNNYIAIILFIISLIIIYKYAPADTPKKPITNEELRKKLKI 139

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
             II+++I+++I +I+     I+++I++ I++  I L+
Sbjct: 140 KSIIVLLILLVISLILSENYFILLLIVLGILLQSITLL 177

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein

 Score = 54.3 bits (131), Expect = 4e-08
 Identities = 11/123 (8%), Positives = 56/123 (45%), Gaps = 33/123 (26%)

Query: 67  CEFVR-KRSKYIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIII 119
            E ++ KR+K  +I++I+ +++ ++ +++  +          +++     +  + + ++I
Sbjct: 2   AELLKLKRTKIFLILLILPLLLALLALLLFGVNGDTGLSPGSLLLSSFSFLSALFLPLLI 61

Query: 120 IIIIIIII--------------------------IIIIIIIIIIIIIIIIIIIIIIDLIF 153
            I+  +++                          +++++I+ ++  ++++++ +I  L+ 
Sbjct: 62  AILASLLVSREFKNGTIKLLLSLPISRGKIFLAKLLVLLILSLLASLLLLLLSLIAGLLL 121

Query: 154 DFT 156
             +
Sbjct: 122 GGS 124

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 230

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 137 IIIII 141
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 138 IIIII 142
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 139 IIIII 143
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 140 IIIII 144
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 141 IIIII 145
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 142 IIIII 146
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 143 IIIII 147
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 144 IIIII 148
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 53.0 bits (128), Expect = 4e-08
 Identities = 10/65 (15%), Positives = 35/65 (53%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +   +I ++ +II III+ ++ +++            + +  +++I+++I+ I+I +++ 
Sbjct: 51  LKAFVIGLVYLIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

Query: 145 IIIII 149
             +  
Sbjct: 111 AALAR 115

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein

 Score = 55.0 bits (133), Expect = 4e-08
 Identities = 15/126 (11%), Positives = 54/126 (42%), Gaps = 22/126 (17%)

Query: 50  EKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIII---------I 100
           EK  +I      +            KY++  I+  +++ +I ++II++++         +
Sbjct: 120 EKESRIKERLLVSGV-------SPLKYLLGKILGDLLVGLIQLLIILLLLFGLGIPFGNL 172

Query: 101 IIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFD 154
           ++++++ ++  +  I +  ++          I++I I+I+++      +  +  +     
Sbjct: 173 LLLLLLFLLYGLAYIALGALLGSLFKNSEAAILVISILILLLSGFFGGLFPLPNMPSFLQ 232

Query: 155 FTFMYL 160
           + F  +
Sbjct: 233 WIFSII 238

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 278

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 55.5 bits (133), Expect = 4e-08
 Identities = 9/77 (11%), Positives = 47/77 (61%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
             + I++  ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++
Sbjct: 328 TRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILL 387

Query: 133 IIIIIIIIIIIIIIIII 149
            +I+ +++ +I  ++  
Sbjct: 388 ALIVALLVGVIAGLLPA 404

Length = 419

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 52.0 bits (125), Expect = 5e-08
 Identities = 19/81 (23%), Positives = 41/81 (50%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            ++K S  III+ I+  +++ + +II I+I            +    +   ++I +++I+
Sbjct: 7   KIKKISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLLIL 66

Query: 129 IIIIIIIIIIIIIIIIIIIII 149
           +  II+   I   I+ II+ I
Sbjct: 67  LDDIIVFFYIANFILEIILTI 87

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|223912 COG0842, COG0842, ABC-type multidrug transport system, permease component [Defense mechanisms]

 Score = 54.6 bits (131), Expect = 5e-08
 Identities = 6/88 (6%), Positives = 47/88 (53%)

Query: 66  VCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 125
           +   + K   Y+++  +I  +++++I  ++ +  +  +++++++++++++  + + +++ 
Sbjct: 131 LFILLGKIVPYLVVASLIAGLVLLVIAFLLGVPFLGSLLLLLLLLLLLLLATVALGLLLS 190

Query: 126 IIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
                 +     +  ++I+ +  +  +F
Sbjct: 191 TFAKSQLQCASAVGNLLILPLGFLSGVF 218

Length = 286

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 53.0 bits (128), Expect = 6e-08
 Identities = 26/64 (40%), Positives = 40/64 (62%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
            Y    II+IIII +II II  I  I+ +I+ +I    +++III+++IIII+ II   I 
Sbjct: 142 GYEKGRIILIIIIFLIIFIIFAIFKILNLILSLINNSSLLLIIILLVIIIILYIISYFIS 201

Query: 135 IIII 138
           + I 
Sbjct: 202 LKIY 205

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 52.6 bits (127), Expect = 6e-08
 Identities = 14/109 (12%), Positives = 47/109 (43%), Gaps = 32/109 (29%)

Query: 77  IIIIIIIIIIIIIIIIII--------------------------------IIIIIIIIII 104
           ++I  ++++I I+ ++++                                +   +I ++ 
Sbjct: 1   LLIGGLLLLIPIVGLLLLLGYIVRVLRNTARGNSDPLPEWDDWGDLLVDGLKAFVIGLVY 60

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           +II III+ ++ +++            + +  +++I+++I+ I+I L+ 
Sbjct: 61  LIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLL 109

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 51.5 bits (124), Expect = 6e-08
 Identities = 8/72 (11%), Positives = 40/72 (55%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I  ++++  +++ +I  ++ +++  ++  ++   I   +   + + I  I+I++ +++I+
Sbjct: 43  IFKLLLLEALLLGLIGSLLGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSLLLIL 102

Query: 138 IIIIIIIIIIII 149
           +I ++  ++   
Sbjct: 103 LIALLASLLPAR 114

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|181988 PRK09609, PRK09609, hypothetical protein; Provisional

 Score = 54.7 bits (132), Expect = 6e-08
 Identities = 25/112 (22%), Positives = 48/112 (42%), Gaps = 15/112 (13%)

Query: 53  DKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 112
            KI+ L+   K +         K ++    I  +II++III+ I  ++  +     I   
Sbjct: 145 QKIILLEKKKKKLEK---TNEEKSLLNFSWIAALIILVIIILFIYFVVGFLDPDFFIQSF 201

Query: 113 IIIIIIIIIIIIIII--IIIIIIIII----------IIIIIIIIIIIIIDLI 152
             I     ++I+II   I++II +I           + I  I+I   +++ I
Sbjct: 202 SFIKNKRSLMILIISGFILMIIFVIWARFFIKPKRFLTIAPIVIFSALLEPI 253

Length = 312

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 55.2 bits (133), Expect = 7e-08
 Identities = 22/95 (23%), Positives = 46/95 (48%), Gaps = 7/95 (7%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---- 131
           ++ ++  +I +  I I     +  +     ++ I  ++II+I + +I ++ ++ +     
Sbjct: 96  WLYLLAYVIALAAIAIGAASYLSYLFPGPGLLSIGPLLIILIALALIALLTLLNLRGIKA 155

Query: 132 ---IIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
              I  II I+ III++I II  +F F F     F
Sbjct: 156 SAKINSIITILKIIILLIFIILGLFAFGFSNGNLF 190

Length = 466

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 51.1 bits (123), Expect = 7e-08
 Identities = 10/77 (12%), Positives = 42/77 (54%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K +++  +++ +I  ++ +++  ++  ++   I   +   + + I  I+I++ +++I++I
Sbjct: 45  KLLLLEALLLGLIGSLLGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSLLLILLI 104

Query: 135 IIIIIIIIIIIIIIIDL 151
            ++  ++    I+ I  
Sbjct: 105 ALLASLLPARRILKISP 121

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|225153 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]

 Score = 54.8 bits (132), Expect = 9e-08
 Identities = 9/105 (8%), Positives = 57/105 (54%), Gaps = 15/105 (14%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-- 128
           R++ +Y+++I++ +++++++ +I+++++++I  ++  I  ++ +++ I+ + ++++ +  
Sbjct: 75  REKGEYLLLILLSVLLLLLLALILLLLLLLIAYLLAPIDPVLALLLRILSLALLLLPLSS 134

Query: 129 -------------IIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
                         + + I+  I ++  +  ++   +    +  +
Sbjct: 135 VLRGLFQGFGRFGPLALSIVSSIFLLAAVFALLFAALGLAVWALV 179

Length = 480

>gnl|CDD|218916 pfam06157, DUF973, Protein of unknown function (DUF973)

 Score = 53.9 bits (130), Expect = 9e-08
 Identities = 29/112 (25%), Positives = 57/112 (50%), Gaps = 21/112 (18%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-- 127
           +R  S Y+II  I+  I III+I +   I  +I+  +I+ I ++II ++++II  I +  
Sbjct: 9   LRNGSLYLIIAEILGFIGIIIVISVSSSIASVILNGLIVSIFLLIIGLVLLIIGFIRLRS 68

Query: 128 -------------------IIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
                              I+II+  +IIII  ++ I+ ++ L+     +++
Sbjct: 69  GFNILSSTGRDVGIGITGIILIIVGYVIIIIGALLTIVGLLSLVGGVIILFI 120

This family consists of several hypothetical archaeal proteins of unknown function. Length = 283

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 54.6 bits (131), Expect = 9e-08
 Identities = 13/98 (13%), Positives = 50/98 (51%), Gaps = 3/98 (3%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             R  S Y  I+++  +++ +++ ++ ++ II  +++I++  ++ +++  +I+   ++I+
Sbjct: 297 LFRPLSGYRFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLLANVILAAFLLIL 356

Query: 129 IIIIIIIIII---IIIIIIIIIIIDLIFDFTFMYLKEF 163
           +I  ++ +     + + ++    + LI       L   
Sbjct: 357 LIPPLLALFALLQLGVFLVTTKGLRLIAKLVVYLLVIL 394

Length = 439

>gnl|CDD|219521 pfam07695, 7TMR-DISM_7TM, 7TM diverse intracellular signalling

 Score = 52.6 bits (127), Expect = 9e-08
 Identities = 13/120 (10%), Positives = 53/120 (44%), Gaps = 15/120 (12%)

Query: 55  ILYLQTATKCMVCEFVR---------KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIII 105
            L+L          F R          R   +++ + +++++++++  +    + + +  
Sbjct: 70  YLFLALLVIFFALLFARSFLELKKYLPRLDRLLLGLALLLLLLLLLAPLFPYTLSLRLAQ 129

Query: 106 IIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
           ++ ++ I+ ++++ II            ++  +I++I  +I I+ ++ ++   F   ++ 
Sbjct: 130 LLALLFILFLLVLGIIAWRKGYKPARYFLLAWLILLIGALIDILSLLGLLPSNFFTLYLL 189

This entry represents the transmembrane region of the 7TM-DISM (7TM Receptors with Diverse Intracellular Signalling Modules). Length = 207

>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein

 Score = 52.3 bits (126), Expect = 1e-07
 Identities = 23/108 (21%), Positives = 47/108 (43%), Gaps = 31/108 (28%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------- 128
             +I   + I++II ++++I+I I +     I  II++I+I+I+++              
Sbjct: 7   FYLIKKYLKILLIIFLLLLIVIFIFLNEDGSIFFIILLILILIMLVLTTFSYDEKSKWNK 66

Query: 129 -----------------IIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
                            +  +I+ +I III  +I  I+ LIF    + 
Sbjct: 67  YLLTLPVSRKEIVLSKYLFSLILGLIGIIISFLIAFIVSLIFGNITIS 114

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 206

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 54.4 bits (131), Expect = 1e-07
 Identities = 19/86 (22%), Positives = 36/86 (41%), Gaps = 3/86 (3%)

Query: 74  SKYIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
              +II+I + +I ++ ++ +        I  II I+ III++I II+ +         +
Sbjct: 130 GPLLIILIALALIALLTLLNLRGIKASAKINSIITILKIIILLIFIILGLFAFGFSNGNL 189

Query: 131 IIIIIIIIIIIIIIIIIIIDLIFDFT 156
                        I+  I+   F FT
Sbjct: 190 FAPFNPGGGSFGGILAAILLAFFAFT 215

Length = 466

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 50.7 bits (122), Expect = 1e-07
 Identities = 9/80 (11%), Positives = 44/80 (55%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
             K+  + ++++  +++ +I  ++ +++  ++  ++   I   +   + + I  I+I++ 
Sbjct: 38  ASKKQIFKLLLLEALLLGLIGSLLGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLS 97

Query: 130 IIIIIIIIIIIIIIIIIIII 149
           +++I++I ++  ++    I+
Sbjct: 98  LLLILLIALLASLLPARRIL 117

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 54.0 bits (129), Expect = 1e-07
 Identities = 9/78 (11%), Positives = 46/78 (58%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
            +R   +  ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++
Sbjct: 328 TRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILL 387

Query: 131 IIIIIIIIIIIIIIIIII 148
            +I+ +++ +I  ++   
Sbjct: 388 ALIVALLVGVIAGLLPAR 405

Length = 419

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 52.2 bits (126), Expect = 1e-07
 Identities = 19/81 (23%), Positives = 46/81 (56%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
            III+I  II+I++++ + II +++++  +I+++  I      II  +   I +  + ++
Sbjct: 93  FIIILIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFIIFNVFFSIGLFGLGLL 152

Query: 141 IIIIIIIIIDLIFDFTFMYLK 161
           + I++  +  L++     YLK
Sbjct: 153 LAIVMYYLTKLLYRLLVKYLK 173

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 52.8 bits (127), Expect = 1e-07
 Identities = 10/85 (11%), Positives = 51/85 (60%), Gaps = 4/85 (4%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           R+K +++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I  
Sbjct: 19  RTKLLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAF 78

Query: 133 III----IIIIIIIIIIIIIIDLIF 153
                    + +  +  + I  L+ 
Sbjct: 79  TNGFSLGPAVGLFGLGPVTIGSLVL 103

Length = 252

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 53.6 bits (128), Expect = 2e-07
 Identities = 10/83 (12%), Positives = 47/83 (56%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           I++  ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++ +I+
Sbjct: 332 ILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIV 391

Query: 140 IIIIIIIIIIDLIFDFTFMYLKE 162
            +++ +I  +        +   E
Sbjct: 392 ALLVGVIAGLLPARKAAKLDPIE 414

Length = 419

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 53.6 bits (128), Expect = 2e-07
 Identities = 9/81 (11%), Positives = 45/81 (55%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             R+      ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I+
Sbjct: 327 ATRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLIL 386

Query: 129 IIIIIIIIIIIIIIIIIIIII 149
           + +I+ +++ +I  ++     
Sbjct: 387 LALIVALLVGVIAGLLPARKA 407

Length = 419

>gnl|CDD|225153 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]

 Score = 53.6 bits (129), Expect = 2e-07
 Identities = 12/99 (12%), Positives = 54/99 (54%), Gaps = 9/99 (9%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
             R K   +++I++ +++++++ +I+++++++I  ++  I  ++ +++ I+ + ++++ +
Sbjct: 73  EYREKGEYLLLILLSVLLLLLLALILLLLLLLIAYLLAPIDPVLALLLRILSLALLLLPL 132

Query: 131 IIII---------IIIIIIIIIIIIIIIDLIFDFTFMYL 160
             ++            + + I+  I ++  +F   F  L
Sbjct: 133 SSVLRGLFQGFGRFGPLALSIVSSIFLLAAVFALLFAAL 171

Length = 480

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 53.4 bits (128), Expect = 2e-07
 Identities = 10/95 (10%), Positives = 50/95 (52%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           R       +++ +++ ++ ++ II  +++I++  ++ +++  +I+   ++I++I  ++ +
Sbjct: 305 RFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLLANVILAAFLLILLIPPLLAL 364

Query: 131 IIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
             ++ + + ++    + +I  +  +  + L  F  
Sbjct: 365 FALLQLGVFLVTTKGLRLIAKLVVYLLVILIIFLP 399

Length = 439

>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins

 Score = 53.7 bits (130), Expect = 2e-07
 Identities = 12/104 (11%), Positives = 48/104 (46%), Gaps = 11/104 (10%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
            + +++ + II   +++ +I+ I+ ++++ +   +I      +++++ I+ + +    + 
Sbjct: 66  RYRKEKIREIISTSLVLKLILGILALLLLFLFAFLIAFYDPELVLLLYILALSLPFSALN 125

Query: 128 IIII-----------IIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
            +             I+I  II  ++ +I+ +I ++     +  
Sbjct: 126 SLFRGIFQGFEKMKYIVIARIIESVLSLILALILVLLGGGLIGF 169

Escherichia coli Wzx and related proteins from other gram-negative bacteria are thought to act as flippases, assisting in the membrane translocation of lipopolysaccharides including those containing O-antigens. Proteins from the MATE family are involved in exporting metabolites across the cell membrane and are often responsible for multidrug resistance (MDR). Length = 402

>gnl|CDD|223701 COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]

 Score = 53.0 bits (128), Expect = 2e-07
 Identities = 9/96 (9%), Positives = 60/96 (62%), Gaps = 9/96 (9%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------- 122
           +R   + +++ + I+++++++++++ I+     I++ +++ +++  ++  ++        
Sbjct: 3   MRWLPRTLLLGLRILLLLLLLLLLLAILYFFQPILLPLLLALVLAYLLNPLVRRLEKRGI 62

Query: 123 --IIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
             ++ +++++++I+++I+++ +++I  +I+ I +  
Sbjct: 63  PRLLAVLLVLLLILLLIVLLGLLVIPSLIEQIQNLI 98

Length = 355

>gnl|CDD|222381 pfam13789, DUF4181, Domain of unknown function (DUF4181)

 Score = 48.8 bits (117), Expect = 3e-07
 Identities = 21/83 (25%), Positives = 39/83 (46%), Gaps = 11/83 (13%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------- 121
           V K  K   II++II +II+II I I I   + +  +I + +I++      +        
Sbjct: 26  VNKLHKKGEIILLIIFLIILIIFIYIFITEYLYMYYLIFLFLILLFAFRAFMEWKYDRES 85

Query: 122 ---IIIIIIIIIIIIIIIIIIII 141
              I+ +  + I ++I  I+I  
Sbjct: 86  KEYILSLAGLAIFLLITGIMIYF 108

Length = 109

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 50.2 bits (121), Expect = 3e-07
 Identities = 8/73 (10%), Positives = 33/73 (45%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
              ++I+ ++++++++   I    +               +  +     ++I + +II +
Sbjct: 79  SLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFMIIYL 138

Query: 135 IIIIIIIIIIIII 147
           ++ +I+++ I  I
Sbjct: 139 LLTLIVVVKITNI 151

Length = 160

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 52.4 bits (125), Expect = 4e-07
 Identities = 9/76 (11%), Positives = 45/76 (59%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++ +I+ +++ +I  
Sbjct: 341 LILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALLVGVIAG 400

Query: 137 IIIIIIIIIIIIIDLI 152
           ++       +  I+ +
Sbjct: 401 LLPARKAAKLDPIEAL 416

Length = 419

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 49.3 bits (118), Expect = 4e-07
 Identities = 19/82 (23%), Positives = 39/82 (47%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           K+ K I   III+ I+  +++ + +II I+I            +    +   ++I +++I
Sbjct: 6   KKIKKISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLLI 65

Query: 132 IIIIIIIIIIIIIIIIIIDLIF 153
           ++  II+   I   I+ I L  
Sbjct: 66  LLDDIIVFFYIANFILEIILTI 87

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|223912 COG0842, COG0842, ABC-type multidrug transport system, permease component [Defense mechanisms]

 Score = 51.9 bits (124), Expect = 4e-07
 Identities = 7/104 (6%), Positives = 50/104 (48%)

Query: 55  ILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 114
           +  L +          R+R    +  +++  +  + I++  I+  +++  +I  +++++I
Sbjct: 97  MSVLFSGIFSFSSALFREREFGTLERLLVSPVSRLFILLGKIVPYLVVASLIAGLVLLVI 156

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
             ++ +  +  +++++++++++++  + + +++           
Sbjct: 157 AFLLGVPFLGSLLLLLLLLLLLLLATVALGLLLSTFAKSQLQCA 200

Length = 286

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 50.2 bits (121), Expect = 4e-07
 Identities = 9/73 (12%), Positives = 34/73 (46%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           S  ++I+ ++++++++   I    +               +  +     ++I + +II +
Sbjct: 79  SLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFMIIYL 138

Query: 134 IIIIIIIIIIIII 146
           ++ +I+++ I  I
Sbjct: 139 LLTLIVVVKITNI 151

Length = 160

>gnl|CDD|215864 pfam00335, Tetraspannin, Tetraspanin family

 Score = 51.3 bits (123), Expect = 4e-07
 Identities = 16/95 (16%), Positives = 48/95 (50%), Gaps = 19/95 (20%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII- 132
            KY++ ++ ++ +++ + ++ + I +++I    + I +   I  + I+II++ +II+++ 
Sbjct: 2   LKYLLFLLNLLFLLLGLALLAVGIWLLVIAKDYLAIALNDSIRALYILIIVLGVIILLVG 61

Query: 133 ------------------IIIIIIIIIIIIIIIII 149
                              I+++I+ I+ I   I+
Sbjct: 62  FLGCCGAIKESRCLLLTYFILLLILFILEIAAGIL 96

Length = 221

>gnl|CDD|216594 pfam01594, UPF0118, Domain of unknown function DUF20

 Score = 52.2 bits (126), Expect = 4e-07
 Identities = 10/83 (12%), Positives = 51/83 (61%), Gaps = 7/83 (8%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------IIIIIIIIIII 129
           +++I+I +++++     I  +++ ++I +++  ++  ++  +        + I++++++ 
Sbjct: 1   LLLILIFLLLLLAFYWFIPDLLVPLLIALVLAYLLNPVVRFLKRRGIPRSLAILLVLLLF 60

Query: 130 IIIIIIIIIIIIIIIIIIIIDLI 152
           ++ ++++ +++I ++II +  LI
Sbjct: 61  LVALVLLGLLLIPLLIIQLTQLI 83

This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. It is not clear what source suggested that these proteins may be permeases and this information should be treated with caution. Length = 327

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 50.3 bits (121), Expect = 5e-07
 Identities = 24/101 (23%), Positives = 50/101 (49%), Gaps = 22/101 (21%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------------- 116
              +   II +I+ ++I ++I +I +   I II+ II +III                  
Sbjct: 74  KSSLRCFIISLILFVLIPLLIKLISLNNYIAIILFIISLIIIYKYAPADTPKKPITNEEL 133

Query: 117 -----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
                I  II+++I+++I +I+     I+++I++ I++  I
Sbjct: 134 RKKLKIKSIIVLLILLVISLILSENYFILLLIVLGILLQSI 174

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 52.4 bits (125), Expect = 5e-07
 Identities = 9/78 (11%), Positives = 44/78 (56%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
               ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++ +I+ 
Sbjct: 333 LLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVA 392

Query: 134 IIIIIIIIIIIIIIIIDL 151
           +++ +I  ++       L
Sbjct: 393 LLVGVIAGLLPARKAAKL 410

Length = 419

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 50.9 bits (122), Expect = 6e-07
 Identities = 18/78 (23%), Positives = 42/78 (53%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 145 IIIIIDLIFDFTFMYLKE 162
             III   +      L +
Sbjct: 166 PGIIIGYAYSQVEYILYD 183

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|148697 pfam07242, DUF1430, Protein of unknown function (DUF1430)

 Score = 48.0 bits (115), Expect = 6e-07
 Identities = 18/95 (18%), Positives = 49/95 (51%), Gaps = 19/95 (20%)

Query: 83  IIIIIIIIIIIIIIIII-------IIIIIII------------IIIIIIIIIIIIIIIII 123
           II++II +++   ++++        I+I  I            +II +I+ +  +I+  I
Sbjct: 1   IILLIISLLLFYQMVLLYFEQNKKKILIKRIHGYSFFKRHKTYLIIQLIVWVFGLILAFI 60

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           +    II++ ++++++I +++I++I        F+
Sbjct: 61  LTKSNIILLFVLVLLLIELLLILLIQMKKEKKKFI 95

This family represents the C-terminus (approximately 120 residues) of a number of hypothetical bacterial proteins of unknown function. These are possibly membrane proteins involved in immunity. Length = 100

>gnl|CDD|218678 pfam05656, DUF805, Protein of unknown function (DUF805)

 Score = 48.0 bits (115), Expect = 7e-07
 Identities = 10/81 (12%), Positives = 41/81 (50%), Gaps = 11/81 (13%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----------I 133
           ++  I+I ++++I+  ++     ++    +++ +I + I I  + + +            
Sbjct: 18  VLFNILITLVLLILAALLSGSSSLLSGGGLLLGLISLAIFIPSLAVTVRRLHDTGRSGWW 77

Query: 134 IIIIIIIIIIIIIIIIDLIFD 154
           +++++I +I  I++++ L+  
Sbjct: 78  LLLLLIPLIGFIVLLVLLLLP 98

This family consists of several bacterial proteins of unknown function. Length = 112

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 49.4 bits (119), Expect = 7e-07
 Identities = 16/114 (14%), Positives = 56/114 (49%), Gaps = 25/114 (21%)

Query: 75  KYIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIII-------IIIIIII--- 119
           K +++++++I+ II +     + + +I+II  I+I +++ +++       I+ +I +   
Sbjct: 1   KMMLMMLLLILSIIFLFLNHPLSMGLILIIQTILISLLLGLMMKSFWFSYILFLIFLGGM 60

Query: 120 -IIIIIIIIII---------IIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
            ++ I I  +           ++I+ ++++++++   I    + +F   +    
Sbjct: 61  LVLFIYITSLASNEKFKFSLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFE 114

Length = 160

>gnl|CDD|177217 MTH00161, ND3, NADH dehydrogenase subunit 3; Provisional

 Score = 47.8 bits (115), Expect = 8e-07
 Identities = 22/112 (19%), Positives = 52/112 (46%), Gaps = 27/112 (24%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------------------IIII 109
           +I+II++II++I II++I+  ++    I+                           +I I
Sbjct: 1   MILIILLIILLISIILMILASLLSKKSIMDREKSSPFECGFDPKSSARLPFSLRFFLIAI 60

Query: 110 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
           I +I  + I +++ +I I     ++  +I     I+I+++ L +++    L+
Sbjct: 61  IFLIFDVEIALLLPMIFIFKTSNMMSWLITSSFFILILLLGLYYEWNQGALE 112

Length = 113

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 49.2 bits (118), Expect = 9e-07
 Identities = 11/110 (10%), Positives = 45/110 (40%), Gaps = 31/110 (28%)

Query: 80  IIIIIIIIIIIIIIIIIII-------------------------------IIIIIIIIII 108
           ++I  ++++I I+ +++++                               +   +I ++ 
Sbjct: 1   LLIGGLLLLIPIVGLLLLLGYIVRVLRNTARGNSDPLPEWDDWGDLLVDGLKAFVIGLVY 60

Query: 109 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           +II III+ ++ +++            + +  +++I+++I+ ++      
Sbjct: 61  LIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALLLP 110

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 49.0 bits (118), Expect = 9e-07
 Identities = 8/75 (10%), Positives = 34/75 (45%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
              + ++I+ ++++++++   I    +               +  +     ++I + +II
Sbjct: 77  KFSLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFMII 136

Query: 134 IIIIIIIIIIIIIII 148
            +++ +I+++ I  I
Sbjct: 137 YLLLTLIVVVKITNI 151

Length = 160

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 49.1 bits (118), Expect = 1e-06
 Identities = 21/99 (21%), Positives = 49/99 (49%), Gaps = 24/99 (24%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------------------IIIII 111
           +++I ++I +I +   I II+ II +III                          II+++
Sbjct: 87  FVLIPLLIKLISLNNYIAIILFIISLIIIYKYAPADTPKKPITNEELRKKLKIKSIIVLL 146

Query: 112 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIID 150
           I+++I +I+     I+++I++ I++  I ++ I   ++ 
Sbjct: 147 ILLVISLILSENYFILLLIVLGILLQSITLLPIGYKLLK 185

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 51.3 bits (122), Expect = 1e-06
 Identities = 10/79 (12%), Positives = 46/79 (58%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           + K        I++  ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++
Sbjct: 321 ILKALGATRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILL 380

Query: 130 IIIIIIIIIIIIIIIIIII 148
             ++I++ +I+ +++ +I 
Sbjct: 381 SPLLILLALIVALLVGVIA 399

Length = 419

>gnl|CDD|225153 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]

 Score = 51.3 bits (123), Expect = 1e-06
 Identities = 13/100 (13%), Positives = 47/100 (47%), Gaps = 8/100 (8%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIII--------IIIIIIIIIIIIIIIIIIIII 120
           F  K +    I+ ++ +  + + ++ +   +        ++++I +I  ++ +I+ +++I
Sbjct: 323 FGEKYASAAPILQLLALAGLFLSLVSLTSSLLQALGKQRLLLLISLISALLNLILNLLLI 382

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
               +I   I    +I + +++  I+ +  +   F++  L
Sbjct: 383 PRFGLIGAAIATASVIALALLLFYILRLRLVRTKFSYFLL 422

Length = 480

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 50.1 bits (120), Expect = 1e-06
 Identities = 8/77 (10%), Positives = 45/77 (58%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           ++++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I     
Sbjct: 22  LLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNG 81

Query: 149 IDLIFDFTFMYLKEFRV 165
             L        L    +
Sbjct: 82  FSLGPAVGLFGLGPVTI 98

Length = 252

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 50.1 bits (120), Expect = 1e-06
 Identities = 7/72 (9%), Positives = 45/72 (62%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           ++++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I     
Sbjct: 22  LLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNG 81

Query: 144 IIIIIIDLIFDF 155
             +     +F  
Sbjct: 82  FSLGPAVGLFGL 93

Length = 252

>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins

 Score = 51.0 bits (123), Expect = 1e-06
 Identities = 16/104 (15%), Positives = 50/104 (48%), Gaps = 15/104 (14%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIII 125
           K  + I   +++ +I+ I+ ++++ +   +I      +++++ I+ + +    +  +   
Sbjct: 71  KIREIISTSLVLKLILGILALLLLFLFAFLIAFYDPELVLLLYILALSLPFSALNSLFRG 130

Query: 126 I---------IIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           I         I+I  II  ++ +I+ +I++++   +  F   YL
Sbjct: 131 IFQGFEKMKYIVIARIIESVLSLILALILVLLGGGLIGFALAYL 174

Escherichia coli Wzx and related proteins from other gram-negative bacteria are thought to act as flippases, assisting in the membrane translocation of lipopolysaccharides including those containing O-antigens. Proteins from the MATE family are involved in exporting metabolites across the cell membrane and are often responsible for multidrug resistance (MDR). Length = 402

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 48.6 bits (117), Expect = 1e-06
 Identities = 9/75 (12%), Positives = 36/75 (48%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K+ + ++I+ ++++++++   I    +               +  +     ++I + +II
Sbjct: 77  KFSLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFMII 136

Query: 135 IIIIIIIIIIIIIII 149
            +++ +I+++ I  I
Sbjct: 137 YLLLTLIVVVKITNI 151

Length = 160

>gnl|CDD|216594 pfam01594, UPF0118, Domain of unknown function DUF20

 Score = 50.7 bits (122), Expect = 1e-06
 Identities = 9/84 (10%), Positives = 50/84 (59%), Gaps = 8/84 (9%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------IIIIIIIIIIII 128
           +I+I +++++     I  +++ ++I +++  ++  ++  +        + I++++++ ++
Sbjct: 3   LILIFLLLLLAFYWFIPDLLVPLLIALVLAYLLNPVVRFLKRRGIPRSLAILLVLLLFLV 62

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLI 152
            ++++ +++I ++II +  +I  +
Sbjct: 63  ALVLLGLLLIPLLIIQLTQLIKSL 86

This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. It is not clear what source suggested that these proteins may be permeases and this information should be treated with caution. Length = 327

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 50.9 bits (122), Expect = 2e-06
 Identities = 17/80 (21%), Positives = 35/80 (43%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           ++ I  ++II+I + +I ++ ++ +  I     I  II I+ III++I II+ +      
Sbjct: 126 LLSIGPLLIILIALALIALLTLLNLRGIKASAKINSIITILKIIILLIFIILGLFAFGFS 185

Query: 139 IIIIIIIIIIIDLIFDFTFM 158
              +          F     
Sbjct: 186 NGNLFAPFNPGGGSFGGILA 205

Length = 466

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 48.3 bits (116), Expect = 2e-06
 Identities = 22/94 (23%), Positives = 49/94 (52%), Gaps = 15/94 (15%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------IIIII 119
           KY + +I+  +  +I+I+II +++ +    +II++   ++                II +
Sbjct: 25  KYGLEVILGNLFKLILILIIALLLGVFPETLIILLSFSLLRRFAGGYHAKSSLRCFIISL 84

Query: 120 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           I+ ++I ++I +I +   I II+ II +II   +
Sbjct: 85  ILFVLIPLLIKLISLNNYIAIILFIISLIIIYKY 118

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 50.1 bits (119), Expect = 2e-06
 Identities = 9/74 (12%), Positives = 42/74 (56%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  ++I++ +I+ +++ +I  
Sbjct: 341 LILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALLVGVIAG 400

Query: 136 IIIIIIIIIIIIII 149
           ++       +  I 
Sbjct: 401 LLPARKAAKLDPIE 414

Length = 419

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 6/77 (7%), Positives = 47/77 (61%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           ++++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I     
Sbjct: 22  LLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNG 81

Query: 138 IIIIIIIIIIIIDLIFD 154
             +   + +  +  +  
Sbjct: 82  FSLGPAVGLFGLGPVTI 98

Length = 252

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 47.9 bits (115), Expect = 2e-06
 Identities = 8/75 (10%), Positives = 35/75 (46%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K+   + ++I+ ++++++++   I    +               +  +     ++I + +
Sbjct: 75  KFKFSLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFM 134

Query: 135 IIIIIIIIIIIIIII 149
           II +++ +I+++ I 
Sbjct: 135 IIYLLLTLIVVVKIT 149

Length = 160

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 47.9 bits (115), Expect = 2e-06
 Identities = 7/75 (9%), Positives = 34/75 (45%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
             + ++I+ ++++++++   I    +               +  +     ++I + +II 
Sbjct: 78  FSLKLLILFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLITLFMIIY 137

Query: 141 IIIIIIIIIDLIFDF 155
           +++ +I+++ +   F
Sbjct: 138 LLLTLIVVVKITNIF 152

Length = 160

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 45.6 bits (109), Expect = 2e-06
 Identities = 12/41 (29%), Positives = 29/41 (70%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 114
            K  II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 31  GKLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 10/85 (11%), Positives = 52/85 (61%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F+ K    +++ ++  +++I++  ++++++I++I  ++I  ++ +++  ++++  +I  +
Sbjct: 18  FLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRL 77

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIF 153
                + + +  ++ I+I+++ L+ 
Sbjct: 78  ARETTLSVFLSNLLRILILVVALLI 102

Length = 316

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 8/78 (10%), Positives = 49/78 (62%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
               +++I++  ++++++I++I  ++I  ++ +++  ++++  +I  +     + + +  
Sbjct: 30  VLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETTLSVFLSN 89

Query: 135 IIIIIIIIIIIIIIIDLI 152
           ++ I+I+++ ++I++ ++
Sbjct: 90  LLRILILVVALLIVLSVL 107

Length = 316

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 49.9 bits (119), Expect = 2e-06
 Identities = 8/84 (9%), Positives = 51/84 (60%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            +   +  ++I++  ++++++I++I  ++I  ++ +++  ++++  +I  +     + + 
Sbjct: 27  LLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETTLSVF 86

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLI 152
           +  ++ I+I+++ ++I++ ++ + 
Sbjct: 87  LSNLLRILILVVALLIVLSVLGVQ 110

Length = 316

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 50.3 bits (121), Expect = 2e-06
 Identities = 21/98 (21%), Positives = 45/98 (45%), Gaps = 8/98 (8%)

Query: 43  SQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIII 102
            + +GD  ++D I      T  +  E      K ++  ++ I ++++ I ++I III I 
Sbjct: 92  PEFKGDEIEIDPI------TGEL--EPYYPPWKRLLRQLLSIPVVLLFIGLVIGIIIGIF 143

Query: 103 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           I+ I +  +         +   +  I+  +II+I+  I
Sbjct: 144 ILRIFLSEVYSGPSFKQSLESFLPAILNSVIILILNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|227725 COG5438, COG5438, Predicted multitransmembrane protein [Function unknown]

 Score = 50.1 bits (120), Expect = 2e-06
 Identities = 32/138 (23%), Positives = 61/138 (44%), Gaps = 15/138 (10%)

Query: 26  SNADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIII 85
           +   L   SI   K +  + +G+L K++  +    A         R     +I I     
Sbjct: 64  NRQVLQKQSIKV-KILNGEYKGELVKINNTVNESQAHN----INTRVGDVVLIEISGNTP 118

Query: 86  IIIII-----IIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIIIIIIIII 135
              I        + I++I+ I+++II+     +  +I +++ +  IIII+I +II     
Sbjct: 119 SYYIYDLKRDNALFILLILFIVLMIIVGGKRGLKSLIGLVVNLFAIIIILIPLIINGFNP 178

Query: 136 IIIIIIIIIIIIIIDLIF 153
           I++ II+ +II  I L  
Sbjct: 179 ILVFIILCVIITAITLFM 196

Length = 385

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 46.5 bits (111), Expect = 2e-06
 Identities = 19/60 (31%), Positives = 36/60 (60%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           KY +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 44  KYGLIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|223664 COG0591, PutP, Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 22/109 (20%), Positives = 51/109 (46%), Gaps = 13/109 (11%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           +F+  R    I+ I+  +III+  I  I + ++   +++ ++  I  +  I+I  +I+ +
Sbjct: 109 DFLEARFGSKILRILSALIIIVFFIPYIALQLVAGGLLLSLLFGISYVTGILIGALIVAL 168

Query: 128 IIIII-------------IIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
              +              +I++I +I+I I+++I+   F   F  L   
Sbjct: 169 YTFLGGLRAVVWTDFIQGLIMLIALIVIPILVLILFGGFGELFAVLASL 217

Length = 493

>gnl|CDD|221975 pfam13197, DUF4013, Protein of unknown function (DUF4013)

 Score = 47.6 bits (114), Expect = 3e-06
 Identities = 13/108 (12%), Positives = 42/108 (38%), Gaps = 31/108 (28%)

Query: 84  IIIIIIIIIIIIIIIIIII-------------------------------IIIIIIIIII 112
           ++I  ++++I I+ +++++                               +   +I ++ 
Sbjct: 1   LLIGGLLLLIPIVGLLLLLGYIVRVLRNTARGNSDPLPEWDDWGDLLVDGLKAFVIGLVY 60

Query: 113 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           +II III+ ++ +++            + +  +++I+ LI       L
Sbjct: 61  LIIPIIILALLALLVGFAASASPGAAGLGVFGLLLILLLILAILIALL 108

This is a family of uncharacterized proteins that is found in archaea and bacteria. Length = 167

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 46.6 bits (111), Expect = 3e-06
 Identities = 18/80 (22%), Positives = 39/80 (48%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           ++K  K    III+ I+  +++ + +II I+I            +    +   ++I +++
Sbjct: 5   IKKIKKISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLL 64

Query: 130 IIIIIIIIIIIIIIIIIIII 149
           I++  II+   I   I+ II
Sbjct: 65  ILLDDIIVFFYIANFILEII 84

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 48.9 bits (117), Expect = 3e-06
 Identities = 7/83 (8%), Positives = 46/83 (55%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +++++II+++ ++++++  I +  +++++  +++ +++I       +   + +  +  + 
Sbjct: 38  LVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNGFSLGPAVGLFGLGPVT 97

Query: 138 IIIIIIIIIIIIDLIFDFTFMYL 160
           I  +++ ++I + ++       L
Sbjct: 98  IGSLVLGLLIALRVLLILLAALL 120

Length = 252

>gnl|CDD|216594 pfam01594, UPF0118, Domain of unknown function DUF20

 Score = 49.5 bits (119), Expect = 3e-06
 Identities = 11/108 (10%), Positives = 55/108 (50%), Gaps = 18/108 (16%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIII 123
           +++I+I +++++     I  +++ ++I +++  ++               + I++++++ 
Sbjct: 1   LLLILIFLLLLLAFYWFIPDLLVPLLIALVLAYLLNPVVRFLKRRGIPRSLAILLVLLLF 60

Query: 124 IIIIIIIIIIIIIIIIIIIIIIII----IIDLIFDFTFMYLKEFRVEQ 167
           ++ ++++ +++I ++II +  +I      ID + ++     +     +
Sbjct: 61  LVALVLLGLLLIPLLIIQLTQLIKSLPQYIDSLLNWLNELPELLPFLE 108

This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. It is not clear what source suggested that these proteins may be permeases and this information should be treated with caution. Length = 327

>gnl|CDD|148697 pfam07242, DUF1430, Protein of unknown function (DUF1430)

 Score = 45.7 bits (109), Expect = 3e-06
 Identities = 13/63 (20%), Positives = 38/63 (60%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F ++   Y+II +I+ +  +I+  I+    II++ ++++++I +++I++I +       I
Sbjct: 36  FFKRHKTYLIIQLIVWVFGLILAFILTKSNIILLFVLVLLLIELLLILLIQMKKEKKKFI 95

Query: 129 III 131
            ++
Sbjct: 96  SVL 98

This family represents the C-terminus (approximately 120 residues) of a number of hypothetical bacterial proteins of unknown function. These are possibly membrane proteins involved in immunity. Length = 100

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 8/79 (10%), Positives = 48/79 (60%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
               I++  ++++++I++I  ++I  ++ +++  ++++  +I  +     + + +  ++ 
Sbjct: 33  GLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETTLSVFLSNLLR 92

Query: 133 IIIIIIIIIIIIIIIIIDL 151
           I+I+++ ++I++ ++ + +
Sbjct: 93  ILILVVALLIVLSVLGVQV 111

Length = 316

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 49.9 bits (120), Expect = 3e-06
 Identities = 14/66 (21%), Positives = 36/66 (54%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 149 IDLIFD 154
           ++ I++
Sbjct: 178 LNFIYE 183

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 46.1 bits (110), Expect = 3e-06
 Identities = 21/70 (30%), Positives = 40/70 (57%), Gaps = 4/70 (5%)

Query: 71  RKRSKYIII----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
           +K+ K II     +I I+  ++ +I +II I+    + I  I+  +  I  II+  I+++
Sbjct: 34  KKKFKKIIFKKYGLIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLL 93

Query: 127 IIIIIIIIII 136
           +II I+I +I
Sbjct: 94  VIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 49.8 bits (119), Expect = 4e-06
 Identities = 20/109 (18%), Positives = 41/109 (37%), Gaps = 26/109 (23%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-- 129
           K S  I  II I+ III++I II+ +         +             I+  I++    
Sbjct: 154 KASAKINSIITILKIIILLIFIILGLFAFGFSNGNLFAPFNPGGGSFGGILAAILLAFFA 213

Query: 130 ------------------------IIIIIIIIIIIIIIIIIIIIDLIFD 154
                                   II+ ++I++I+ I+  ++I+ ++  
Sbjct: 214 FTGFEAIATLAEEVKNPKRTIPRAIILSLLIVLILYILGALVIVGVLPA 262

Length = 466

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 49.8 bits (119), Expect = 4e-06
 Identities = 13/111 (11%), Positives = 48/111 (43%), Gaps = 15/111 (13%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------I 121
           II +I++++  +  I    ++ +  +  +I  +++ + ++++                 +
Sbjct: 345 IISLILLLLFPLSSIAFNALVSLASVAFLIAYLLVALALLVLRRKKPDLKRPFRLPLAPL 404

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFL 172
           I I+ I+ +++++  +    +  +++ + LI     +YL  +      L  
Sbjct: 405 IPILGIVAVLLLLYALYASGLPPLLLGVILIAGGIIIYLLVYLGLGRLLSA 455

Length = 466

>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein

 Score = 48.9 bits (117), Expect = 4e-06
 Identities = 13/110 (11%), Positives = 52/110 (47%), Gaps = 27/110 (24%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIII------------------IIIIIIIIIIII 113
             S Y   ++ +++ ++I+I  +II + I+                  +  ++  I+  +
Sbjct: 89  PNSGYAYYLLGLLLFLLILIGALIIALSIVEEKESRIKERLLVSGVSPLKYLLGKILGDL 148

Query: 114 IIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIIIIDLIFD 154
           ++ +I ++II++++         +++++++ ++  +  I +  ++  +F 
Sbjct: 149 LVGLIQLLIILLLLFGLGIPFGNLLLLLLLFLLYGLAYIALGALLGSLFK 198

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 278

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 49.3 bits (117), Expect = 4e-06
 Identities = 9/75 (12%), Positives = 45/75 (60%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K +      I++  ++  +I+ +I  ++ I++ + + +++ +++I  +  ++ + I++  
Sbjct: 323 KALGATRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSP 382

Query: 135 IIIIIIIIIIIIIII 149
           ++I++ +I+ +++ +
Sbjct: 383 LLILLALIVALLVGV 397

Length = 419

>gnl|CDD|148697 pfam07242, DUF1430, Protein of unknown function (DUF1430)

 Score = 45.3 bits (108), Expect = 4e-06
 Identities = 18/98 (18%), Positives = 47/98 (47%), Gaps = 25/98 (25%)

Query: 77  IIIIIIIIIIII-------------IIIIII------------IIIIIIIIIIIIIIIII 111
           II++II +++               I+I  I            +II +I+ +  +I+  I
Sbjct: 1   IILLIISLLLFYQMVLLYFEQNKKKILIKRIHGYSFFKRHKTYLIIQLIVWVFGLILAFI 60

Query: 112 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +    II++ ++++++I +++I++I +       I ++
Sbjct: 61  LTKSNIILLFVLVLLLIELLLILLIQMKKEKKKFISVL 98

This family represents the C-terminus (approximately 120 residues) of a number of hypothetical bacterial proteins of unknown function. These are possibly membrane proteins involved in immunity. Length = 100

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 49.1 bits (117), Expect = 4e-06
 Identities = 10/87 (11%), Positives = 50/87 (57%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
                 +++I++  ++++++I++I  ++I  ++ +++  ++++  +I  +     + + +
Sbjct: 28  LYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETTLSVFL 87

Query: 132 IIIIIIIIIIIIIIIIIIDLIFDFTFM 158
             ++ I+I+++ ++I++  L    T +
Sbjct: 88  SNLLRILILVVALLIVLSVLGVQVTSL 114

Length = 316

>gnl|CDD|222582 pfam14184, YrvL, Regulatory protein YrvL

 Score = 46.5 bits (111), Expect = 4e-06
 Identities = 16/96 (16%), Positives = 47/96 (48%), Gaps = 9/96 (9%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIII 124
            K   II III + +II+  II  + + I  ++         +++  +I +I+ + + + 
Sbjct: 1   LKEKFIIFIIIALALIIVFAIIFFVGVGIFSLLGFEYESIGALLLFFLIFLILGLPLELF 60

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
             +++  ++ + I   +  ++  I+++I  +  ++ 
Sbjct: 61  EKVLLKPLLKLRISKWLYKLLAFILEIILTWLAIHT 96

YrvL prevents expression and activity of the YrvI sigma factor. It may function as an anti-sigma factor. Length = 134

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 48.4 bits (116), Expect = 4e-06
 Identities = 17/94 (18%), Positives = 43/94 (45%), Gaps = 16/94 (17%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------- 127
           Y + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++        
Sbjct: 51  YFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAIQRFLIY 110

Query: 128 --------IIIIIIIIIIIIIIIIIIIIIIDLIF 153
                   ++I    +   I  + ++ ++ D+I 
Sbjct: 111 FFPSTEKYVLISQKSLHKYIWYLYLVFVLKDIIL 144

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 47.2 bits (113), Expect = 5e-06
 Identities = 16/76 (21%), Positives = 44/76 (57%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
            III+I  II+I++++ + II +++++  +I+++  I      II  +   I +  + ++
Sbjct: 93  FIIILIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFIIFNVFFSIGLFGLGLL 152

Query: 137 IIIIIIIIIIIIIDLI 152
           + I++  +  ++  L+
Sbjct: 153 LAIVMYYLTKLLYRLL 168

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 48.2 bits (115), Expect = 5e-06
 Identities = 20/73 (27%), Positives = 42/73 (57%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F  KR   +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I
Sbjct: 98  FKDKRFGKLLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILI 157

Query: 129 IIIIIIIIIIIII 141
            +++I++I  III
Sbjct: 158 SLLLILLIPGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.5 bits (106), Expect = 5e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 115
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 48.8 bits (116), Expect = 5e-06
 Identities = 10/71 (14%), Positives = 48/71 (67%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 147 IIIDLIFDFTF 157
           ++  L+     
Sbjct: 63  LLRSLLLLKAL 73

Length = 316

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 48.8 bits (116), Expect = 5e-06
 Identities = 7/81 (8%), Positives = 46/81 (56%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
                   +  ++++++I++I  ++I  ++ +++  ++++  +I  +     + + +  +
Sbjct: 31  LNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETTLSVFLSNL 90

Query: 129 IIIIIIIIIIIIIIIIIIIII 149
           + I+I+++ ++I++ ++ + +
Sbjct: 91  LRILILVVALLIVLSVLGVQV 111

Length = 316

>gnl|CDD|149146 pfam07907, YibE_F, YibE/F-like protein

 Score = 47.8 bits (115), Expect = 6e-06
 Identities = 12/82 (14%), Positives = 43/82 (52%), Gaps = 7/82 (8%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------- 121
              K+    ++ +++  +++ +++I II+     I++ II+ III  + + ++       
Sbjct: 17  VGGKKGLRSLLSLVLNFVLLFLVLIPIILAGFNPILVTIILAIIITAVTLFLVNGFNKKT 76

Query: 122 IIIIIIIIIIIIIIIIIIIIII 143
           +   +  ++ +++  I+ +++I
Sbjct: 77  LAAFLGTLLGVLLAGILALLVI 98

The sequences featured in this family are similar to two proteins expressed by Lactococcus lactis, YibE and YibF. Most of the members of this family are annotated as being putative membrane proteins, and in fact the sequences contain a high proportion of hydrophobic residues. Length = 244

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 116
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 117
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 118
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 119
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 120
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 121
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 122
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 125
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 96  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 99  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 100 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 102 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 103 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 104 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 106 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 107 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 108 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 109 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 44.1 bits (105), Expect = 6e-06
 Identities = 11/40 (27%), Positives = 29/40 (72%)

Query: 110 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
            + II  +I++++ ++I+ I+ +I++++I++ +II II  
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIYS 71

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|227725 COG5438, COG5438, Predicted multitransmembrane protein [Function unknown]

 Score = 48.9 bits (117), Expect = 6e-06
 Identities = 24/90 (26%), Positives = 46/90 (51%), Gaps = 4/90 (4%)

Query: 66  VCEFVRKRSKYIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIII 121
           +     KR    +I +++ +  IIII+I +II     I++ II+ +II  I + ++  I 
Sbjct: 142 MIIVGGKRGLKSLIGLVVNLFAIIIILIPLIINGFNPILVFIILCVIITAITLFMVNGIN 201

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIIIDL 151
              +   I  I+  ++ II+  I I + +L
Sbjct: 202 KKTLAAFIGTILGTLLSIILAYISIYMTNL 231

Length = 385

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 48.0 bits (115), Expect = 6e-06
 Identities = 27/109 (24%), Positives = 47/109 (43%), Gaps = 25/109 (22%)

Query: 66  VCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------------- 105
           V  F +  S  I+ +  +I  I + I++ +  ++ I I+I                    
Sbjct: 149 VLSFSKDLSTEILELFYLITFIFLNILLFLSALLYIPIMISIRKLSHLASAQLNKPQKYI 208

Query: 106 ---IIIIII--IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
               I ++I   I I III I +I  +   ++ +III I+ II   +II
Sbjct: 209 FWQTITVLIFKSIYIPIIIFIFLIGFLSEFVLTLIIISILDIITTPLII 257

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|222119 pfam13425, O-antigen_lig, O-antigen ligase like membrane protein

 Score = 46.2 bits (110), Expect = 6e-06
 Identities = 11/89 (12%), Positives = 47/89 (52%), Gaps = 5/89 (5%)

Query: 90  IIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           +++++ +++++I +++      ++ ++I +++++++     ++I++ I+ +I ++++   
Sbjct: 2   LLLLLALLLLLIALLLSGSRTALLALLIALLLLLLLKKRRKLLILLAILGVIALLVLSGR 61

Query: 146 IIIIDLIFDFTFMYLKEFRVEQCPLFLQH 174
              I    D     L   R+E     L+ 
Sbjct: 62  FSRIIAGSDERDSSL-SGRLELWEEALEA 89

Length = 136

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 46.8 bits (112), Expect = 7e-06
 Identities = 22/91 (24%), Positives = 47/91 (51%), Gaps = 21/91 (23%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------------II 122
           II +I+ ++I ++I +I +   I II+ II +III                       I 
Sbjct: 81  IISLILFVLIPLLIKLISLNNYIAIILFIISLIIIYKYAPADTPKKPITNEELRKKLKIK 140

Query: 123 IIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
            II+++I+++I +I+     I+++I++ ++ 
Sbjct: 141 SIIVLLILLVISLILSENYFILLLIVLGILL 171

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|181988 PRK09609, PRK09609, hypothetical protein; Provisional

 Score = 48.1 bits (115), Expect = 7e-06
 Identities = 25/119 (21%), Positives = 50/119 (42%), Gaps = 8/119 (6%)

Query: 53  DKILYLQTATKCMVC----EFVRKRSKYIII----IIIIIIIIIIIIIIIIIIIIIIIII 104
           +KI   +      +     E ++K  + II+       +        ++    I  +II+
Sbjct: 119 NKIFKQKEQYDFALENPNSEKIQKIKQKIILLEKKKKKLEKTNEEKSLLNFSWIAALIIL 178

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
           +III+ I  ++  +     I     I     ++I+II   I++II +I+   F+  K F
Sbjct: 179 VIIILFIYFVVGFLDPDFFIQSFSFIKNKRSLMILIISGFILMIIFVIWARFFIKPKRF 237

Length = 312

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 7/72 (9%), Positives = 45/72 (62%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           ++++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I     
Sbjct: 22  LLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNG 81

Query: 146 IIIIDLIFDFTF 157
             +   +  F  
Sbjct: 82  FSLGPAVGLFGL 93

Length = 252

>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins

 Score = 48.7 bits (117), Expect = 7e-06
 Identities = 15/96 (15%), Positives = 41/96 (42%), Gaps = 13/96 (13%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIII----III 121
             ++ I+ + +    +  +   I         I+I  II  ++ +I+ +I+++    +I 
Sbjct: 109 VLLLYILALSLPFSALNSLFRGIFQGFEKMKYIVIARIIESVLSLILALILVLLGGGLIG 168

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
             +  +I  ++  I+++ I    I++     FD   
Sbjct: 169 FALAYLIASVLSAILLLYIYRKKILLPKFFSFDLKL 204

Escherichia coli Wzx and related proteins from other gram-negative bacteria are thought to act as flippases, assisting in the membrane translocation of lipopolysaccharides including those containing O-antigens. Proteins from the MATE family are involved in exporting metabolites across the cell membrane and are often responsible for multidrug resistance (MDR). Length = 402

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 45.0 bits (107), Expect = 7e-06
 Identities = 20/71 (28%), Positives = 39/71 (54%), Gaps = 4/71 (5%)

Query: 72  KRSKYIIIII----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
            + K+  II     +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++
Sbjct: 33  DKKKFKKIIFKKYGLIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVL 92

Query: 128 IIIIIIIIIII 138
           ++II I+I +I
Sbjct: 93  LVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 45.3 bits (108), Expect = 8e-06
 Identities = 11/106 (10%), Positives = 51/106 (48%), Gaps = 32/106 (30%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIII-------------------IIIIIIIIIIIIIIIIII 116
            ++ ++I+++ ++I++ ++ I I                   I  ++++  +++ +I  +
Sbjct: 1   LLLSVLILLLALLILLNLLSISISERRREIGILKALGASKKQIFKLLLLEALLLGLIGSL 60

Query: 117 IIIIIIIIIIIII-------------IIIIIIIIIIIIIIIIIIII 149
           + +++  ++  ++             + I  I+I++ +++I++I +
Sbjct: 61  LGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSLLLILLIAL 106

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 48.4 bits (115), Expect = 8e-06
 Identities = 9/93 (9%), Positives = 48/93 (51%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           +    +      +   +     I+++  +++ +++ ++ ++ II  +++I++  ++ +++
Sbjct: 285 LQVLLLHPYLPALFRPLSGYRFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLL 344

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
             +I+   ++I++I  ++ +  ++   +F  T 
Sbjct: 345 ANVILAAFLLILLIPPLLALFALLQLGVFLVTT 377

Length = 439

>gnl|CDD|222381 pfam13789, DUF4181, Domain of unknown function (DUF4181)

 Score = 45.0 bits (107), Expect = 8e-06
 Identities = 18/78 (23%), Positives = 36/78 (46%), Gaps = 11/78 (14%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----------III 135
              II++II +II+II I I I   + +  +I + +I++      +           I+ 
Sbjct: 32  KGEIILLIIFLIILIIFIYIFITEYLYMYYLIFLFLILLFAFRAFMEWKYDRESKEYILS 91

Query: 136 IIIIIIIIIIIIIIDLIF 153
           +  + I ++I  I+   F
Sbjct: 92  LAGLAIFLLITGIMIYFF 109

Length = 109

>gnl|CDD|233317 TIGR01218, Gpos_tandem_5TM, tandem five-transmembrane protein

 Score = 46.8 bits (112), Expect = 8e-06
 Identities = 21/103 (20%), Positives = 43/103 (41%), Gaps = 23/103 (22%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIII-------------------IIIIIIIIIIIIIIIII 114
           S +I II+ +I I+++ ++ I I                    I I        I I+ +
Sbjct: 94  SIFIKIILFLISILLVYLLRIYINKKNKKKLYNRLPNNNKRYKIKIRPTSFKYRIFILFL 153

Query: 115 IIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIDLIF 153
            I  + + I +  + I      II++I  II +   ++I+++ 
Sbjct: 154 YIFFLGLSIFLFYLFINNGGENIILVINGIIFLFFFLLINMLP 196

Members of this family of proteins, with average length of 210, have no invariant residues but five predicted transmembrane segments. Strangely, most members occur in groups of consecutive paralogous genes. A striking example is a set of eleven encoded consecutively, head-to-tail, in Staphylococcus aureus strain COL. Length = 208

>gnl|CDD|223912 COG0842, COG0842, ABC-type multidrug transport system, permease component [Defense mechanisms]

 Score = 47.6 bits (113), Expect = 9e-06
 Identities = 9/99 (9%), Positives = 46/99 (46%), Gaps = 14/99 (14%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIIII 121
           +I+  +I++ ++   I      +                +  + I++  I+  +++  +I
Sbjct: 89  FIVPGVILMSVLFSGIFSFSSALFREREFGTLERLLVSPVSRLFILLGKIVPYLVVASLI 148

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
             +++++I  ++ +  +  +++++++++ L+     + L
Sbjct: 149 AGLVLLVIAFLLGVPFLGSLLLLLLLLLLLLLATVALGL 187

Length = 286

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 11/105 (10%), Positives = 51/105 (48%), Gaps = 32/105 (30%)

Query: 77  IIIIIIIIIIIIIIIIIIIII-------------------IIIIIIIIIIIIIIIIIIII 117
           + ++I+++ ++I++ ++ I I                   I  ++++  +++ +I  ++ 
Sbjct: 3   LSVLILLLALLILLNLLSISISERRREIGILKALGASKKQIFKLLLLEALLLGLIGSLLG 62

Query: 118 IIIIIIIIIII-------------IIIIIIIIIIIIIIIIIIIII 149
           +++  ++  ++             + I  I+I++ +++I++I ++
Sbjct: 63  LLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSLLLILLIALL 107

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 13/108 (12%), Positives = 52/108 (48%), Gaps = 15/108 (13%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------IIII 118
             V ++   I   +++  +  +  ++  I+  +++ +I ++II++++         ++++
Sbjct: 116 SIVEEKESRIKERLLVSGVSPLKYLLGKILGDLLVGLIQLLIILLLLFGLGIPFGNLLLL 175

Query: 119 IIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIDLIFDFTFMYL 160
           +++ ++  +  I +  ++          I++I I+I+ L   F  ++ 
Sbjct: 176 LLLFLLYGLAYIALGALLGSLFKNSEAAILVISILILLLSGFFGGLFP 223

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 278

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 48.2 bits (114), Expect = 1e-05
 Identities = 13/104 (12%), Positives = 45/104 (43%), Gaps = 8/104 (7%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------IIIII 119
             ++     + +   I +I +I+  I I  I+++ ++     I I+         I++  
Sbjct: 277 SILKSIQLLLGVDKAIAVISLIVGAIGIYNILLVSVLERTREIGILKALGATRREILLQF 336

Query: 120 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
           ++  +I+ +I  ++ I++ + + +++ +++     F        
Sbjct: 337 LLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILL 380

Length = 419

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 47.4 bits (113), Expect = 1e-05
 Identities = 8/90 (8%), Positives = 49/90 (54%)

Query: 64  CMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
            ++  F+      ++II+++ ++++++  I +  +++++  +++ +++I       +   
Sbjct: 28  LIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNGFSLGPA 87

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           + +  +  + I  +++ ++I + +++ L+ 
Sbjct: 88  VGLFGLGPVTIGSLVLGLLIALRVLLILLA 117

Length = 252

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 47.2 bits (112), Expect = 1e-05
 Identities = 10/75 (13%), Positives = 50/75 (66%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 144 IIIIIIDLIFDFTFM 158
           ++  ++ L      +
Sbjct: 63  LLRSLLLLKALIRRL 77

Length = 316

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 47.2 bits (112), Expect = 1e-05
 Identities = 11/79 (13%), Positives = 54/79 (68%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 138 IIIIIIIIIIIIDLIFDFT 156
           ++  ++++  +I  +   T
Sbjct: 63  LLRSLLLLKALIRRLARET 81

Length = 316

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 74  SKYIIIIII----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
            K    II     +I I+  ++ +I +II I+    + I  I+  +  I  II+  I+++
Sbjct: 34  KKKFKKIIFKKYGLIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLL 93

Query: 130 IIIIIIIIII 139
           +II I+I +I
Sbjct: 94  VIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 44.5 bits (106), Expect = 1e-05
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 122
            FVR   K  +   I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 33  PFVRFHGKEALNFQISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 47.7 bits (114), Expect = 1e-05
 Identities = 19/77 (24%), Positives = 37/77 (48%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            II+I++ + + +  I     +IIII++    I      +    +  I+  I       I
Sbjct: 2   LIIVIVLFLFLSLSSIPFSASLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKI 61

Query: 136 IIIIIIIIIIIIIIDLI 152
            +I++II I+  II+L+
Sbjct: 62  GLILLIIGILFFIINLL 78

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|223551 COG0475, KefB, Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]

 Score = 48.0 bits (115), Expect = 1e-05
 Identities = 8/100 (8%), Positives = 45/100 (45%), Gaps = 12/100 (12%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           E    +++   +I+  ++   I  I+++ I+  +       +  I+ +++ I+  + +++
Sbjct: 141 ELGLLKTREGQLILGALVFDDIAAILLLAIVPALAGGGSGSVGFILGLLLAILAFLALLL 200

Query: 128 IIIIIII--II----------IIIIIIIIIIIIIDLIFDF 155
           ++   ++  +           + I+ ++++++    + + 
Sbjct: 201 LLGRYLLPPLFRRVAKTESSELFILFVLLLVLGAAYLAEL 240

Length = 397

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 11/64 (17%), Positives = 34/64 (53%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
            R         + +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  +I  I+ 
Sbjct: 381 DRKGLFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGSVIAAILP 440

Query: 132 IIII 135
             + 
Sbjct: 441 RKLF 444

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 11/66 (16%), Positives = 35/66 (53%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
               K +      + +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  +I  I
Sbjct: 379 EADRKGLFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGSVIAAI 438

Query: 131 IIIIII 136
           +   + 
Sbjct: 439 LPRKLF 444

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|220299 pfam09586, YfhO, Bacterial membrane protein YfhO

 Score = 48.4 bits (116), Expect = 1e-05
 Identities = 9/95 (9%), Positives = 53/95 (55%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           +  E +    +   + I+I I++++++ I++ ++ +      +    +++ ++ +++ ++
Sbjct: 352 LAAEALLHLKQLKKLKILISILLLVLLFILVFLLNLSKHYSFLTQTNLLLTLLFLLLYLL 411

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
           ++++ +   I   ++II+++++++++L  +     
Sbjct: 412 LLLLFLKKQIRKKLVIILLLLVVVLELGLNAYLSL 446

This protein is a conserved membrane protein. The yfhO gene is transcribed in Difco sporulation medium and the transcription is affected by the YvrGHb two-component system. Some members of this family have been annotated as glycosyl transferases of the PMT family. Length = 835

>gnl|CDD|218142 pfam04549, CD47, CD47 transmembrane region

 Score = 45.4 bits (108), Expect = 1e-05
 Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 7/84 (8%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIII-------IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           I+I+I +II II++   I  +          I ++  I + I +I+++   + I      
Sbjct: 1   ILIVIFLIIYIILLWGQIGTLTFKYNKVKKKIYLLYAIGLWITLIVLVGQYLFIPTEYSF 60

Query: 130 IIIIIIIIIIIIIIIIIIIIDLIF 153
           I II + +I + I I+I +  ++F
Sbjct: 61  INIIGLGLIQLSIFILIFLQYIVF 84

This family represents the transmembrane region of CD47 leukocyte antigen. Length = 156

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 9/70 (12%), Positives = 36/70 (51%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
             RSK   I++ I ++   I++++ +  ++I+  ++     +++ +  + ++    + ++
Sbjct: 15  YLRSKRFYILLAIFLLFAGIVLLLALKYLLILSKLLEGNPFLLLFLSSVSLVFSFFLPLL 74

Query: 131 IIIIIIIIII 140
            I++   +I 
Sbjct: 75  AILLGADLIS 84

Length = 278

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 11/110 (10%), Positives = 42/110 (38%), Gaps = 23/110 (20%)

Query: 76  YIIIIIIIIIIIIIIIIII---------------------III--IIIIIIIIIIIIIII 112
            +    + ++ I++   +I                     I++   +  +++I+III+I 
Sbjct: 65  LVFSFFLPLLAILLGADLISSEFESGTIKLLLSKPISRSNIVLGKFLGALLVILIIILIS 124

Query: 113 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKE 162
            I ++ ++++      +  I  +++ +   ++  +++  I          
Sbjct: 125 FISLLTLLLLFGFPGNVSSISRLLLFLGSSLLYGLVLLSISLLISSLFSS 174

Length = 278

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 44.2 bits (105), Expect = 2e-05
 Identities = 11/108 (10%), Positives = 50/108 (46%), Gaps = 35/108 (32%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIII------------------IIIIIIIIIIIIIIIIII 118
           +++ ++I+++ ++I++ ++ I I                   I  ++++  +++ +I  +
Sbjct: 1   LLLSVLILLLALLILLNLLSISISERRREIGILKALGASKKQIFKLLLLEALLLGLIGSL 60

Query: 119 IIIII-----------------IIIIIIIIIIIIIIIIIIIIIIIIII 149
           + +++                   + + I  I+I++ +++I++I ++ 
Sbjct: 61  LGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVILLSLLLILLIALLA 108

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|149146 pfam07907, YibE_F, YibE/F-like protein

 Score = 45.9 bits (110), Expect = 2e-05
 Identities = 14/72 (19%), Positives = 44/72 (61%), Gaps = 5/72 (6%)

Query: 90  IIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +++I+ I+ I++++++     +  ++ +++  +++ +++I II+     I++ II+ III
Sbjct: 2   VLVILAILFILLMLLVGGKKGLRSLLSLVLNFVLLFLVLIPIILAGFNPILVTIILAIII 61

Query: 145 IIIIIDLIFDFT 156
             + + L+  F 
Sbjct: 62  TAVTLFLVNGFN 73

The sequences featured in this family are similar to two proteins expressed by Lactococcus lactis, YibE and YibF. Most of the members of this family are annotated as being putative membrane proteins, and in fact the sequences contain a high proportion of hydrophobic residues. Length = 244

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 45.3 bits (108), Expect = 2e-05
 Identities = 22/98 (22%), Positives = 45/98 (45%), Gaps = 23/98 (23%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIII-------IIIIIIIIIIIII--------------- 112
           +   I   + +I+  +  +I+I+II          +II++   ++               
Sbjct: 20  ELEKIKYGLEVILGNLFKLILILIIALLLGVFPETLIILLSFSLLRRFAGGYHAKSSLRC 79

Query: 113 -IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
            II +I+ ++I ++I +I +   I II+ II +III  
Sbjct: 80  FIISLILFVLIPLLIKLISLNNYIAIILFIISLIIIYK 117

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 44.3 bits (105), Expect = 2e-05
 Identities = 19/82 (23%), Positives = 37/82 (45%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           K  K I  I   III+ I+  +++ + +II I+I            +    +   ++I +
Sbjct: 3   KLIKKIKKISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGV 62

Query: 132 IIIIIIIIIIIIIIIIIIDLIF 153
           ++I++  II+   I   I  I 
Sbjct: 63  LLILLDDIIVFFYIANFILEII 84

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 47.2 bits (112), Expect = 2e-05
 Identities = 9/95 (9%), Positives = 49/95 (51%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
                  +     I+++  +++ +++ ++ ++ II  +++I++  ++ +++  +I+   +
Sbjct: 294 LPALFRPLSGYRFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLLANVILAAFL 353

Query: 131 IIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
           +I++I  ++ +  ++ + + L+       + +  V
Sbjct: 354 LILLIPPLLALFALLQLGVFLVTTKGLRLIAKLVV 388

Length = 439

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 46.2 bits (110), Expect = 2e-05
 Identities = 7/85 (8%), Positives = 47/85 (55%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            +++II+++ ++++++  I +  +++++  +++ +++I       +   + +  +  + I
Sbjct: 39  VLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNGFSLGPAVGLFGLGPVTI 98

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYL 160
             +++ ++I + ++ ++     + L
Sbjct: 99  GSLVLGLLIALRVLLILLAALLLTL 123

Length = 252

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 138 IIIII 142
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 139 IIIII 143
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 140 IIIII 144
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 141 IIIII 145
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 142 IIIII 146
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 17/65 (26%), Positives = 39/65 (60%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           +++++I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I
Sbjct: 106 LLLLLILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLI 165

Query: 143 IIIII 147
             III
Sbjct: 166 PGIII 170

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 11/84 (13%), Positives = 53/84 (63%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 140 IIIIIIIIIIDLIFDFTFMYLKEF 163
           ++  ++++   +        L  F
Sbjct: 63  LLRSLLLLKALIRRLARETTLSVF 86

Length = 316

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 47.4 bits (113), Expect = 2e-05
 Identities = 12/75 (16%), Positives = 36/75 (48%)

Query: 43  SQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIII 102
            + +  ++K      L    + +    +   S   +II+I+  I+I +++  ++++ I++
Sbjct: 370 KKWQKSVKKEADRKGLFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVL 429

Query: 103 IIIIIIIIIIIIIII 117
           +I  +I  I+   + 
Sbjct: 430 VIGSVIAAILPRKLF 444

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|218142 pfam04549, CD47, CD47 transmembrane region

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 20/87 (22%), Positives = 41/87 (47%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +I+I +II II++   I  +      +   I ++  I + I +I+++   + I      I
Sbjct: 2   LIVIFLIIYIILLWGQIGTLTFKYNKVKKKIYLLYAIGLWITLIVLVGQYLFIPTEYSFI 61

Query: 137 IIIIIIIIIIIIIDLIFDFTFMYLKEF 163
            II + +I + I  LIF    ++  + 
Sbjct: 62  NIIGLGLIQLSIFILIFLQYIVFKLKI 88

This family represents the transmembrane region of CD47 leukocyte antigen. Length = 156

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 46.8 bits (112), Expect = 2e-05
 Identities = 14/88 (15%), Positives = 41/88 (46%), Gaps = 2/88 (2%)

Query: 57  YLQTATKCMVCEFVRKRS--KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 114
           +   A        V   +  K I    +I+ +   +  +   +I +III+I +II+ +  
Sbjct: 81  FFSEAISEGAGSVVANAALIKKINFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEP 140

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIII 142
               ++++  ++++I+  + + +I+  +
Sbjct: 141 SWHWLLLLPALLLLILFSVGLGLILASL 168

Length = 263

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 47.3 bits (113), Expect = 2e-05
 Identities = 17/95 (17%), Positives = 41/95 (43%), Gaps = 7/95 (7%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------IIIII 128
           YI+ +     +    ++      ++    +   I I I+II  +I I        I  I+
Sbjct: 88  YILGLASSSSVAAQYLLSAFFPDLVGNTWLTYGIAIAILIIFALINIRGIKESAKIQNIL 147

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
            I+ +++ +I+II++ +++ +   F+        F
Sbjct: 148 GIVKLLLPLILIILLGLVLALGGGFNLLPNSWTTF 182

Length = 425

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 47.3 bits (113), Expect = 2e-05
 Identities = 14/88 (15%), Positives = 37/88 (42%), Gaps = 8/88 (9%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------I 127
             +  I+ +     +    ++      ++    +   I I I+II  +I I        I
Sbjct: 84  NWLAYILGLASSSSVAAQYLLSAFFPDLVGNTWLTYGIAIAILIIFALINIRGIKESAKI 143

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLIFDF 155
             I+ I+ +++ +I+II++ ++  +   
Sbjct: 144 QNILGIVKLLLPLILIILLGLVLALGGG 171

Length = 425

>gnl|CDD|212047 cd11477, SLC5sbd_u1, Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain

 Score = 47.2 bits (113), Expect = 2e-05
 Identities = 12/103 (11%), Positives = 37/103 (35%), Gaps = 14/103 (13%)

Query: 68  EFVRKR----SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
           E    R     +        ++  + I   + +  I +  +     I + I+I+ +I +I
Sbjct: 107 ERYGGRFGAPLRQFYAWYFALLSNVGIGAWLYLAAIKVAAVFGPWDITLTILILGLITLI 166

Query: 124 IIII-----IIII-----IIIIIIIIIIIIIIIIIIDLIFDFT 156
             +I     +++      +I++   I + ++ +  +       
Sbjct: 167 YSVIGGLWAVVVTDVVQFVILMAASIAVAVLALNAVGGPGGLW 209

SLC5 (also called the sodium/glucose cotransporter family or solute sodium symporter family) is a family of proteins that co-transports Na+ with sugars, amino acids, inorganic ions or vitamins. Prokaryotic members of this family include Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. One member of the SLC5 family, human SGLT3, has been characterized as a glucose sensor and not a transporter. This subfamily belongs to the solute carrier 5 (SLC5) transporter family. Length = 495

>gnl|CDD|226227 COG3704, VirB6, Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]

 Score = 47.1 bits (112), Expect = 2e-05
 Identities = 17/63 (26%), Positives = 37/63 (58%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           I ++I ++ +    I++ I+   +I+I +I   II+ I+  I I++++ I  + I  ++F
Sbjct: 179 ISLLIPLLGVGNGGILVAILAFWVIVISLIGYAIILYIMAFIAIVVLLGIGPLFIPLMLF 238

Query: 154 DFT 156
           D T
Sbjct: 239 DRT 241

Length = 406

>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 6/100 (6%), Positives = 51/100 (51%), Gaps = 26/100 (26%)

Query: 76  YIIIIIIIIIIIIIII--------------------------IIIIIIIIIIIIIIIIII 109
            + + ++I I+  +++                          +++++I+ ++  ++++++
Sbjct: 54  ALFLPLLIAILASLLVSREFKNGTIKLLLSLPISRGKIFLAKLLVLLILSLLASLLLLLL 113

Query: 110 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
            +I  +++      + +++  +++++++ ++ +++I++I+
Sbjct: 114 SLIAGLLLGGSGFSLSLLLGALLLLLLLSLLALLLILLIL 153

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 230

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 46.3 bits (110), Expect = 3e-05
 Identities = 13/85 (15%), Positives = 45/85 (52%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
              +  I  +++ +   ++  ++++ I ++I  +     + +++ II++++ II   +I+
Sbjct: 138 PGNVSSISRLLLFLGSSLLYGLVLLSISLLISSLFSSSSLALLVSIILLLLFIIAFSLIL 197

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYL 160
           + I +++I I   ++ +     +YL
Sbjct: 198 LFISVLLIGIAPTLNTLSLLLPLYL 222

Length = 278

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 10/94 (10%), Positives = 46/94 (48%), Gaps = 11/94 (11%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIII-----IIIIIII------IIIIIIIIIIIIIIIIII 126
           +++ ++I+++ ++I++ ++ I I      I I+  +      I  ++++  +++ +I  +
Sbjct: 1   LLLSVLILLLALLILLNLLSISISERRREIGILKALGASKKQIFKLLLLEALLLGLIGSL 60

Query: 127 IIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           + +++  ++  ++   I   +   L      + +
Sbjct: 61  LGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVI 94

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 27/132 (20%), Positives = 55/132 (41%), Gaps = 45/132 (34%)

Query: 74  SKYIIIIII-----IIIIIIIIIIIIIII-------------------IIIIIIIIIIII 109
            K I+I+II     +    +II++   ++                   +I+ ++I ++I 
Sbjct: 36  FKLILILIIALLLGVFPETLIILLSFSLLRRFAGGYHAKSSLRCFIISLILFVLIPLLIK 95

Query: 110 IIIIIIIIIIIIIIIIIIIIII---------------------IIIIIIIIIIIIIIIII 148
           +I +   I II+ II +III                       I  II+++I+++I +I+
Sbjct: 96  LISLNNYIAIILFIISLIIIYKYAPADTPKKPITNEELRKKLKIKSIIVLLILLVISLIL 155

Query: 149 IDLIFDFTFMYL 160
            +  F    + L
Sbjct: 156 SENYFILLLIVL 167

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 46.6 bits (110), Expect = 3e-05
 Identities = 14/107 (13%), Positives = 49/107 (45%), Gaps = 19/107 (17%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIII-------------------IIIIIIIIIIIIIIII 113
             K I +I +I+  I I  I+++ +                   I++  ++  +I+ +I 
Sbjct: 288 VDKAIAVISLIVGAIGIYNILLVSVLERTREIGILKALGATRREILLQFLLEALILGLIG 347

Query: 114 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
            ++ I++ + + +++ +++I  +  ++ + I++  + ++       L
Sbjct: 348 GLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALL 394

Length = 419

>gnl|CDD|225153 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]

 Score = 46.7 bits (111), Expect = 3e-05
 Identities = 12/105 (11%), Positives = 50/105 (47%), Gaps = 14/105 (13%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIII 120
            Y + + II +  I+    +   I               +I++ +++++++ +I++++++
Sbjct: 44  LYALALAIIGLFSILADFGLPAAITREIAEYREKGEYLLLILLSVLLLLLLALILLLLLL 103

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
           +I  ++  I  ++ +++ I+ + ++++ +  +    F     F  
Sbjct: 104 LIAYLLAPIDPVLALLLRILSLALLLLPLSSVLRGLFQGFGRFGP 148

Length = 480

>gnl|CDD|223692 COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]

 Score = 45.8 bits (109), Expect = 3e-05
 Identities = 7/76 (9%), Positives = 45/76 (59%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDL 151
           ++++ ++II++ ++  +++++II+++ ++++++  I +  +++++  +++ +++I   + 
Sbjct: 22  LLLLFLLIILVFLLNDLVLLLIILLLTLLLVVLAKIPLKFLLLLLGFLLLGLLLIAFTNG 81

Query: 152 IFDFTFMYLKEFRVEQ 167
                 + L       
Sbjct: 82  FSLGPAVGLFGLGPVT 97

Length = 252

>gnl|CDD|216594 pfam01594, UPF0118, Domain of unknown function DUF20

 Score = 46.4 bits (111), Expect = 3e-05
 Identities = 18/92 (19%), Positives = 48/92 (52%), Gaps = 7/92 (7%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIII--IIIII 124
           +     +   ++  +I+ +II ++  I ++I+     +++ +++ +  +I  I  +II+I
Sbjct: 185 REINDTLGGYLLGQVIVALIIGVLTFIGLLILGVPYALLLALLVGLANLIPYIGPVIILI 244

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
            I I  ++   I   +I++I +++I  I D  
Sbjct: 245 PIAIYALLTGGIWAGLIVLIGVLLIQQIEDNI 276

This transmembrane region is found in putative permeases and predicted transmembrane proteins it has no known function. It is not clear what source suggested that these proteins may be permeases and this information should be treated with caution. Length = 327

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 46.1 bits (109), Expect = 3e-05
 Identities = 11/76 (14%), Positives = 53/76 (69%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 137 IIIIIIIIIIIIIDLI 152
           ++  ++++  +I  L 
Sbjct: 63  LLRSLLLLKALIRRLA 78

Length = 316

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 3e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 45.7 bits (109), Expect = 3e-05
 Identities = 22/117 (18%), Positives = 47/117 (40%), Gaps = 27/117 (23%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----I 123
            + K   Y+ ++ ++  II+ ++ ++     +   I+ +  +I  I + I++ +     I
Sbjct: 125 SLHKYIWYLYLVFVLKDIILFLLYVLSFSKDLSTEILELFYLITFIFLNILLFLSALLYI 184

Query: 124 IIIIII----------------------IIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
            I+I I                      I ++I   I I III I +I  + +F   
Sbjct: 185 PIMISIRKLSHLASAQLNKPQKYIFWQTITVLIFKSIYIPIIIFIFLIGFLSEFVLT 241

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|219520 pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT

 Score = 44.9 bits (107), Expect = 3e-05
 Identities = 11/82 (13%), Positives = 41/82 (50%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I   I  I+  ++  +I   +     I  ++ ++I ++  I+ +++I+++     + + +
Sbjct: 84  IACGISTILAGLLAGLIHRRLKRRKKISWLVALLIGLLAEILQMLLILLLAKPFDLALEL 143

Query: 139 IIIIIIIIIIIDLIFDFTFMYL 160
           +  I + +I+++ +    F+ +
Sbjct: 144 VSTIALPMILVNSLGTALFLLI 165

This entry represents the transmembrane region of the 5TM-LYT (5TM Receptors of the LytS-YhcK type). Length = 169

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 44.8 bits (106), Expect = 3e-05
 Identities = 9/72 (12%), Positives = 41/72 (56%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           KY ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ + 
Sbjct: 85  KYFLLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLS 144

Query: 135 IIIIIIIIIIII 146
            ++   + +I+ 
Sbjct: 145 FLLFFHLYLILK 156

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|218173 pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein

 Score = 45.6 bits (109), Expect = 3e-05
 Identities = 7/52 (13%), Positives = 27/52 (51%)

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
            I   +  ++  + ++++  +  +++++  I + +++ +  I I  L+F  T
Sbjct: 98  GIGAALAGLLAWLGVLLLFFVAAVVLLVAKIELALLLALGPIFIAFLLFPAT 149

Length = 223

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 46.3 bits (109), Expect = 4e-05
 Identities = 20/120 (16%), Positives = 49/120 (40%)

Query: 41  IQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIII 100
           +   L   L    +           V E ++   K I +++ +   I +I +I+  I I 
Sbjct: 246 VAELLAERLSNKKESKDYDVKDIQKVLENLKSILKSIQLLLGVDKAIAVISLIVGAIGIY 305

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
            I+++ ++     I I+  +      I++  ++  +I+ +I  ++ I++ L        L
Sbjct: 306 NILLVSVLERTREIGILKALGATRREILLQFLLEALILGLIGGLLGILLGLGLSLLLALL 365

Length = 419

>gnl|CDD|218916 pfam06157, DUF973, Protein of unknown function (DUF973)

 Score = 45.5 bits (108), Expect = 4e-05
 Identities = 29/96 (30%), Positives = 48/96 (50%), Gaps = 16/96 (16%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
            R   I I  II+II+  +IIII  ++ I+ ++ ++  +II+ I  I+ +I  I+I + I
Sbjct: 77  GRDVGIGITGIILIIVGYVIIIIGALLTIVGLLSLVGGVIILFIGGILGLIGYILIGLGI 136

Query: 132 ----------------IIIIIIIIIIIIIIIIIIDL 151
                           I+III II  I  I+  + L
Sbjct: 137 YRIGEIYNENLVKIGGILIIIPIISFIGFILTYVGL 172

This family consists of several hypothetical archaeal proteins of unknown function. Length = 283

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 46.1 bits (109), Expect = 4e-05
 Identities = 10/79 (12%), Positives = 44/79 (55%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
             I+++  +++ +++ ++ ++ II  +++I++  ++ +++  +I+   ++I++I  ++ +
Sbjct: 305 RFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLLANVILAAFLLILLIPPLLAL 364

Query: 148 IIDLIFDFTFMYLKEFRVE 166
              L      +  K  R+ 
Sbjct: 365 FALLQLGVFLVTTKGLRLI 383

Length = 439

>gnl|CDD|214445 MTH00166, ND6, NADH dehydrogenase subunit 6; Provisional

 Score = 44.0 bits (105), Expect = 4e-05
 Identities = 13/106 (12%), Positives = 43/106 (40%), Gaps = 22/106 (20%)

Query: 77  IIIIIIIIIIIIIII----------IIIIIIII----IIIIIIIIII--------IIIII 114
            +I+II  I+I +++           I+ +I +    ++ I I  +         + ++I
Sbjct: 25  GLILIIQTILISLLLGLMMKSFWFSYILFLIFLGGMLVLFIYITSLASNEKFKFSLKLLI 84

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           + ++++++++   I    +               +  +++F  M +
Sbjct: 85  LFLLMLLLMLNNFIKNSEMSNFNNNFNFFENSFSLSKLYNFPTMLI 130

Length = 160

>gnl|CDD|218918 pfam06161, DUF975, Protein of unknown function (DUF975)

 Score = 45.1 bits (107), Expect = 4e-05
 Identities = 19/73 (26%), Positives = 38/73 (52%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I+  I + +  +I  I ++IIII   + +    I   +++  I I+I +++I++I  III
Sbjct: 111 ILKGIFLFLWSLIATIGLLIIIISSHLALSSSEIEDNLMVFGIGILISLLLILLIPGIII 170

Query: 138 IIIIIIIIIIIID 150
                 +  I+ D
Sbjct: 171 GYAYSQVEYILYD 183

Family of uncharacterized bacterial proteins. Length = 251

>gnl|CDD|221569 pfam12420, DUF3671, Protein of unknown function

 Score = 43.1 bits (102), Expect = 4e-05
 Identities = 17/57 (29%), Positives = 34/57 (59%)

Query: 96  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           +I I+  ++ +I +II I+    + I  I+  +  I  II+  I++++II I+I +I
Sbjct: 47  LIFILPSLVPLIGLIIPILFSANVKIPYILPGLNGIFFIILATIVLLVIIYILIKVI 103

This domain family is found in eukaryotes, and is typically between 96 and 116 amino acids in length. Length = 106

>gnl|CDD|219520 pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 12/84 (14%), Positives = 41/84 (48%), Gaps = 8/84 (9%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------III 127
             I  I+  ++  +I   +     I  ++ ++I ++  I+ +++I+++         ++ 
Sbjct: 86  CGISTILAGLLAGLIHRRLKRRKKISWLVALLIGLLAEILQMLLILLLAKPFDLALELVS 145

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDL 151
            I + +I++  +   + ++II D+
Sbjct: 146 TIALPMILVNSLGTALFLLIIRDV 169

This entry represents the transmembrane region of the 5TM-LYT (5TM Receptors of the LytS-YhcK type). Length = 169

>gnl|CDD|217759 pfam03845, Spore_permease, Spore germination protein

 Score = 46.1 bits (110), Expect = 4e-05
 Identities = 20/131 (15%), Positives = 51/131 (38%), Gaps = 22/131 (16%)

Query: 76  YIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIII--IIIIIIIIIIIIIII 129
           Y + +   ++     ++   ++      III+ ++++ I +I   I ++      II I+
Sbjct: 87  YFLYLAGRVLRDFSEVLQTFLLPDTPTWIIILTLLLVSIYLISKGIEVLAREFCFIIPIL 146

Query: 130 IIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFH--- 186
           +II++ I+I  +    I  +  +       +   +  +             PF  F    
Sbjct: 147 LIILLFILIFSLKQAHIKNLRPVLGNGISPV--LKGSKTTSL---------PFGGFEILL 195

Query: 187 --WHFMNQRRR 195
             + FM  +++
Sbjct: 196 MLYPFMKDKKK 206

Length = 320

>gnl|CDD|235682 PRK06041, PRK06041, flagellar assembly protein J; Reviewed

 Score = 46.4 bits (111), Expect = 4e-05
 Identities = 11/102 (10%), Positives = 40/102 (39%), Gaps = 18/102 (17%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------ 123
           Y+ +++ +  + +  II  I+        + + + + + I +  + +I            
Sbjct: 193 YVSLLLSVTFVAVFAIISPILTGTDPTTTLSLSLFLFLFIEVGGVYVIKKRVPKDPLWHT 252

Query: 124 ------IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
                     I  ++II + +  I++++++++  I     + 
Sbjct: 253 LEIKTKEQKKIRKLLIISVPLSAILVLLLLLLGFIIGPILID 294

Length = 553

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 44.6 bits (106), Expect = 4e-05
 Identities = 8/72 (11%), Positives = 37/72 (51%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             R +   ++  II +++ +  +++ ++++++  +++   I+  + +  +I+ +++I   
Sbjct: 28  RKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLLGWGILPGLGLPALILALLLIAPF 87

Query: 129 IIIIIIIIIIII 140
             +I    +  I
Sbjct: 88  ARLIRRAALESI 99

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|224136 COG1215, COG1215, Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]

 Score = 46.1 bits (109), Expect = 5e-05
 Identities = 15/81 (18%), Positives = 46/81 (56%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFD 154
             I+++  +++ +++ ++ ++ II  +++I++  ++ +++  +I+   ++I++I  L+  
Sbjct: 305 RFILLLFSLLLPLLLTLLFLLSIIPSLLLILLSGLLALLLANVILAAFLLILLIPPLLAL 364

Query: 155 FTFMYLKEFRVEQCPLFLQHK 175
           F  + L  F V    L L  K
Sbjct: 365 FALLQLGVFLVTTKGLRLIAK 385

Length = 439

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 45.7 bits (108), Expect = 5e-05
 Identities = 9/77 (11%), Positives = 51/77 (66%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            +I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++ +++
Sbjct: 5   VVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLL 64

Query: 136 IIIIIIIIIIIIIIDLI 152
             ++++  +I  +    
Sbjct: 65  RSLLLLKALIRRLARET 81

Length = 316

>gnl|CDD|226227 COG3704, VirB6, Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]

 Score = 45.9 bits (109), Expect = 5e-05
 Identities = 18/116 (15%), Positives = 49/116 (42%), Gaps = 18/116 (15%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
                   +I ++I ++ +    I++ I+   +I+I +I   II+ I+  I I++++ I 
Sbjct: 170 ILATSARPFISLLIPLLGVGNGGILVAILAFWVIVISLIGYAIILYIMAFIAIVVLLGIG 229

Query: 128 IIIIIIII------------------IIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
            + I +++                   +  ++++  I ++  I D     +  + V
Sbjct: 230 PLFIPLMLFDRTRRLFDNWLGQLISYALQPMLLVAFIALLITILDTYLTAVLGYSV 285

Length = 406

>gnl|CDD|223833 COG0762, COG0762, Predicted integral membrane protein [Function unknown]

 Score = 42.2 bits (100), Expect = 5e-05
 Identities = 11/96 (11%), Positives = 45/96 (46%), Gaps = 14/96 (14%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIII 122
           + +++I+++ +++++I+I + I +++I  ++              ++  +   ++     
Sbjct: 1   VFLMLILLLSLLVLLILIGVYIFLLLIRALLSWFPPAGETNPIGRLLAQLTEPLLRPFRR 60

Query: 123 IIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           +I  +  I    I+ ++I+  +   +I L+     +
Sbjct: 61  LIPPLGGIDFSPIVALLILQFLQFFLIRLLGLILAL 96

Length = 96

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 141 IIII 144
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 142 IIII 145
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 143 IIII 146
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 144 IIII 147
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 145 IIII 148
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|218140 pfam04547, Anoctamin, Calcium-activated chloride channel

 Score = 45.7 bits (109), Expect = 6e-05
 Identities = 14/64 (21%), Positives = 33/64 (51%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           ++  ++ I ++++ I ++I III I I+ I +  +         +   +  I+  +II+I
Sbjct: 118 LLRQLLSIPVVLLFIGLVIGIIIGIFILRIFLSEVYSGPSFKQSLESFLPAILNSVIILI 177

Query: 146 IIII 149
           +  I
Sbjct: 178 LNFI 181

The family carries eight putative transmembrane domains, and, although it has no similarity to other known channel proteins, it is clearly a calcium-activated ionic channel. It is expressed in various secretory epithelia, the retina and sensory neurons, and mediates receptor-activated chloride currents in diverse physiological processes. Length = 449

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 10/61 (16%), Positives = 32/61 (52%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
                     +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  +I  I+   +
Sbjct: 384 GLFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGSVIAAILPRKL 443

Query: 128 I 128
            
Sbjct: 444 F 444

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 14/55 (25%), Positives = 32/55 (58%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           + ++   I I I+II  +I I  I     I  I+ I+ +++ +I+II++ +++ +
Sbjct: 114 NTWLTYGIAIAILIIFALINIRGIKESAKIQNILGIVKLLLPLILIILLGLVLAL 168

Length = 425

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 16/82 (19%), Positives = 39/82 (47%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           Y++      ++    +   I I I+II  +I I  I     I  I+ I+ +++ +I+II+
Sbjct: 102 YLLSAFFPDLVGNTWLTYGIAIAILIIFALINIRGIKESAKIQNILGIVKLLLPLILIIL 161

Query: 136 IIIIIIIIIIIIIIDLIFDFTF 157
           + +++ +     ++   +   F
Sbjct: 162 LGLVLALGGGFNLLPNSWTTFF 183

Length = 425

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 45.5 bits (108), Expect = 6e-05
 Identities = 7/69 (10%), Positives = 42/69 (60%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             R  S+  + + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++
Sbjct: 114 RYRLYSRLGLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILL 173

Query: 129 IIIIIIIII 137
           I++++   I
Sbjct: 174 ILLLLAAAI 182

Length = 322

>gnl|CDD|181074 PRK07668, PRK07668, hypothetical protein; Validated

 Score = 45.0 bits (107), Expect = 6e-05
 Identities = 24/128 (18%), Positives = 54/128 (42%), Gaps = 8/128 (6%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F  K ++   +II ++I+I +++I+ I+ +       ++    +   I+  +I +I +II
Sbjct: 133 FKSKLTEKWFLIIYLVILIPMLLIVAIMFLNKWYGTPMLQFTQMQSYILAGLIFLITVII 192

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWH 188
            I  +    ++ +II + I+      F F Y     V   P+  Q        +      
Sbjct: 193 NIYFLGWFGLLYLIIPLSIM------FLFKYFNSEDVV--PMIFQIIILYGSLYVLMFIE 244

Query: 189 FMNQRRRR 196
              ++ +R
Sbjct: 245 IKREKNKR 252

Length = 254

>gnl|CDD|220689 pfam10318, 7TM_GPCR_Srh, Serpentine type 7TM GPCR chemoreceptor Srh

 Score = 45.2 bits (108), Expect = 6e-05
 Identities = 24/106 (22%), Positives = 47/106 (44%), Gaps = 24/106 (22%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------ 115
           EF  +   +++       +I I+I+I+I+II I+  + + I  +   +            
Sbjct: 169 EFFDEPPVFVLATDSTYFLISIVILILILIIQILFFVFLTIYYLFKSLKSSLSKKTRKLQ 228

Query: 116 ---IIIIIIIIIIIIIIIIIIIIIIIIIIII---------IIIIII 149
              +I +II + I +I+I+I +I  +  II          +  III
Sbjct: 229 KKFLIALIIQVSIPLIVILIPLIYFLYSIIFGYYNQALNNLAFIII 274

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srh is part of the Str superfamily of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. Length = 302

>gnl|CDD|233180 TIGR00912, 2A0309, spore germination protein (amino acid permease)

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 24/85 (28%), Positives = 47/85 (55%), Gaps = 8/85 (9%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIII---IIIIII 127
            ++ I+ I+   +I   +I I    I   +     II+III+III+ I I+   I +++ 
Sbjct: 80  RLLSILFILYFFLIAAYLIRIFADFIKTYLLPRTPIIVIIILIIIVSIYIVRKGIEVLLR 139

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLI 152
              I++II +I+ I+++I++   L 
Sbjct: 140 TAEILLIIFLILFILVLILLAPKLG 164

This model describes spore germination protein GerKB and paralogs from Bacillus subtilis, Clostridium tetani, and other known or predicted endospore-forming members of the Firmicutes (low-GC Gram positive bacteria). Members show some similarity to amino acid permeases [Transport and binding proteins, Amino acids, peptides and amines]. Length = 359

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 44.8 bits (106), Expect = 7e-05
 Identities = 14/93 (15%), Positives = 48/93 (51%), Gaps = 3/93 (3%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           F    S    +++ +   ++  ++++ I ++I  +     + +++ II++++ II   +I
Sbjct: 137 FPGNVSSISRLLLFLGSSLLYGLVLLSISLLISSLFSSSSLALLVSIILLLLFIIAFSLI 196

Query: 129 IIIIIIIIIIIII---IIIIIIIIDLIFDFTFM 158
           ++ I +++I I      + +++ + L+ +  F 
Sbjct: 197 LLFISVLLIGIAPTLNTLSLLLPLYLLAELAFT 229

Length = 278

>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins

 Score = 45.2 bits (108), Expect = 7e-05
 Identities = 18/96 (18%), Positives = 43/96 (44%), Gaps = 15/96 (15%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           + KYI+I  II  ++ +I+ +I+++    +I   +  +I  ++  I+++ I    I++  
Sbjct: 137 KMKYIVIARIIESVLSLILALILVLLGGGLIGFALAYLIASVLSAILLLYIYRKKILLPK 196

Query: 129 IIII-------III----IIIIIIIIIIIIIIDLIF 153
                      ++     + +  I  +I   ID I 
Sbjct: 197 FFSFDLKLAKELLRFSIPLALSGIFSLIYTRIDTIM 232

Escherichia coli Wzx and related proteins from other gram-negative bacteria are thought to act as flippases, assisting in the membrane translocation of lipopolysaccharides including those containing O-antigens. Proteins from the MATE family are involved in exporting metabolites across the cell membrane and are often responsible for multidrug resistance (MDR). Length = 402

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 45.4 bits (108), Expect = 7e-05
 Identities = 13/108 (12%), Positives = 47/108 (43%), Gaps = 16/108 (14%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIII 123
           +F  K +K+   +  +I+  I+ +I++++ ++       ++    +  +++ +++II ++
Sbjct: 310 KFFAKVNKFGSPVRALILTAILSLILLLLFLLSGAAYNALLSLSAVGYLLVYLLLIIGLL 369

Query: 124 II------------IIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
           I+               + I+ I+ I+ +++ +              Y
Sbjct: 370 ILRKKRPDLPRIKGRWPVAILAILFILFLLVALFFPPGGPSTGSNLNY 417

Length = 425

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 44.8 bits (106), Expect = 8e-05
 Identities = 7/81 (8%), Positives = 38/81 (46%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
            +K  +  +      I++ I ++   I++++ +  ++I+  ++     +++ +  + ++ 
Sbjct: 8   AQKEFQKYLRSKRFYILLAIFLLFAGIVLLLALKYLLILSKLLEGNPFLLLFLSSVSLVF 67

Query: 130 IIIIIIIIIIIIIIIIIIIID 150
              + ++ I++   +I    +
Sbjct: 68  SFFLPLLAILLGADLISSEFE 88

Length = 278

>gnl|CDD|222381 pfam13789, DUF4181, Domain of unknown function (DUF4181)

 Score = 42.3 bits (100), Expect = 8e-05
 Identities = 18/78 (23%), Positives = 37/78 (47%), Gaps = 11/78 (14%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----------III 137
              II++II +II+II I I I   + +  +I + +I++      +           I+ 
Sbjct: 32  KGEIILLIIFLIILIIFIYIFITEYLYMYYLIFLFLILLFAFRAFMEWKYDRESKEYILS 91

Query: 138 IIIIIIIIIIIIDLIFDF 155
           +  + I ++I   +I+ F
Sbjct: 92  LAGLAIFLLITGIMIYFF 109

Length = 109

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 44.5 bits (106), Expect = 8e-05
 Identities = 13/72 (18%), Positives = 37/72 (51%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           KY++I    +   I  + ++ ++  II+ ++ ++     +   I+ +  +I  I + I++
Sbjct: 117 KYVLISQKSLHKYIWYLYLVFVLKDIILFLLYVLSFSKDLSTEILELFYLITFIFLNILL 176

Query: 135 IIIIIIIIIIII 146
            +  ++ I I+I
Sbjct: 177 FLSALLYIPIMI 188

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|218933 pfam06195, DUF996, Protein of unknown function (DUF996)

 Score = 42.6 bits (101), Expect = 8e-05
 Identities = 17/112 (15%), Positives = 48/112 (42%), Gaps = 33/112 (29%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------IIIIIIIIIIIIIII 125
           + Y+   I+ +I  ++ I++++ +  ++ +   +            +  I+  +II+ ++
Sbjct: 28  NNYLYSFILALIGSVVFIVLLVALAGVLPVKGSLGAAANPYLFISPLGSILAGLIILWVL 87

Query: 126 III-------------------------IIIIIIIIIIIIIIIIIIIIIDLI 152
           +II                         ++  I  I++II++ +III++  I
Sbjct: 88  VIISAYFFKKAFEALAEATGVDLFKTAALLYWIGAILLIILVGLIIILVGWI 139

Family of uncharacterized bacterial and archaeal proteins. Length = 139

>gnl|CDD|225146 COG2237, COG2237, Predicted membrane protein [Function unknown]

 Score = 45.0 bits (107), Expect = 8e-05
 Identities = 17/79 (21%), Positives = 34/79 (43%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           +   I   +II   + I  + I    +II  ++      I+ ++ I  +       + ++
Sbjct: 276 TMVGIFFDLIIGGKVRIEYLKISFFYLIIAFLVYGAFGYILELLTIYSLSPEQPSALFLV 335

Query: 134 IIIIIIIIIIIIIIIIDLI 152
             +II +III+ II   L 
Sbjct: 336 AGVIISVIIILAIIYFSLK 354

Length = 364

>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 14/98 (14%), Positives = 52/98 (53%), Gaps = 23/98 (23%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIIIIIIIIIII-- 129
             +++++++ ++ +++I++I+ + +++    + I I +++I++ +++  + + ++     
Sbjct: 133 GALLLLLLLSLLALLLILLILFLSLLLRNSAVAIGIGLLLILLGLLLGSLPLWLLFPWSY 192

Query: 130 ------------------IIIIIIIIIIIIIIIIIIII 149
                              + III +I+I+I+ II +I
Sbjct: 193 LPLIVLLSLSLNGTLLSSGLSIIIALIVILILFIIFLI 230

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 230

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 44.9 bits (106), Expect = 9e-05
 Identities = 12/128 (9%), Positives = 60/128 (46%), Gaps = 32/128 (25%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------------III 113
           + +   Y++  +++I++  ++++++I++I  ++I  ++ ++                   
Sbjct: 23  LLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKLLLRSLLLLKALIRRLARETT 82

Query: 114 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------------IIIDLIFDFTF 157
           + + +  ++ I+I+++ ++I++ ++ + +  ++                ++ +LI     
Sbjct: 83  LSVFLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSNLIAGIFL 142

Query: 158 MYLKEFRV 165
           +  + F+V
Sbjct: 143 LLERPFKV 150

Length = 316

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 22/114 (19%), Positives = 45/114 (39%), Gaps = 28/114 (24%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----III 128
            KYI  + ++ ++  II+ ++ ++     +   I+ +  +I  I + I++ +     I I
Sbjct: 127 HKYIWYLYLVFVLKDIILFLLYVLSFSKDLSTEILELFYLITFIFLNILLFLSALLYIPI 186

Query: 129 II-----------------------IIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
           +I                        I ++I   I I III I  + F   F+ 
Sbjct: 187 MISIRKLSHLASAQLNKPQKYIFWQTITVLIFKSIYIPIIIFIFLIGFLSEFVL 240

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|227100 COG4758, COG4758, Predicted membrane protein [Function unknown]

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 20/93 (21%), Positives = 44/93 (47%), Gaps = 10/93 (10%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------IIIIIII 120
            K+  +  II I + ++II I+I  +    ++ ++ +++  I           II + + 
Sbjct: 2   TKKKIFGFIIAIFLALMIIQIVIETLFFWPLVFLLALLLFRIYTTRSRASVLKIIALFLF 61

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
             I+ +I   ++  ++ II I I + +II  I 
Sbjct: 62  FAIVFLIPFTLLGFLLAIIFIFIGLYLIIKYII 94

Length = 235

>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B

 Score = 43.4 bits (103), Expect = 9e-05
 Identities = 17/101 (16%), Positives = 45/101 (44%), Gaps = 19/101 (18%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------------III 116
            ++ III + I  +I  + + +  I+ + +I +++I I                   +  
Sbjct: 80  TLLSIIIFVGIPFLIKFLDLNLPFILGLFLIGLVLIYIYAPADTEKQPVIPEKLKKKLKK 139

Query: 117 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
             II+ +I+I+I +++       +I++ I++    +   T+
Sbjct: 140 KSIILSLILILISLLVPNEPYKSLILLGILLQSITLLPITY 180

The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. AgrB is involved in the proteolytic processing of AgrD and may have both proteolytic enzyme activity and a transporter facilitating the export of the processed AgrD peptide. Length = 184

>gnl|CDD|225694 COG3152, COG3152, Predicted membrane protein [Function unknown]

 Score = 42.3 bits (100), Expect = 9e-05
 Identities = 10/88 (11%), Positives = 45/88 (51%), Gaps = 10/88 (11%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------- 125
           RS++  +I+  +II +++ ++  I+ + I  +++++  + ++ + +  + + +       
Sbjct: 20  RSEFWYVILFNLIIGVVLFVLAFILGLSIAGVLVLLTALYLLALFLPTLALTVRRLHDRG 79

Query: 126 ---IIIIIIIIIIIIIIIIIIIIIIIID 150
                 ++ +I ++  I+ ++I+   + 
Sbjct: 80  RSGWWALLALIPVVGWIVGLLIVFGCLP 107

Length = 125

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 43.6 bits (103), Expect = 9e-05
 Identities = 11/61 (18%), Positives = 36/61 (59%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
             K  II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ +
Sbjct: 1   SKKSRIISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCL 60

Query: 133 I 133
           +
Sbjct: 61  L 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 43.6 bits (103), Expect = 9e-05
 Identities = 12/61 (19%), Positives = 37/61 (60%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           SK   II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ +
Sbjct: 1   SKKSRIISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCL 60

Query: 134 I 134
           +
Sbjct: 61  L 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 16/135 (11%), Positives = 53/135 (39%), Gaps = 42/135 (31%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIII-------------------IIIIIIII 108
           +++R +  YI++ I ++   I++++ +  ++I+                   +    + +
Sbjct: 14  KYLRSKRFYILLAIFLLFAGIVLLLALKYLLILSKLLEGNPFLLLFLSSVSLVFSFFLPL 73

Query: 109 IIIIIIIIII---------------------III--IIIIIIIIIIIIIIIIIIIIIIII 145
           + I++   +I                     I++   +  +++I+III+I  I ++ +++
Sbjct: 74  LAILLGADLISSEFESGTIKLLLSKPISRSNIVLGKFLGALLVILIIILISFISLLTLLL 133

Query: 146 IIIIDLIFDFTFMYL 160
           +             L
Sbjct: 134 LFGFPGNVSSISRLL 148

Length = 278

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 44.8 bits (106), Expect = 1e-04
 Identities = 18/109 (16%), Positives = 37/109 (33%), Gaps = 21/109 (19%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           R       I  II I+ III++I II+ +         +             I+  I++ 
Sbjct: 151 RGIKASAKINSIITILKIIILLIFIILGLFAFGFSNGNLFAPFNPGGGSFGGILAAILLA 210

Query: 133 II---------------------IIIIIIIIIIIIIIIDLIFDFTFMYL 160
                                  I   II+ ++I++I+ ++     + +
Sbjct: 211 FFAFTGFEAIATLAEEVKNPKRTIPRAIILSLLIVLILYILGALVIVGV 259

Length = 466

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 11/72 (15%), Positives = 47/72 (65%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  +  +
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 153 FDFTFMYLKEFR 164
              + + LK   
Sbjct: 63  LLRSLLLLKALI 74

Length = 316

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 12/64 (18%), Positives = 36/64 (56%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           +      + +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  +I  I+   L 
Sbjct: 385 LFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGSVIAAILPRKLF 444

Query: 153 FDFT 156
             +T
Sbjct: 445 GRWT 448

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 43.7 bits (104), Expect = 1e-04
 Identities = 12/77 (15%), Positives = 38/77 (49%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           I    +I+ +   +  +   +I +III+I +II+ +      ++++  ++++I+  + + 
Sbjct: 103 INFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEPSWHWLLLLPALLLLILFSVGLG 162

Query: 143 IIIIIIIDLIFDFTFMY 159
           +I+  +     D   + 
Sbjct: 163 LILASLGVRFRDLGQIL 179

Length = 263

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 7/71 (9%), Positives = 41/71 (57%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ +  ++
Sbjct: 88  LLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLL 147

Query: 141 IIIIIIIIIDL 151
              + +I+ ++
Sbjct: 148 FFHLYLILKNI 158

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|218173 pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein

 Score = 43.7 bits (104), Expect = 1e-04
 Identities = 8/96 (8%), Positives = 42/96 (43%), Gaps = 11/96 (11%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---- 127
           + S      I   +  ++  + ++++  +  +++++  I + +++ +  I I  ++    
Sbjct: 90  EASSLNGPGIGAALAGLLAWLGVLLLFFVAAVVLLVAKIELALLLALGPIFIAFLLFPAT 149

Query: 128 -------IIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
                  +  ++   ++++++ +I+ I   L   + 
Sbjct: 150 RDMFENWLGQVLSYALLLLLLALIVGIGSGLFDSYL 185

Length = 223

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 8/94 (8%), Positives = 45/94 (47%), Gaps = 17/94 (18%)

Query: 76  YIIIIIIIIIIIIIIII-----------------IIIIIIIIIIIIIIIIIIIIIIIIII 118
            + +I  ++ +++ +++                 II +++ +  +++ ++++++  +++ 
Sbjct: 6   LLALIATLLALVLGLLLGIILARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLLG 65

Query: 119 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
             I+  + +  +I+ +++I     +I    ++ I
Sbjct: 66  WGILPGLGLPALILALLLIAPFARLIRRAALESI 99

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 9/87 (10%), Positives = 46/87 (52%), Gaps = 14/87 (16%)

Query: 77  IIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIIIIIII 122
           +++ +I  ++ +++ +++ II              II +++ +  +++ ++++++  +++
Sbjct: 5   LLLALIATLLALVLGLLLGIILARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLL 64

Query: 123 IIIIIIIIIIIIIIIIIIIIIIIIIII 149
              I+  + +  +I+ +++I     +I
Sbjct: 65  GWGILPGLGLPALILALLLIAPFARLI 91

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 7/66 (10%), Positives = 41/66 (62%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
            + + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++I++++   
Sbjct: 122 GLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILLILLLLAAA 181

Query: 149 IDLIFD 154
           I LI  
Sbjct: 182 ILLILT 187

Length = 322

>gnl|CDD|223843 COG0772, FtsW, Bacterial cell division membrane protein [Cell division and chromosome partitioning]

 Score = 44.9 bits (107), Expect = 1e-04
 Identities = 18/139 (12%), Positives = 59/139 (42%), Gaps = 53/139 (38%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIII---------------------IIIII---- 102
            F+RKRS  I++ +II++++++++     +                     I +I+    
Sbjct: 74  RFLRKRSFAILLYVIILLLLVLVLFFGSSVNGAKRWIALGGLSIQPSEFAKIALILYLAA 133

Query: 103 ---------------IIIIIIIIIIIIIIIII-------IIIIIIIIIIIII------II 134
                           + +I+++ +  ++I++       +++  I++ ++ +       I
Sbjct: 134 YLSRKGDEIKSFLRLFLKLILLVALPALLILLQPDLGTALLLFAILLFMLFLAGLRWRWI 193

Query: 135 IIIIIIIIIIIIIIIDLIF 153
           + ++++ +   +I+I  IF
Sbjct: 194 LALLVLALAGFVILILFIF 212

Length = 381

>gnl|CDD|216883 pfam02118, Srg, Srg family chemoreceptor

 Score = 44.5 bits (106), Expect = 1e-04
 Identities = 18/78 (23%), Positives = 34/78 (43%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           S+Y  +++III II    I  I+I  + +  +     I     +      +  +I  I+I
Sbjct: 121 SRYYKLVLIIIFIIPFSFIWNILISRVYVNPVNGGFSINYEKAVPWASTSLFQLIYFILI 180

Query: 134 IIIIIIIIIIIIIIIIDL 151
           ++  II  I+    +  L
Sbjct: 181 LVFTIITSIVTSYKLAKL 198

Length = 275

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 41.4 bits (98), Expect = 1e-04
 Identities = 12/49 (24%), Positives = 25/49 (51%)

Query: 110 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
             + +I II++I  ++ + +    II II  I+++I ++I L       
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLAKGNRKR 96

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 41.4 bits (98), Expect = 1e-04
 Identities = 13/52 (25%), Positives = 30/52 (57%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 121
            +K  K++   + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 39  EKKLCKFMGNFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221791 pfam12822, DUF3816, Protein of unknown function (DUF3816)

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 12/96 (12%), Positives = 39/96 (40%), Gaps = 9/96 (9%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIII 125
           K +++I ++  + I+++ I    + I    I +++           +I ++  ++  ++ 
Sbjct: 1   KRLVLIALLSALSIVLMYIPFPPLKIDFSHIPVLLGAFLLGPVAGALIGLLTSLLSFLLF 60

Query: 126 IIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
                 ++  +   +  I+  +I  LI+       K
Sbjct: 61  GGGPFALVGPLANFLPRILFGLIAGLIYKKLRKKTK 96

This family of proteins is functionally uncharacterized but are likely to be membrane transporters. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 177 and 208 amino acids in length. A subset of this family is associated with the TM1506 proteins. In this context, transport through the channel is predicted to be regulated by the TM1506 protein by either regulating redox potential or modification of substrates. Length = 168

>gnl|CDD|223648 COG0575, CdsA, CDP-diglyceride synthetase [Lipid metabolism]

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 10/82 (12%), Positives = 40/82 (48%), Gaps = 3/82 (3%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIII 131
           K  +I  I+++I+ ++ +++  +   ++++++ I+ I          ++   +I+ + I 
Sbjct: 3   KQRVITAIVLLILFLLALLVGGLYFALLVLLLAILAILEAYRANRFAVLAGPLILGLPID 62

Query: 132 IIIIIIIIIIIIIIIIIIDLIF 153
           + ++++    ++       L F
Sbjct: 63  LGLVLLDGRRLLGDGKETLLGF 84

Length = 265

>gnl|CDD|237906 PRK15086, PRK15086, ethanolamine utilization protein EutH; Provisional

 Score = 44.5 bits (106), Expect = 1e-04
 Identities = 17/82 (20%), Positives = 38/82 (46%), Gaps = 2/82 (2%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-- 134
           ++  II I I  +I  ++      +I+  +I +II  I++ + +  I   +I   +I   
Sbjct: 144 VLAGIITIPIGCLIGGLVAGFDFALILRNLIPVIIFAILLALGLKFIPEKMIKGFLIFGK 203

Query: 135 IIIIIIIIIIIIIIIDLIFDFT 156
            I+ +I I +   I+  +  + 
Sbjct: 204 FIVALITIGLAAAIVQSLTGWK 225

Length = 372

>gnl|CDD|224826 COG1914, MntH, Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 14/105 (13%), Positives = 46/105 (43%), Gaps = 13/105 (12%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           ++  F+  R       +I     I+  + III+      +++   +++ +I+   +I ++
Sbjct: 312 VMEGFLNWRIPLWRRRLITRTFAIVPGLAIIILFGDPARLLVFSQVLLSVILPFALIPLL 371

Query: 125 III-------------IIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
           ++               + ++  I++I+I+ + II+++  +    
Sbjct: 372 LLTSDKKLMGDYKNPRWLTVLGWIVVILIVALNIILLVGTLGGLL 416

Length = 416

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 7/71 (9%), Positives = 43/71 (60%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 149 IDLIFDFTFMY 159
            ++  +  F++
Sbjct: 74  QNIGTEGQFVF 84

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 9/66 (13%), Positives = 39/66 (59%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           R K I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II
Sbjct: 11  RVKLIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFII 70

Query: 133 IIIIII 138
           ++   I
Sbjct: 71  LLFQNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|144294 pfam00642, zf-CCCH, Zinc finger C-x8-C-x5-C-x3-H type (and similar)

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 10/27 (37%), Positives = 12/27 (44%)

Query: 410 YKSTKCNDVQQAGYCPRGVFCAFAHVD 436
           YK+  C    + G C  G  C FAH  
Sbjct: 1   YKTELCRFFSRTGTCKYGDRCKFAHGQ 27

Length = 27

>gnl|CDD|218334 pfam04932, Wzy_C, O-Antigen ligase

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 9/100 (9%), Positives = 54/100 (54%), Gaps = 10/100 (10%)

Query: 85  IIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           + ++++++ +++      I+ +++ +++++++ +       ++ +++++++++++++  I
Sbjct: 1   LALVLLLLALVLTGSRGAILALLVALLLLLLLRLRRRRKKRLLALLLLVVLLLVVLLAFI 60

Query: 139 IIIIIIIIIIIDLIFDFTFMYLKEFRVEQ----CPLFLQH 174
           I + +++   I  +F  +       R+E       L  +H
Sbjct: 61  IGLSLLLENRILRLFSASADSSSGGRLEIWKSALDLIKEH 100

This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria. This family includes O-antigen ligases such as E. coli RfaL. Length = 152

>gnl|CDD|224735 COG1822, COG1822, Predicted archaeal membrane protein [Function unknown]

 Score = 44.3 bits (105), Expect = 1e-04
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 6/85 (7%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIII 127
           S   III++I  + + +I +I I+ +II    +  I       +       +  II  I 
Sbjct: 7   SPKSIIILLIFFLALALIGVITILSLIIGPFALFFIYGFTGPFVAGKGIRLLRFIIDDIF 66

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLI 152
           +++ ++ I  I+ I ++II  I LI
Sbjct: 67  LLLSLLSIFFILGIQLLIIGAIPLI 91

Length = 349

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 15/85 (17%), Positives = 46/85 (54%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           Y ++++ I ++I  +     + +++ II++++ II   +I++ I +++I I   +  + +
Sbjct: 157 YGLVLLSISLLISSLFSSSSLALLVSIILLLLFIIAFSLILLFISVLLIGIAPTLNTLSL 216

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYL 160
           ++ + ++  +   I L   F+   L
Sbjct: 217 LLPLYLLAELAFTILLQSGFSDSIL 241

Length = 278

>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 13/83 (15%), Positives = 41/83 (49%), Gaps = 2/83 (2%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIII--IIIIIIIIIIIIIIIIIIIIIIIIII 126
             +     I++I I+I+++      +  +  +   +  I  II     I  ++ II   +
Sbjct: 196 LFKNSEAAILVISILILLLSGFFGGLFPLPNMPSFLQWIFSIIPFFAPIDGLLRIIYGDL 255

Query: 127 IIIIIIIIIIIIIIIIIIIIIII 149
             I++ +II+++  ++++++ ++
Sbjct: 256 AEILLSLIILLLFGVVLLLLALL 278

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 278

>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 15/85 (17%), Positives = 43/85 (50%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
            +   + K S+  I++I I+I+++      +  +  +   +  I  II     I  ++ I
Sbjct: 191 ALLGSLFKNSEAAILVISILILLLSGFFGGLFPLPNMPSFLQWIFSIIPFFAPIDGLLRI 250

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIII 149
           I   +  I++ +II+++  ++++++
Sbjct: 251 IYGDLAEILLSLIILLLFGVVLLLL 275

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 278

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 12/88 (13%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------II 121
           S    +    +   ++I +++I++  II+   I   I+ II+ I I            + 
Sbjct: 44  SSDYYLESSPLEANLLIGVLLILLDDIIVFFYIANFILEIILTIKISLLKGKHPEFKKVS 103

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +  I++II I I+ I  II   I++  I
Sbjct: 104 LHKILLIIGIFILPIFSIIDCFILVSKI 131

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|223912 COG0842, COG0842, ABC-type multidrug transport system, permease component [Defense mechanisms]

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 10/111 (9%), Positives = 39/111 (35%), Gaps = 18/111 (16%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------- 113
                 S  +       +  +  I+  +I++ ++   I      +               
Sbjct: 67  GLREGLSGRLYHWSNPSLDYLAFIVPGVILMSVLFSGIFSFSSALFREREFGTLERLLVS 126

Query: 114 ----IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
               + I++  I+  +++  +I  +++++I  ++ +  +  L+     + L
Sbjct: 127 PVSRLFILLGKIVPYLVVASLIAGLVLLVIAFLLGVPFLGSLLLLLLLLLL 177

Length = 286

>gnl|CDD|225153 COG2244, RfbX, Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 9/102 (8%), Positives = 48/102 (47%), Gaps = 13/102 (12%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------IIII 115
            +     +  +  +  ++   + ++++I I  ++ ++++   II ++          I+ 
Sbjct: 276 ALSRAYAEGDRKALKKLLRQSLKLLLLISIPALLGLLLLAPPIITLLFGEKYASAAPILQ 335

Query: 116 IIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIDLIF 153
           ++ +  + + ++ +   ++  +    ++++I +I  +++LI 
Sbjct: 336 LLALAGLFLSLVSLTSSLLQALGKQRLLLLISLISALLNLIL 377

Length = 480

>gnl|CDD|223701 COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 16/85 (18%), Positives = 45/85 (52%), Gaps = 6/85 (7%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           S Y+   +++ +I+ I+  I ++I      +++ ++  ++ +I  I  +I +I  +II +
Sbjct: 206 SGYLRGQVLVALIVGILTGIGLLILGVPYALLLGLLAGLLSLIPYIGPVIGLIPAVIIAL 265

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLI 152
           +       ++++I+ ++I  I   I
Sbjct: 266 LQGGPWGALLVLIVFLVIQQIEGNI 290

Length = 355

>gnl|CDD|148697 pfam07242, DUF1430, Protein of unknown function (DUF1430)

 Score = 41.0 bits (97), Expect = 2e-04
 Identities = 18/90 (20%), Positives = 45/90 (50%), Gaps = 19/90 (21%)

Query: 92  IIIIIIIIIIIIIIIII-------IIIIIII------------IIIIIIIIIIIIIIIII 132
           II++II +++   ++++        I+I  I            +II +I+ +  +I+  I
Sbjct: 1   IILLIISLLLFYQMVLLYFEQNKKKILIKRIHGYSFFKRHKTYLIIQLIVWVFGLILAFI 60

Query: 133 IIIIIIIIIIIIIIIIIDLIFDFTFMYLKE 162
           +    II++ ++++++I+L+        KE
Sbjct: 61  LTKSNIILLFVLVLLLIELLLILLIQMKKE 90

This family represents the C-terminus (approximately 120 residues) of a number of hypothetical bacterial proteins of unknown function. These are possibly membrane proteins involved in immunity. Length = 100

>gnl|CDD|205807 pfam13630, SdpI, SdpI/YhfL protein family

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 10/39 (25%), Positives = 30/39 (76%)

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
            + II  +I++++ ++I+ I+ +I++++I++ +II +I+
Sbjct: 32  KLFIIGGLILLLLGLLILDILFLILLLLILVAVIIPIIY 70

This family of proteins includes the SdpI and YhfL proteins from B. subtilis. The SdpI protein is a multipass integral membrane protein that protects toxin-producing cells from being killed. Killing is mediated by the exported toxic protein SdpC an extracellular protein that induces the synthesis of an immunity protein. Length = 72

>gnl|CDD|223740 COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 11/77 (14%), Positives = 49/77 (63%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIID 150
           I ++I +II+ +++I ++ +++ +++ ++  +++I++  ++++++I++I  ++I  ++  
Sbjct: 3   IAVVINLIILELLLIFLLKLLLRLLLYVLNGLLLILLRKLLLLLLILLIAFLLIAYLVKL 62

Query: 151 LIFDFTFMYLKEFRVEQ 167
           L+     +     R+ +
Sbjct: 63  LLRSLLLLKALIRRLAR 79

Length = 316

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 43.3 bits (103), Expect = 2e-04
 Identities = 18/96 (18%), Positives = 46/96 (47%), Gaps = 16/96 (16%)

Query: 76  YIIIIIIIIIIIIIIIIIIII-----------IIIIIII-----IIIIIIIIIIIIIIII 119
           +++++I+++II ++I    +             ++  I      ++ I   + I +II +
Sbjct: 2   FLLLLIVLLIIYLLIFPFYVYVFKLNRERDKKTLLFPITNHFYKMVKITYFLFIFLIIFL 61

Query: 120 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDF 155
           I+I       II  + ++++ +I+ I+ II  +F  
Sbjct: 62  ILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHL 97

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 10/61 (16%), Positives = 32/61 (52%)

Query: 99  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           +      + +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  +I  I      
Sbjct: 385 LFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGSVIAAILPRKLF 444

Query: 159 Y 159
            
Sbjct: 445 G 445

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207)

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 12/71 (16%), Positives = 39/71 (54%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           + V+K +    +      + +  ++ + I+ +II+I+  I+I +++  ++++ I+++I  
Sbjct: 374 KSVKKEADRKGLFDNYRYLKMGSLLGLSILTLIILILSFILISLVLAALVLLAIVLVIGS 433

Query: 128 IIIIIIIIIII 138
           +I  I+   + 
Sbjct: 434 VIAAILPRKLF 444

This domain, found in various hypothetical bacterial proteins, has no known function. Length = 503

>gnl|CDD|218142 pfam04549, CD47, CD47 transmembrane region

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 22/96 (22%), Positives = 43/96 (44%), Gaps = 4/96 (4%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
            K  K I ++  I + I +I+++   + I      I II + +I + I I+I +  I+  
Sbjct: 26  NKVKKKIYLLYAIGLWITLIVLVGQYLFIPTEYSFINIIGLGLIQLSIFILIFLQYIVFK 85

Query: 131 IIII----IIIIIIIIIIIIIIIDLIFDFTFMYLKE 162
           + I     +I III+ +I  I+  +    +      
Sbjct: 86  LKIKLSYFLIAIIILQVIGYILSVVGLALSLSGCNP 121

This family represents the transmembrane region of CD47 leukocyte antigen. Length = 156

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 10/69 (14%), Positives = 40/69 (57%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ +  L+
Sbjct: 88  LLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLL 147

Query: 153 FDFTFMYLK 161
           F   ++ LK
Sbjct: 148 FFHLYLILK 156

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 7/69 (10%), Positives = 39/69 (56%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ +  ++
Sbjct: 88  LLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLL 147

Query: 139 IIIIIIIII 147
              + +I+ 
Sbjct: 148 FFHLYLILK 156

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 42.1 bits (99), Expect = 2e-04
 Identities = 7/69 (10%), Positives = 39/69 (56%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ +  ++
Sbjct: 88  LLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLL 147

Query: 140 IIIIIIIII 148
              + +I+ 
Sbjct: 148 FFHLYLILK 156

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|235682 PRK06041, PRK06041, flagellar assembly protein J; Reviewed

 Score = 44.1 bits (105), Expect = 2e-04
 Identities = 13/100 (13%), Positives = 38/100 (38%), Gaps = 20/100 (20%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------------------II 117
           + +  II  I+        + + + + + I +  + +I                      
Sbjct: 203 VAVFAIISPILTGTDPTTTLSLSLFLFLFIEVGGVYVIKKRVPKDPLWHTLEIKTKEQKK 262

Query: 118 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
           I  ++II + +  I++++++++  II  I+I  +      
Sbjct: 263 IRKLLIISVPLSAILVLLLLLLGFIIGPILIDKIPLPILI 302

Length = 553

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 7/65 (10%), Positives = 35/65 (53%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           ++  II +++ +  +++ ++++++  +++   I+  + +  +I+ +++I     +I    
Sbjct: 36  LLRRIIDLLLSLPSLVLGLLLVLLFGVLLGWGILPGLGLPALILALLLIAPFARLIRRAA 95

Query: 146 IIIID 150
           +  I 
Sbjct: 96  LESIP 100

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 11/73 (15%), Positives = 39/73 (53%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
            RKR K   ++  II +++ +  +++ ++++++  +++   I+  + +  +I+ +++I  
Sbjct: 27  ARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLLGWGILPGLGLPALILALLLIAP 86

Query: 130 IIIIIIIIIIIII 142
              +I    +  I
Sbjct: 87  FARLIRRAALESI 99

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 10/56 (17%), Positives = 35/56 (62%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ ++
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 40.2 bits (95), Expect = 2e-04
 Identities = 13/58 (22%), Positives = 31/58 (53%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           ++ KY    +   +   + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 33  EKEKYDEKKLCKFMGNFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|223648 COG0575, CdsA, CDP-diglyceride synthetase [Lipid metabolism]

 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 8/82 (9%), Positives = 39/82 (47%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
              +I  I+++I+ ++ +++  +   ++++++ I+ I+         ++   +I+ + I 
Sbjct: 3   KQRVITAIVLLILFLLALLVGGLYFALLVLLLAILAILEAYRANRFAVLAGPLILGLPID 62

Query: 139 IIIIIIIIIIIDLIFDFTFMYL 160
           + ++++    +      T +  
Sbjct: 63  LGLVLLDGRRLLGDGKETLLGF 84

Length = 265

>gnl|CDD|223648 COG0575, CdsA, CDP-diglyceride synthetase [Lipid metabolism]

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 9/84 (10%), Positives = 40/84 (47%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
              +I  I+++I+ ++ +++  +   ++++++ I+ I+         ++   +I+ + I 
Sbjct: 3   KQRVITAIVLLILFLLALLVGGLYFALLVLLLAILAILEAYRANRFAVLAGPLILGLPID 62

Query: 137 IIIIIIIIIIIIIDLIFDFTFMYL 160
           + ++++    ++ D         L
Sbjct: 63  LGLVLLDGRRLLGDGKETLLGFLL 86

Length = 265

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 44.1 bits (105), Expect = 2e-04
 Identities = 11/57 (19%), Positives = 32/57 (56%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           +  I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 170 FTPIGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 44.1 bits (105), Expect = 2e-04
 Identities = 11/65 (16%), Positives = 35/65 (53%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++   +++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVFGGVLLT 232

Query: 150 DLIFD 154
              + 
Sbjct: 233 KEDYK 237

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.7 bits (104), Expect = 2e-04
 Identities = 12/64 (18%), Positives = 35/64 (54%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDL 151
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++   ++  
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVFGGVLLT 232

Query: 152 IFDF 155
             D+
Sbjct: 233 KEDY 236

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|216801 pfam01943, Polysacc_synt, Polysaccharide biosynthesis protein

 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 25/133 (18%), Positives = 58/133 (43%), Gaps = 40/133 (30%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIII----------IIIIIIIIIIIIIIII-------- 113
           K SKYI  +++  +++ +I ++I++I          +I++I+ + I+++  +        
Sbjct: 72  KSSKYISNVLLGKLLLSLIFLLILLIAAFLGLPDLAVILLILALAILLLPGVSQFFSWLF 131

Query: 114 -------IIIIIIIIIIIIIIIIIIIIIII---------------IIIIIIIIIIIIIDL 151
                   I I +II  +  +I++ I + +               +I  II + ++    
Sbjct: 132 QGLEKMKYIAISMIIEKLGSLILVFIAVFLGLDLLAAVLILLIASLIGGIIALAVLRKKF 191

Query: 152 IFDFTFMYLKEFR 164
           +  F F  LK F+
Sbjct: 192 LPRFVFFSLKLFK 204

Members of this family are integral membrane proteins. Many members of the family are implicated in production of polysaccharide. The family includes RfbX part of the O antigen biosynthesis operon. The family includes SpoVB from Bacillus subtilis, which is involved in spore cortex biosynthesis. Length = 272

>gnl|CDD|224671 COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 17/101 (16%), Positives = 46/101 (45%), Gaps = 10/101 (9%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------- 126
              ++ +   I+   +I+ + I +++  +I+  + +   + +II II+ + I        
Sbjct: 9   VPPLLALKPAILTKAVILSLGIGVLVGGLILAFLNLPAHVALIIAIIVALFIARGLGFNY 68

Query: 127 --IIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
             III+I + ++  +  ++I++ I   I  +    +    V
Sbjct: 69  KDIIILIFLGLLGALTALLILLGIGAAIAAWAASGIVPALV 109

Length = 485

>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 15/71 (21%), Positives = 38/71 (53%)

Query: 50  EKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 109
           E +  +  L    KC  C   +  +       ++++ I +++I+ +  I  +  I+II+I
Sbjct: 14  ELLKSLFSLYRPIKCPNCGTKQYLTAKSRKKSVLLVFIPLLLILFLSNIFGLPFILIILI 73

Query: 110 IIIIIIIIIII 120
            II++++I+++
Sbjct: 74  YIILLLLIVLL 84

This small, uncommon, poorly conserved protein is found primarily in the Firmicutes. It features are pair of CxxC motifs separated by about 20 amino acids, followed by a highly hydrophobic region of about 45 amino acids. It has no conserved gene neighborhood, and its function is unknown. Length = 94

>gnl|CDD|219524 pfam07698, 7TM-7TMR_HD, 7TM receptor with intracellular HD hydrolase

 Score = 42.5 bits (101), Expect = 2e-04
 Identities = 10/79 (12%), Positives = 49/79 (62%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           +RKR+K ++++ +I+I+ +++  +I +I I  ++ +    +++ I++   + +++ +++ 
Sbjct: 29  LRKRNKKLLLLSLILILSLLLAKLISLISIPYLVPLAAAPMLLAILLGSRLALVVSVLLA 88

Query: 130 IIIIIIIIIIIIIIIIIII 148
           +++ ++    +  ++  ++
Sbjct: 89  LLLGLMFGNNLEFLLYALL 107

These bacterial 7TM receptor proteins have an intracellular pfam01966. This entry corresponds to the 7 helix transmembrane domain. These proteins also contain an N-terminal extracellular domain. Length = 189

>gnl|CDD|222017 pfam13273, DUF4064, Protein of unknown function (DUF4064)

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 15/75 (20%), Positives = 34/75 (45%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           KR+   ++ +I  I+ I+     ++I I+            ++  I+  +  +   + I 
Sbjct: 1   KRTAEFVLGLIGGILGILFGFFALLIGIMGTAEFKKNEQNSMVETILDALSTLGTGLGIG 60

Query: 132 IIIIIIIIIIIIIII 146
            II+ I+ II  I++
Sbjct: 61  AIILSILGIIGSILV 75

Length = 96

>gnl|CDD|217187 pfam02687, FtsX, FtsX-like permease family

 Score = 40.7 bits (96), Expect = 3e-04
 Identities = 9/94 (9%), Positives = 43/94 (45%), Gaps = 11/94 (11%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIII-----IIIIIII------IIIIIIIIIIIIIIIIII 129
           +++ ++I+++ ++I++ ++ I I      I I+  +      I  ++++  +++ +I  +
Sbjct: 1   LLLSVLILLLALLILLNLLSISISERRREIGILKALGASKKQIFKLLLLEALLLGLIGSL 60

Query: 130 IIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
           + +++  ++  ++   I           +     
Sbjct: 61  LGLLLGFLLAYLLSSAIASFLGFSLPLSIDPIVI 94

This is a family of predicted permeases and hypothetical transmembrane proteins. Buchnera aphidicola lolC has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both lolC and Streptococcus cristatus tptD have been shown to require ATP. This region contains three transmembrane helices. Length = 121

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 15/72 (20%), Positives = 34/72 (47%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           I   III+ I+  +++ + +II I+I            +    +   ++I +++I++  I
Sbjct: 11  ISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLLILLDDI 70

Query: 147 IIIDLIFDFTFM 158
           I+   I +F   
Sbjct: 71  IVFFYIANFILE 82

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 12/86 (13%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------IIII 115
           ++  + S     ++I +++I++  II+   I   I+ II+ I I            + + 
Sbjct: 46  DYYLESSPLEANLLIGVLLILLDDIIVFFYIANFILEIILTIKISLLKGKHPEFKKVSLH 105

Query: 116 IIIIIIIIIIIIIIIIIIIIIIIIII 141
            I++II I I+ I  II   I++  I
Sbjct: 106 KILLIIGIFILPIFSIIDCFILVSKI 131

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|181988 PRK09609, PRK09609, hypothetical protein; Provisional

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 18/81 (22%), Positives = 35/81 (43%), Gaps = 5/81 (6%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----III 131
           II+ I  ++  +     I     I     ++I+II   I++II +I     I     + I
Sbjct: 181 IILFIYFVVGFLDPDFFIQSFSFIKNKRSLMILIISGFILMIIFVIWARFFIKPKRFLTI 240

Query: 132 IIIIIIIIIIIIIIIIIIDLI 152
             I+I   ++  I +I++   
Sbjct: 241 APIVIFSALLEPINVILLSSA 261

Length = 312

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 15/61 (24%), Positives = 36/61 (59%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
           I   I+ ++ + +   III+I  II+I++++ + II +++++  +I+++  I    F   
Sbjct: 78  IFRAILAVLGLGLFNFIIILIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFII 137

Query: 157 F 157
           F
Sbjct: 138 F 138

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 18/98 (18%), Positives = 45/98 (45%), Gaps = 22/98 (22%)

Query: 77  IIIIIIIIIIIIIIII-----------------IIIIIII-----IIIIIIIIIIIIIII 114
             ++++I+++II ++I                  ++  I      ++ I   + I +II 
Sbjct: 1   SFLLLLIVLLIIYLLIFPFYVYVFKLNRERDKKTLLFPITNHFYKMVKITYFLFIFLIIF 60

Query: 115 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           +I+I       II  + ++++ +I+ I+ II  +  L+
Sbjct: 61  LILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLL 98

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 11/66 (16%), Positives = 36/66 (54%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I    +I+ +   +  +   +I +III+I +II+ +      ++++  ++++I+  + + 
Sbjct: 103 INFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEPSWHWLLLLPALLLLILFSVGLG 162

Query: 138 IIIIII 143
           +I+  +
Sbjct: 163 LILASL 168

Length = 263

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 11/66 (16%), Positives = 36/66 (54%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           I    +I+ +   +  +   +I +III+I +II+ +      ++++  ++++I+  + + 
Sbjct: 103 INFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEPSWHWLLLLPALLLLILFSVGLG 162

Query: 140 IIIIII 145
           +I+  +
Sbjct: 163 LILASL 168

Length = 263

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 11/66 (16%), Positives = 36/66 (54%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           I    +I+ +   +  +   +I +III+I +II+ +      ++++  ++++I+  + + 
Sbjct: 103 INFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEPSWHWLLLLPALLLLILFSVGLG 162

Query: 141 IIIIII 146
           +I+  +
Sbjct: 163 LILASL 168

Length = 263

>gnl|CDD|224596 COG1682, TagG, ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 11/66 (16%), Positives = 36/66 (54%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           I    +I+ +   +  +   +I +III+I +II+ +      ++++  ++++I+  + + 
Sbjct: 103 INFPPLILPVARTLSRLFNFLIHLIIILIFLIILGVEPSWHWLLLLPALLLLILFSVGLG 162

Query: 142 IIIIII 147
           +I+  +
Sbjct: 163 LILASL 168

Length = 263

>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 8/68 (11%), Positives = 38/68 (55%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           ++ ++ + + +I+++++    ++ +I  I +   +I+ +   II++++ +  ++ +  ++
Sbjct: 88  LLFLLYLTLYLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLL 147

Query: 146 IIIIDLIF 153
              + LI 
Sbjct: 148 FFHLYLIL 155

This family includes the well known DHHC zinc binding domain as well as three of the four conserved transmembrane regions found in this family of palmitoyltransferase enzymes. Length = 167

>gnl|CDD|223843 COG0772, FtsW, Bacterial cell division membrane protein [Cell division and chromosome partitioning]

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 8/77 (10%), Positives = 38/77 (49%), Gaps = 7/77 (9%)

Query: 91  IIIIIIIIIIIIIIIII-------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
            + +I+++ +  ++I++       +++  I++ ++ +  +    I+ ++++ +   +I+I
Sbjct: 149 FLKLILLVALPALLILLQPDLGTALLLFAILLFMLFLAGLRWRWILALLVLALAGFVILI 208

Query: 144 IIIIIIDLIFDFTFMYL 160
           + I +          +L
Sbjct: 209 LFIFLKPYQKKRVTSFL 225

Length = 381

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 9/72 (12%), Positives = 40/72 (55%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 147 IIIDLIFDFTFM 158
             I     F F 
Sbjct: 74  QNIGTEGQFVFS 85

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|224735 COG1822, COG1822, Predicted archaeal membrane protein [Function unknown]

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 17/77 (22%), Positives = 41/77 (53%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           K  + +  II  I +++ ++ I  I+ I ++II  I +I + I  ++   +  +  ++I 
Sbjct: 53  KGIRLLRFIIDDIFLLLSLLSIFFILGIQLLIIGAIPLIPLAIRPLLNPKLKKLKYVLIF 112

Query: 132 IIIIIIIIIIIIIIIII 148
              ++ +I I++I  +I
Sbjct: 113 SSYLLPLIPIVVISGLI 129

Length = 349

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 11/54 (20%), Positives = 31/54 (57%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 10/55 (18%), Positives = 30/55 (54%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
              + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I  I+++ 
Sbjct: 172 PIGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVF 226

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|216211 pfam00953, Glycos_transf_4, Glycosyl transferase family 4

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 8/96 (8%), Positives = 43/96 (44%), Gaps = 15/96 (15%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------- 123
           + + ++  +  +++I + + +  + +     + + +++ I++ +  I+ +I         
Sbjct: 26  KIRLLLQALAALLLIYLGLGLTSLGLPFGGGLELGLVLSILLTLFAIVGVINAVNFMDGL 85

Query: 124 ------IIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
                 + +I  + + I+ ++   I + ++ + L+ 
Sbjct: 86  DGLAGGVALIAALALAILALLAGDIDLALLSLALLG 121

Length = 158

>gnl|CDD|215869 pfam00344, SecY, SecY translocase

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 10/87 (11%), Positives = 43/87 (49%), Gaps = 12/87 (13%)

Query: 76  YIIIIIIIIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIIIIIIIIII 123
           ++ +++I++ +    + ++ +            I +II   I+  I   II +  ++   
Sbjct: 80  FLNLLLIVLQLTAGTMFLMWLGELITKYGIGNGISLIIFAGIVASIPWAIINLFSLLSSA 139

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIID 150
             ++ I+ ++++++  + +I++++ + 
Sbjct: 140 GGLLSILYLLLLLLATLAVILLVVYLQ 166

Length = 340

>gnl|CDD|223548 COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 13/114 (11%), Positives = 43/114 (37%), Gaps = 19/114 (16%)

Query: 66  VCEFVRKRSKY-------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--- 115
           + E   K  K        + I++ I++  ++   ++    + ++++ ++   +I  +   
Sbjct: 35  IPEDGPKSHKKGTPTMGGLAILLSILLASLLAANLLTNPYVWLVLLGLLGFGLIGFLDDR 94

Query: 116 ---------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
                    +I  +  +++II +  + I  + I + I    +   +    F   
Sbjct: 95  LKLSPKIRGLIQKLKALLLIIALGELPIKFLDIPLGIPFFKLPGPLLFILFAVF 148

Length = 319

>gnl|CDD|234350 TIGR03766, TIGR03766, conserved hypothetical integral membrane protein

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 21/86 (24%), Positives = 43/86 (50%), Gaps = 3/86 (3%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
            II I++  I     I  + + +  I   +I++++I+II +I+III     +      ++
Sbjct: 2   NIIFILLFSITFYFAIQSVNLNLWGISTTLIVLLLILIIFLILIIIYFWKKVKKRYRFLM 61

Query: 133 IIIIIIIIIIIIIIIIIDLIFDFTFM 158
               + II+I I+++I+ LI      
Sbjct: 62  RHKGVTIIVIFILLLILQLILVTALH 87

Models TIGR03110, TIGR03111, and TIGR03112 describe a three-gene system found in several Gram-positive bacteria, where TIGR03110 (XrtG) is distantly related to a putative transpeptidase, exosortase (TIGR02602). This model describes a small clade that correlates by both gene clustering and phyletic pattern, although imperfectly, to the three gene system. Both this narrow clade, and the larger set of full-length homologous integral membrane proteins, have an especially well-conserved region near the C-terminus with an invariant tyrosine. The function is unknown. Length = 483

>gnl|CDD|146748 pfam04276, DUF443, Protein of unknown function (DUF443)

 Score = 41.8 bits (99), Expect = 3e-04
 Identities = 26/106 (24%), Positives = 44/106 (41%), Gaps = 27/106 (25%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIII------------------IIII-----IIIIIII 108
            +S+ +I III II+I+ ++I+ + I                  I +         I+  
Sbjct: 84  IQSEKLINIIICIIVILGVLILRLYINKKLKLKIYNRNKNNKEKIWLRPSFKNFFFILFA 143

Query: 109 IIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIID 150
            I      I+ +   I I    III I  II + +  +I ++ IID
Sbjct: 144 YIFFGGFSILALSGFITIEVQNIIIFIGWIIFLFLFFLINMLSIID 189

Family of uncharacterized proteins. Length = 197

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 40.8 bits (96), Expect = 4e-04
 Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 12/93 (12%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------- 122
           K +       +    +   ++I +++I++  II+   I   I+ II+ I I         
Sbjct: 39  KSNSTSSDYYLESSPLEANLLIGVLLILLDDIIVFFYIANFILEIILTIKISLLKGKHPE 98

Query: 123 ---IIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
              + +  I++II I I+ I  II   I++  I
Sbjct: 99  FKKVSLHKILLIIGIFILPIFSIIDCFILVSKI 131

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|218916 pfam06157, DUF973, Protein of unknown function (DUF973)

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 30/118 (25%), Positives = 52/118 (44%), Gaps = 42/118 (35%)

Query: 77  IIIIIIIIIIIIIIII----------------------IIIIIIIIIIIIIIIIIIIIII 114
           I ++II ++++II  I                      II+II+  +IIII  ++ I+ +
Sbjct: 49  IFLLIIGLVLLIIGFIRLRSGFNILSSTGRDVGIGITGIILIIVGYVIIIIGALLTIVGL 108

Query: 115 IIIIIIIIIIIIIIIIIIIIIIII--------------------IIIIIIIIIIIDLI 152
           + ++  +II+ I  I+ +I  I+I                    I+III II  I  I
Sbjct: 109 LSLVGGVIILFIGGILGLIGYILIGLGIYRIGEIYNENLVKIGGILIIIPIISFIGFI 166

This family consists of several hypothetical archaeal proteins of unknown function. Length = 283

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 15/70 (21%), Positives = 37/70 (52%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIID 150
           I   I+ ++ + +   III+I  II+I++++ + II +++++  +I+++  I      I 
Sbjct: 78  IFRAILAVLGLGLFNFIIILIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFII 137

Query: 151 LIFDFTFMYL 160
               F+    
Sbjct: 138 FNVFFSIGLF 147

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 41.4 bits (98), Expect = 4e-04
 Identities = 16/69 (23%), Positives = 39/69 (56%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           I   I+ ++ + +   III+I  II+I++++ + II +++++  +I+++  I      II
Sbjct: 78  IFRAILAVLGLGLFNFIIILIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFII 137

Query: 149 IDLIFDFTF 157
            ++ F    
Sbjct: 138 FNVFFSIGL 146

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins

 Score = 43.3 bits (103), Expect = 4e-04
 Identities = 14/100 (14%), Positives = 43/100 (43%), Gaps = 15/100 (15%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIII---IIIIII--------IIIIIIIIIII 117
           +   + +   ++      + +I + I I + +    II ++         +++ I+    
Sbjct: 274 YKNDKDELKKLLKKSFKYLFLISLPIAIGLFLFAEPIITLLFGEEYLPAALVLQILAWGF 333

Query: 118 IIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIDLIF 153
           + I +  I   I+  I    + + I++I  ++ +I++L+ 
Sbjct: 334 LFIFLNGIFGSILQAIGKQKLTLKILLIGALLNVILNLLL 373

Escherichia coli Wzx and related proteins from other gram-negative bacteria are thought to act as flippases, assisting in the membrane translocation of lipopolysaccharides including those containing O-antigens. Proteins from the MATE family are involved in exporting metabolites across the cell membrane and are often responsible for multidrug resistance (MDR). Length = 402

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 42.6 bits (101), Expect = 4e-04
 Identities = 12/71 (16%), Positives = 35/71 (49%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           +V    K +   I  + ++ ++  II+ ++ ++     +   I+ +  +I  I + I++ 
Sbjct: 118 YVLISQKSLHKYIWYLYLVFVLKDIILFLLYVLSFSKDLSTEILELFYLITFIFLNILLF 177

Query: 129 IIIIIIIIIII 139
           +  ++ I I+I
Sbjct: 178 LSALLYIPIMI 188

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|233317 TIGR01218, Gpos_tandem_5TM, tandem five-transmembrane protein

 Score = 42.2 bits (100), Expect = 4e-04
 Identities = 18/94 (19%), Positives = 36/94 (38%)

Query: 54  KILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 113
           +I   +   K +         +Y I I        I I+ + I  + + I +  + I   
Sbjct: 113 RIYINKKNKKKLYNRLPNNNKRYKIKIRPTSFKYRIFILFLYIFFLGLSIFLFYLFINNG 172

Query: 114 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
              II++I  II +   ++I ++ I      + I
Sbjct: 173 GENIILVINGIIFLFFFLLINMLPISYKKYKVKI 206

Members of this family of proteins, with average length of 210, have no invariant residues but five predicted transmembrane segments. Strangely, most members occur in groups of consecutive paralogous genes. A striking example is a set of eleven encoded consecutively, head-to-tail, in Staphylococcus aureus strain COL. Length = 208

>gnl|CDD|223551 COG0475, KefB, Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]

 Score = 43.0 bits (102), Expect = 4e-04
 Identities = 7/70 (10%), Positives = 32/70 (45%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
           +I+  ++   I  I+++ I+  +       +  I+ +++ I+  + +++++   +    F
Sbjct: 152 LILGALVFDDIAAILLLAIVPALAGGGSGSVGFILGLLLAILAFLALLLLLGRYLLPPLF 211

Query: 158 MYLKEFRVEQ 167
             + +    +
Sbjct: 212 RRVAKTESSE 221

Length = 397

>gnl|CDD|218142 pfam04549, CD47, CD47 transmembrane region

 Score = 41.1 bits (97), Expect = 4e-04
 Identities = 25/104 (24%), Positives = 50/104 (48%), Gaps = 5/104 (4%)

Query: 55  ILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 114
           +L+ Q  T       V+K+   +  I + I +I+++   + I      I II + +I + 
Sbjct: 13  LLWGQIGTLTFKYNKVKKKIYLLYAIGLWITLIVLVGQYLFIPTEYSFINIIGLGLIQLS 72

Query: 115 IIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIDLIF 153
           I I+I +  I+  + I     +I III+ +I  I+ ++ + L  
Sbjct: 73  IFILIFLQYIVFKLKIKLSYFLIAIIILQVIGYILSVVGLALSL 116

This family represents the transmembrane region of CD47 leukocyte antigen. Length = 156

>gnl|CDD|218173 pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein

 Score = 42.2 bits (100), Expect = 4e-04
 Identities = 8/98 (8%), Positives = 40/98 (40%), Gaps = 17/98 (17%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------- 123
           S     I   +  ++  + ++++  +  +++++  I + +++ +  I I           
Sbjct: 93  SLNGPGIGAALAGLLAWLGVLLLFFVAAVVLLVAKIELALLLALGPIFIAFLLFPATRDM 152

Query: 124 -------IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFD 154
                  ++   ++++++ +I+ I   +    +  + D
Sbjct: 153 FENWLGQVLSYALLLLLLALIVGIGSGLFDSYLAALGD 190

Length = 223

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 7/71 (9%), Positives = 38/71 (53%)

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  +  F  +  
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 161 KEFRVEQCPLF 171
           +    E   +F
Sbjct: 74  QNIGTEGQFVF 84

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|224735 COG1822, COG1822, Predicted archaeal membrane protein [Function unknown]

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 18/85 (21%), Positives = 44/85 (51%)

Query: 67  CEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
             FV  +   ++  II  I +++ ++ I  I+ I ++II  I +I + I  ++   +  +
Sbjct: 47  GPFVAGKGIRLLRFIIDDIFLLLSLLSIFFILGIQLLIIGAIPLIPLAIRPLLNPKLKKL 106

Query: 127 IIIIIIIIIIIIIIIIIIIIIIIDL 151
             ++I    ++ +I I++I  +I +
Sbjct: 107 KYVLIFSSYLLPLIPIVVISGLIPI 131

Length = 349

>gnl|CDD|146748 pfam04276, DUF443, Protein of unknown function (DUF443)

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 26/110 (23%), Positives = 40/110 (36%), Gaps = 21/110 (19%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----------------IIIIIII 112
           +R  + Y  I    +I III II+I+ ++I+ + I                  I +    
Sbjct: 75  LRPLTDYFNIQSEKLINIIICIIVILGVLILRLYINKKLKLKIYNRNKNNKEKIWLRPSF 134

Query: 113 IIIIIIIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIDLIFDFTFM 158
                I+   I      I+ +   I I    III I  II   +F    M
Sbjct: 135 KNFFFILFAYIFFGGFSILALSGFITIEVQNIIIFIGWIIFLFLFFLINM 184

Family of uncharacterized proteins. Length = 197

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 43.2 bits (102), Expect = 4e-04
 Identities = 12/100 (12%), Positives = 52/100 (52%), Gaps = 6/100 (6%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIII 123
           +R+  KY+   ++++ I+++++  ++ +++ ++I  II  +      ++ ++++++++ +
Sbjct: 4   LRRLLKYLKYKLLLLAILLLLLSALLSLLLPLLIGRIIDALLADLGELLELLLLLLLLAL 63

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
           +  ++  +   +   +   I+  +  DL      + L  F
Sbjct: 64  LGGVLRALQSYLGSRLGQKIVADLRRDLFEKLLRLPLSFF 103

Length = 567

>gnl|CDD|225844 COG3307, RfaL, Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]

 Score = 42.9 bits (101), Expect = 4e-04
 Identities = 15/140 (10%), Positives = 59/140 (42%), Gaps = 14/140 (10%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            +   +++ I+   ++  ++  + ++I +++     +  ++ +I+++ + ++++++  ++
Sbjct: 181 LLFPALLLWILGSWLLGTLLAALALLIALLLTGSRSLAALLALILLLALFLVLLLLRRVL 240

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHF-MNQRR 194
           ++ ++  ++ +I+I L+    F  L E  +              R      W   +   +
Sbjct: 241 LLGLLAALLALILIALVGIELFEPL-ELLLA---RLGTDSSLTGRLDI---WEAALEAIK 293

Query: 195 RRPVRKRDGSFNYSPDTYCT 214
            RP       F Y    +  
Sbjct: 294 ERP------IFGYGYGAFWR 307

Length = 424

>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular trafficking and secretion]

 Score = 43.0 bits (102), Expect = 4e-04
 Identities = 13/87 (14%), Positives = 39/87 (44%), Gaps = 14/87 (16%)

Query: 76  YIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIIIIIIII 121
            I   ++II+ +    + ++              I +II   I+  +   I  II  +  
Sbjct: 150 GIFFYLLIILQLTAGTMFLMWLGEQITKRGIGNGISLIIFAGIVASLPSAIFGIIGALPT 209

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIII 148
             + + I+ +++++++ + II +++ +
Sbjct: 210 GALFLSILFLLLLVLLTLAIIFLVVYV 236

Length = 436

>gnl|CDD|222658 pfam14296, O-ag_pol_Wzy, O-antigen polysaccharide polymerase Wzy

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 18/101 (17%), Positives = 42/101 (41%), Gaps = 10/101 (9%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIII----IIIIIIII 121
               Y II+I     I   + +        I+ I+II ++ +++ ++       ++ I+ 
Sbjct: 165 SSLPYFIILIGSFFPIAFCLYLATKPSKKKILFILIIYLLYLLLSLLTGQRGPFVLNILF 224

Query: 122 IIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKE 162
           I+   I+   I  I    + +I I + + L+      Y++ 
Sbjct: 225 ILWYYILRNYISWIGKKELFLIFISVPVLLVLLSFLSYIRG 265

This family includes O-antigen polysaccharide polymerases. These enzymes link O-units via a glycosidic linkage to form a long O-antigen. These enzymes vary in specificity and sequence. Length = 440

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 42.8 bits (101), Expect = 5e-04
 Identities = 13/77 (16%), Positives = 37/77 (48%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           KR+    II+ ++I++I+ I+  ++I+ ++    +        + +  +        III
Sbjct: 231 KRTIPRAIILSLLIVLILYILGALVIVGVLPAGDLAASAPSAPLALAALFGGGNWGAIII 290

Query: 132 IIIIIIIIIIIIIIIII 148
            I+ ++ +   ++  I+
Sbjct: 291 AILALLSLFGSLLAWIL 307

Length = 466

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 3/78 (3%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIII 134
           +II+I++ + + +  I     +IIII++    I      +    +  I+  I       I
Sbjct: 2   LIIVIVLFLFLSLSSIPFSASLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKI 61

Query: 135 IIIIIIIIIIIIIIIDLI 152
            +I++II I+  II  LI
Sbjct: 62  GLILLIIGILFFIINLLI 79

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 9/92 (9%), Positives = 48/92 (52%), Gaps = 2/92 (2%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           Y  + + + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++I+++
Sbjct: 118 YSRLGLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILLILLL 177

Query: 136 IIIII--IIIIIIIIIDLIFDFTFMYLKEFRV 165
           +   I  I+   +   +       + L   R 
Sbjct: 178 LAAAILLILTAFLRRREFKIGRLRLRLPNRRG 209

Length = 322

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 11/56 (19%), Positives = 35/56 (62%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ L+
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 11/61 (18%), Positives = 38/61 (62%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
            K+S+ I II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + ++ +
Sbjct: 1   SKKSRIISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCL 60

Query: 131 I 131
           +
Sbjct: 61  L 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/49 (22%), Positives = 25/49 (51%)

Query: 106 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFD 154
             + +I II++I  ++ + +    II II  I+++I ++I +       
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLAKGNRKR 96

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 96  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 99  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 100 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 102 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 103 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 104 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 39.5 bits (93), Expect = 5e-04
 Identities = 11/43 (25%), Positives = 25/43 (58%)

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
             + +I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 48  NFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|223648 COG0575, CdsA, CDP-diglyceride synthetase [Lipid metabolism]

 Score = 42.3 bits (100), Expect = 5e-04
 Identities = 9/90 (10%), Positives = 41/90 (45%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            I  I+++I+ ++ +++  +   ++++++ I+ I+         ++   +I+ + I + +
Sbjct: 6   VITAIVLLILFLLALLVGGLYFALLVLLLAILAILEAYRANRFAVLAGPLILGLPIDLGL 65

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
           +++    ++      L+       L    +
Sbjct: 66  VLLDGRRLLGDGKETLLGFLLGFLLGLVLL 95

Length = 265

>gnl|CDD|237906 PRK15086, PRK15086, ethanolamine utilization protein EutH; Provisional

 Score = 42.6 bits (101), Expect = 5e-04
 Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 4/83 (4%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIII 132
           II I I  +I  ++      +I+  +I +II  I++ + +      +I   +I    I+ 
Sbjct: 148 IITIPIGCLIGGLVAGFDFALILRNLIPVIIFAILLALGLKFIPEKMIKGFLIFGKFIVA 207

Query: 133 IIIIIIIIIIIIIIIIIDLIFDF 155
           +I I +   I+  +    LI  F
Sbjct: 208 LITIGLAAAIVQSLTGWKLIPGF 230

Length = 372

>gnl|CDD|224826 COG1914, MntH, Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 17/87 (19%), Positives = 45/87 (51%), Gaps = 6/87 (6%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-- 130
           R +Y+  + I++ I+  I  I   I  +  I I + ++  I +II  +I  + ++II+  
Sbjct: 84  RERYLPGLGILLWILAEIAGIATDIAEVAGIAIALNLLFGIPLIIGAVITAVDVLIILLL 143

Query: 131 ----IIIIIIIIIIIIIIIIIIIDLIF 153
               ++  +++I+ ++++I+ +     
Sbjct: 144 KGYRLLERVVLILGLVLVILFVYVAFV 170

Length = 416

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 137 III 139
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 138 III 140
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 139 III 141
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 140 III 142
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 141 III 143
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 142 III 144
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 143 III 145
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 144 III 146
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 145 III 147
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|216994 pfam02361, CbiQ, Cobalt transport protein

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 7/63 (11%), Positives = 38/63 (60%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           +I +++++++ ++    + ++III ++++ ++++ +   +   + + ++  ++  II++ 
Sbjct: 14  LIWLLLLVLLAVLPPGPVGLLIIIALLLLTLLLVGLPRFLARFLRLPLLFPLLGFIILLF 73

Query: 146 III 148
             I
Sbjct: 74  QNI 76

This family consists of various cobalt transport proteins Most of which are found in Cobalamin (Vitamin B12) biosynthesis operons. In Salmonella the cbiN cbiQ (product CbiQ in this family) and cbiO are likely to form an active cobalt transport system. Length = 217

>gnl|CDD|224735 COG1822, COG1822, Predicted archaeal membrane protein [Function unknown]

 Score = 42.4 bits (100), Expect = 5e-04
 Identities = 21/92 (22%), Positives = 46/92 (50%), Gaps = 8/92 (8%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------IIIIIIIIIIII 120
            +R     I +++ ++ I  I+ I ++II  I +I + I          +  ++I    +
Sbjct: 57  LLRFIIDDIFLLLSLLSIFFILGIQLLIIGAIPLIPLAIRPLLNPKLKKLKYVLIFSSYL 116

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           + +I I++I  +I I+  +   II+ I++ LI
Sbjct: 117 LPLIPIVVISGLIPILNYLTRFIILSILLALI 148

Length = 349

>gnl|CDD|238535 cd01115, SLC13_permease, Permease SLC13 (solute carrier 13)

 Score = 42.6 bits (101), Expect = 5e-04
 Identities = 12/62 (19%), Positives = 32/62 (51%)

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           I + ++II ++ +  I  + ++II I+++  +  I  ++ + + I I   ++     +  
Sbjct: 173 IGLPLLIIGLLYLWFIFRLAVLIITIVLLAALAAITGLLPVSVAIAIGAIVLVFGGVLLT 232

Query: 161 KE 162
           KE
Sbjct: 233 KE 234

The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is related to renal and intestinal Na+/sulfate cotransporters and a few putative bacterial permeases. The SLC13-type proteins belong to the ArsB/NhaD superfamily of permeases that translocate sodium and various anions across biological membranes in all three kingdoms of life. A typical ArsB/NhaD permease is composed of 8-13 transmembrane helices. Length = 382

>gnl|CDD|223608 COG0534, NorM, Na+-driven multidrug efflux pump [Defense mechanisms]

 Score = 43.0 bits (102), Expect = 5e-04
 Identities = 8/100 (8%), Positives = 52/100 (52%), Gaps = 11/100 (11%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIII 125
           RK++K ++   +++ +++ +++ I+++     ++ ++     ++ +    + II++    
Sbjct: 89  RKKAKRVLGQGLLLALLLGLLLAILLLFFAEPLLRLLGAPAEVLELAAEYLRIILLGAPF 148

Query: 126 IIIIIIIIIII------IIIIIIIIIIIIIDLIFDFTFMY 159
            ++  ++  I+         + I+++  +++++ ++  ++
Sbjct: 149 ALLSFVLSGILRGLGDTKTPMYILLLGNLLNIVLNYLLIF 188

Length = 455

>gnl|CDD|225965 COG3431, COG3431, Predicted membrane protein [Function unknown]

 Score = 40.7 bits (96), Expect = 5e-04
 Identities = 19/103 (18%), Positives = 54/103 (52%), Gaps = 18/103 (17%)

Query: 66  VCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------- 112
           + + +R   K ++ ++I II I++ ++II + II++I +  +   ++             
Sbjct: 3   IMDALRLFEKLVVKVLIFIIDILLFVLIIGLFIIMLIELFTMFFSLLNPLDFYLVVEDVL 62

Query: 113 -IIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIID 150
            ++I++ +  ++I  +    I + +++   II ++  II+++D
Sbjct: 63  FVLILLELFELLIDYLEEHRISLRLVVEAGIIAVLREIIVVLD 105

Length = 142

>gnl|CDD|204766 pfam11877, DUF3397, Protein of unknown function (DUF3397)

 Score = 39.9 bits (94), Expect = 5e-04
 Identities = 11/93 (11%), Positives = 41/93 (44%), Gaps = 6/93 (6%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           ++   I  ++++ +++ I++    +       +  + +    +II +  I  ++    ++
Sbjct: 1   LLTAAIAFLVLVPLLLFILVKFFRLKRRGWAFLAAVDLATPFLIIAVHFISKVLFTHSLL 60

Query: 133 IIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
             +++ + ++ III +          Y K F++
Sbjct: 61  PYLLLFLSLLAIIITLFQARKKKEIYYRKFFKL 93

This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 114 to 128 amino acids in length. Length = 116

>gnl|CDD|223701 COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]

 Score = 42.2 bits (100), Expect = 6e-04
 Identities = 6/77 (7%), Positives = 43/77 (55%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             ++    ++ +++++++I+++I+++ +++I  +I  I  +I  +  + ++   +  ++ 
Sbjct: 57  LEKRGIPRLLAVLLVLLLILLLIVLLGLLVIPSLIEQIQNLIKNLPGLDLLQARLAKLLE 116

Query: 129 IIIIIIIIIIIIIIIII 145
            + ++   + + +  ++
Sbjct: 117 SLPLLGERLPVSVDALL 133

Length = 355

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 41.3 bits (97), Expect = 6e-04
 Identities = 10/56 (17%), Positives = 33/56 (58%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           II II+II+ +++I   I ++++    +  +I  ++ I ++ + ++++ + +  + 
Sbjct: 6   IISIILIILGLLLIASGIALLVLFGAGLGALISTLLGIALLALGLVLLALGLLCLL 61

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic 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, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|222017 pfam13273, DUF4064, Protein of unknown function (DUF4064)

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 13/70 (18%), Positives = 31/70 (44%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
            ++ +I  I+ I+     ++I I+            ++  I+  +  +   + I  II+ 
Sbjct: 6   FVLGLIGGILGILFGFFALLIGIMGTAEFKKNEQNSMVETILDALSTLGTGLGIGAIILS 65

Query: 138 IIIIIIIIII 147
           I+ II  I++
Sbjct: 66  ILGIIGSILV 75

Length = 96

>gnl|CDD|222017 pfam13273, DUF4064, Protein of unknown function (DUF4064)

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 13/70 (18%), Positives = 31/70 (44%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
            ++ +I  I+ I+     ++I I+            ++  I+  +  +   + I  II+ 
Sbjct: 6   FVLGLIGGILGILFGFFALLIGIMGTAEFKKNEQNSMVETILDALSTLGTGLGIGAIILS 65

Query: 139 IIIIIIIIII 148
           I+ II  I++
Sbjct: 66  ILGIIGSILV 75

Length = 96

>gnl|CDD|222017 pfam13273, DUF4064, Protein of unknown function (DUF4064)

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 13/70 (18%), Positives = 31/70 (44%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
            ++ +I  I+ I+     ++I I+            ++  I+  +  +   + I  II+ 
Sbjct: 6   FVLGLIGGILGILFGFFALLIGIMGTAEFKKNEQNSMVETILDALSTLGTGLGIGAIILS 65

Query: 140 IIIIIIIIII 149
           I+ II  I++
Sbjct: 66  ILGIIGSILV 75

Length = 96

>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular trafficking and secretion]

 Score = 42.6 bits (101), Expect = 6e-04
 Identities = 13/90 (14%), Positives = 39/90 (43%), Gaps = 14/90 (15%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIIIII 119
               I   ++II+ +    + ++              I +II   I+  +   I  II  
Sbjct: 147 GNGGIFFYLLIILQLTAGTMFLMWLGEQITKRGIGNGISLIIFAGIVASLPSAIFGIIGA 206

Query: 120 IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +    + + I+ +++++++ + II +++ +
Sbjct: 207 LPTGALFLSILFLLLLVLLTLAIIFLVVYV 236

Length = 436

>gnl|CDD|222537 pfam14093, DUF4271, Domain of unknown function (DUF4271)

 Score = 41.4 bits (98), Expect = 6e-04
 Identities = 21/138 (15%), Positives = 57/138 (41%), Gaps = 32/138 (23%)

Query: 55  ILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----- 109
            L+LQT     +  ++  R   + +   + +I+  +I   + + I++  I+  +I     
Sbjct: 54  FLFLQTCLLLSLFIYLYLRDFGLELFFSVQLIVFGLIFGGVFLFILLKYILYRLIGWLFF 113

Query: 110 --------------------IIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIIIII 144
                               +++  ++++++        I +II++II+++  I+++   
Sbjct: 114 DKKKIDQWLFSKLSLSSYFGLLLFPLVLLLVYFDSLSFYIAVIILLIILLLGKILLLYKY 173

Query: 145 IIIIIDLIFDFT--FMYL 160
             I    +F F    +YL
Sbjct: 174 YKIFFRKLFSFLYFILYL 191

This family of integral membrane proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 221 and 326 amino acids in length. Length = 207

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 42.5 bits (100), Expect = 7e-04
 Identities = 13/80 (16%), Positives = 37/80 (46%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           V+   + I   II+ ++I++I+ I+  ++I+ ++    +        + +  +       
Sbjct: 227 VKNPKRTIPRAIILSLLIVLILYILGALVIVGVLPAGDLAASAPSAPLALAALFGGGNWG 286

Query: 130 IIIIIIIIIIIIIIIIIIII 149
            III I+ ++ +   ++  I
Sbjct: 287 AIIIAILALLSLFGSLLAWI 306

Length = 466

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 42.3 bits (100), Expect = 7e-04
 Identities = 14/96 (14%), Positives = 37/96 (38%), Gaps = 10/96 (10%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           +  +        +  I+ +     +    ++      ++    +   I I I+II  +I 
Sbjct: 74  KPVAFIAAWFNWLAYILGLASSSSVAAQYLLSAFFPDLVGNTWLTYGIAIAILIIFALIN 133

Query: 131 II----------IIIIIIIIIIIIIIIIIDLIFDFT 156
           I           I+ I+ +++ +I+II++ L+    
Sbjct: 134 IRGIKESAKIQNILGIVKLLLPLILIILLGLVLALG 169

Length = 425

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 6/68 (8%), Positives = 42/68 (61%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           Y +   + + + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++I
Sbjct: 115 YRLYSRLGLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILLI 174

Query: 136 IIIIIIII 143
           ++++   I
Sbjct: 175 LLLLAAAI 182

Length = 322

>gnl|CDD|225146 COG2237, COG2237, Predicted membrane protein [Function unknown]

 Score = 42.3 bits (100), Expect = 7e-04
 Identities = 15/76 (19%), Positives = 34/76 (44%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +II   + I  + I    +II  ++      I+ ++ I  +       + ++  +II +I
Sbjct: 284 LIIGGKVRIEYLKISFFYLIIAFLVYGAFGYILELLTIYSLSPEQPSALFLVAGVIISVI 343

Query: 138 IIIIIIIIIIIIDLIF 153
           II+ II   +  + + 
Sbjct: 344 IILAIIYFSLKSEDLV 359

Length = 364

>gnl|CDD|237906 PRK15086, PRK15086, ethanolamine utilization protein EutH; Provisional

 Score = 42.2 bits (100), Expect = 7e-04
 Identities = 15/76 (19%), Positives = 33/76 (43%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           ++      +I+  +I +II  I++ + +  I   +I   +I    I+ +I I +   I+ 
Sbjct: 160 LVAGFDFALILRNLIPVIIFAILLALGLKFIPEKMIKGFLIFGKFIVALITIGLAAAIVQ 219

Query: 139 IIIIIIIIIIIDLIFD 154
            +    +I   D I  
Sbjct: 220 SLTGWKLIPGFDPIKF 235

Length = 372

>gnl|CDD|222420 pfam13858, DUF4199, Protein of unknown function (DUF4199)

 Score = 40.7 bits (96), Expect = 7e-04
 Identities = 16/93 (17%), Positives = 41/93 (44%), Gaps = 17/93 (18%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------- 123
           KY +I  +I+I++ ++  ++ +  + I  + ++ +++++I I +I   I           
Sbjct: 1   KYGLIFGLILILLWLLSYLLGLHDLHIPTLPLLGLLLLVITIALIYYAIKRYRKKANGGF 60

Query: 124 ------IIIIIIIIIIIIIIIIIIIIIIIIIID 150
                     ++I +I  +I  +   I    ID
Sbjct: 61  ISFGQAFKFGLLISLIAALISTVFQYIYFNFID 93

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 167 and 182 amino acids in length. Length = 162

>gnl|CDD|165276 PHA02972, PHA02972, hypothetical protein; Provisional

 Score = 39.5 bits (92), Expect = 7e-04
 Identities = 32/86 (37%), Positives = 46/86 (53%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I+++  I + II   I +I+  I II+  I II +I+I I I   I+ + I   I  I I
Sbjct: 7   ILLMTSITLAIISSFIAVIMNNINIILAAIFIITLIVIHIRIAFNILFLYIFSCIFDINI 66

Query: 139 IIIIIIIIIIIDLIFDFTFMYLKEFR 164
           IIII + II I     F   Y++E R
Sbjct: 67  IIIIFLGIIFIRKTGKFIINYIREVR 92

Length = 109

>gnl|CDD|224214 COG1295, Rbn, Ribonuclease BN family enzyme [Replication, recombination, and repair]

 Score = 41.9 bits (99), Expect = 7e-04
 Identities = 6/72 (8%), Positives = 37/72 (51%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
            I   ++ +   +  ++ ++  +++ ++  I +  +++   +    ++++I++ + +++ 
Sbjct: 137 FIRRRLLSLFWTLGTLLPLLFALLLSVVGPIALQALLLRFGLPFFDVLVLILLRLRLLVS 196

Query: 148 IIDLIFDFTFMY 159
           ++ L   F  +Y
Sbjct: 197 LLLLTLGFFLLY 208

Length = 303

>gnl|CDD|144205 pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component

 Score = 40.7 bits (96), Expect = 7e-04
 Identities = 11/73 (15%), Positives = 34/73 (46%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           ++    R R    ++  +I ++  +   ++ I++++I I+ I+   I+  II+ ++    
Sbjct: 6   IIAALRRGRRLDRLLRPLIDLLQALPSFVLAILLVVISILSILGHGILPAIILALLGWAG 65

Query: 125 IIIIIIIIIIIII 137
              +I    +  +
Sbjct: 66  YARLIRRAALRSL 78

The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices. Length = 183

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 42.0 bits (98), Expect = 8e-04
 Identities = 6/65 (9%), Positives = 36/65 (55%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            ++ + + +++ +++I  +  ++ + I++  ++I++ +I+ +++ +I  ++       + 
Sbjct: 352 ILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALLVGVIAGLLPARKAAKLD 411

Query: 136 IIIII 140
            I  +
Sbjct: 412 PIEAL 416

Length = 419

>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]

 Score = 42.0 bits (98), Expect = 8e-04
 Identities = 16/97 (16%), Positives = 42/97 (43%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
             I +++ +   I +I +I+  I I  I+++ ++     I I+  +      I++  ++ 
Sbjct: 280 KSIQLLLGVDKAIAVISLIVGAIGIYNILLVSVLERTREIGILKALGATRREILLQFLLE 339

Query: 136 IIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFL 172
            +I+ +I  ++ I+  +     + L         L L
Sbjct: 340 ALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLAL 376

Length = 419

>gnl|CDD|223701 COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]

 Score = 41.9 bits (99), Expect = 8e-04
 Identities = 10/87 (11%), Positives = 47/87 (54%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            VR+  K  I  ++ +++++++I+++I+++ +++I  +I  I  +I  +  + ++   + 
Sbjct: 53  LVRRLEKRGIPRLLAVLLVLLLILLLIVLLGLLVIPSLIEQIQNLIKNLPGLDLLQARLA 112

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIFDF 155
            ++  + ++   + + +  ++  +   
Sbjct: 113 KLLESLPLLGERLPVSVDALLSALLSI 139

Length = 355

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.4 bits (98), Expect = 8e-04
 Identities = 14/59 (23%), Positives = 33/59 (55%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           ++ I   + I +II +I+I       II  + ++++ +I+ I+ II  +  ++I ++ I
Sbjct: 46  MVKITYFLFIFLIIFLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAI 104

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|222193 pfam13520, AA_permease_2, Amino acid permease

 Score = 42.3 bits (100), Expect = 8e-04
 Identities = 15/91 (16%), Positives = 36/91 (39%), Gaps = 11/91 (12%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------- 130
               +  I+ +     +    ++      ++    +   I I I+II  +I I       
Sbjct: 82  WFNWLAYILGLASSSSVAAQYLLSAFFPDLVGNTWLTYGIAIAILIIFALINIRGIKESA 141

Query: 131 ----IIIIIIIIIIIIIIIIIIIDLIFDFTF 157
               I+ I+ +++ +I+II++ + L     F
Sbjct: 142 KIQNILGIVKLLLPLILIILLGLVLALGGGF 172

Length = 425

>gnl|CDD|150710 pfam10066, DUF2304, Uncharacterized conserved protein (DUF2304)

 Score = 39.5 bits (93), Expect = 8e-04
 Identities = 17/89 (19%), Positives = 41/89 (46%), Gaps = 3/89 (3%)

Query: 76  YIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
             I II I++++  I++II+ I    + I  ++  +   I++++  +   I   I  ++ 
Sbjct: 2   EPIQIIAIVVLVAAILVIIVRIRKSRLSISDLLFWLFFWIVVLLFALFPKISGRIANLLG 61

Query: 133 IIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
           I   +  +  + I ++  L+F       K
Sbjct: 62  IGRGLDALFYLGIGLLFYLLFKLYLKIDK 90

Members of this family of hypothetical archaeal proteins have no known function. Length = 115

>gnl|CDD|222964 PHA03042, PHA03042, CD47-like protein; Provisional

 Score = 41.6 bits (98), Expect = 8e-04
 Identities = 28/94 (29%), Positives = 48/94 (51%), Gaps = 10/94 (10%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------II 125
            I I I +I+++   +I +    I + I  II+I + I   I + II+          II
Sbjct: 150 AISIWITLIMLVGQYMIGLNTNYIFVKIQGIILIQVSIFSSIFLQIILYKKIKNSYLLII 209

Query: 126 IIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
           +II+ +I  II  I+II+  I   + I+ + F+Y
Sbjct: 210 VIILKVISYIISFIVIILSFIGCYNSIYGYLFIY 243

Length = 286

>gnl|CDD|224975 COG2064, TadC, Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 41.8 bits (98), Expect = 8e-04
 Identities = 10/93 (10%), Positives = 42/93 (45%), Gaps = 3/93 (3%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           E + + +  +    +  ++ ++   +     +   + ++ + +     + +  I    I 
Sbjct: 228 EALIRLAVRLGSDEVKRVVSLLTQALESGGSLADALRVLSMELSRETRLKLGEIRAGKIG 287

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
           + I++ +I++II +++ ++I+  I+ +     F
Sbjct: 288 VGILLPLILVIIPVLLFVVILPAILGIASSGGF 320

Length = 320

>gnl|CDD|221739 pfam12730, ABC2_membrane_4, ABC-2 family transporter protein

 Score = 41.2 bits (97), Expect = 9e-04
 Identities = 14/75 (18%), Positives = 44/75 (58%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            +  R+  + I I +++I++ +++  + + ++     + +I+++ + +   ++   + II
Sbjct: 156 SLLLRNSAVAIGIGLLLILLGLLLGSLPLWLLFPWSYLPLIVLLSLSLNGTLLSSGLSII 215

Query: 129 IIIIIIIIIIIIIII 143
           I +I+I+I+ II +I
Sbjct: 216 IALIVILILFIIFLI 230

This family is related to the ABC-2 membrane transporter family pfam01061. Length = 230

>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B

 Score = 40.7 bits (96), Expect = 9e-04
 Identities = 18/104 (17%), Positives = 46/104 (44%), Gaps = 24/104 (23%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---------------- 117
              ++  ++ III + I  +I  + + +  I+ + +I +++I I                
Sbjct: 74  KSSLLCTLLSIIIFVGIPFLIKFLDLNLPFILGLFLIGLVLIYIYAPADTEKQPVIPEKL 133

Query: 118 --------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
                   II+ +I+I+I +++       +I++ I++  I L+ 
Sbjct: 134 KKKLKKKSIILSLILILISLLVPNEPYKSLILLGILLQSITLLP 177

The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. AgrB is involved in the proteolytic processing of AgrD and may have both proteolytic enzyme activity and a transporter facilitating the export of the processed AgrD peptide. Length = 184

>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373)

 Score = 41.8 bits (99), Expect = 9e-04
 Identities = 10/80 (12%), Positives = 32/80 (40%), Gaps = 7/80 (8%)

Query: 76  YIIIIIIIIIIIIIIIIII-------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
             +  + +  +I  +  +I         +   I     ++ I +++  +    + I + +
Sbjct: 265 GAVPWLALAALIAFLGKLIDEYLNGRFRLWRYINAPFFVLAIGLVVYGLSGYFLSIELAL 324

Query: 129 IIIIIIIIIIIIIIIIIIII 148
             I  + I I++ I+I ++ 
Sbjct: 325 TSISYLAISIVVGILISLVG 344

Archaeal domain of unknown function. Predicted to be an integral membrane protein with six transmembrane regions. Length = 344

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 11/72 (15%), Positives = 34/72 (47%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
             II+ ++I++I+ I+  ++I+ ++    +        + +  +        III I+ +
Sbjct: 236 RAIILSLLIVLILYILGALVIVGVLPAGDLAASAPSAPLALAALFGGGNWGAIIIAILAL 295

Query: 138 IIIIIIIIIIII 149
           + +   ++  I+
Sbjct: 296 LSLFGSLLAWIL 307

Length = 466

>gnl|CDD|218916 pfam06157, DUF973, Protein of unknown function (DUF973)

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 20/95 (21%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII- 132
           S     + I I  II+II+  +IIII  ++ I+ ++ ++  +II+ I  I+ +I  I+I 
Sbjct: 74  SSTGRDVGIGITGIILIIVGYVIIIIGALLTIVGLLSLVGGVIILFIGGILGLIGYILIG 133

Query: 133 -------------------IIIIIIIIIIIIIIII 148
                              I+III II  I  I+ 
Sbjct: 134 LGIYRIGEIYNENLVKIGGILIIIPIISFIGFILT 168

This family consists of several hypothetical archaeal proteins of unknown function. Length = 283

>gnl|CDD|223701 COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 8/79 (10%), Positives = 43/79 (54%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           ++ +++++++I+++I+++ +++I  +I  I  +I  +  + ++   +  ++  + ++   
Sbjct: 65  LLAVLLVLLLILLLIVLLGLLVIPSLIEQIQNLIKNLPGLDLLQARLAKLLESLPLLGER 124

Query: 145 IIIIIDLIFDFTFMYLKEF 163
           + + +D +       L+  
Sbjct: 125 LPVSVDALLSALLSILQSI 143

Length = 355

>gnl|CDD|220693 pfam10325, 7TM_GPCR_Srz, Serpentine type 7TM GPCR chemoreceptor Srz

 Score = 41.0 bits (97), Expect = 0.001
 Identities = 15/111 (13%), Positives = 50/111 (45%), Gaps = 16/111 (14%)

Query: 64  CMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------------I 107
            ++  F   ++  I  + ++++ +I+ I+ II  +  ++I ++                +
Sbjct: 60  FLILIFFFTKNSIIGFLFLLLLFLILYILYIITQVFHLLIFLLAIQRFLIYFFPSTEKYV 119

Query: 108 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           +I    +   I  + ++ ++  II+ ++ ++     +   I++L +  TF+
Sbjct: 120 LISQKSLHKYIWYLYLVFVLKDIILFLLYVLSFSKDLSTEILELFYLITFI 170

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srz is a solo families amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. The genes encoding Srz appear to be under strong adaptive evolutionary pressure. Length = 266

>gnl|CDD|219520 pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT

 Score = 39.5 bits (93), Expect = 0.001
 Identities = 11/62 (17%), Positives = 36/62 (58%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           KR K I  ++ ++I ++  I+ +++I+++     + + ++  I + +I++  +   + ++
Sbjct: 105 KRRKKISWLVALLIGLLAEILQMLLILLLAKPFDLALELVSTIALPMILVNSLGTALFLL 164

Query: 132 II 133
           II
Sbjct: 165 II 166

This entry represents the transmembrane region of the 5TM-LYT (5TM Receptors of the LytS-YhcK type). Length = 169

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 9/78 (11%), Positives = 33/78 (42%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           S + I   II+ + +  I+  +++     +    ++  +           +++I  I+  
Sbjct: 113 SPWQIFRRIILPLALPPILTGLVLAFARALGEFALVSFLGGGEAPGPGTGLLLIFAILFP 172

Query: 134 IIIIIIIIIIIIIIIIDL 151
             + +   + +I++++ L
Sbjct: 173 GDLGVAAAVALILLLLSL 190

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|233180 TIGR00912, 2A0309, spore germination protein (amino acid permease)

 Score = 41.5 bits (98), Expect = 0.001
 Identities = 23/132 (17%), Positives = 50/132 (37%), Gaps = 32/132 (24%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIII------------------IIII 106
           ++   + K+ K    II  III +++ I+   + I +                   I I 
Sbjct: 200 LLFPLLSKKKKIKKSIIKAIIIGVLLYILTTFVSISVFGGNVTKNLYWPTLELIKLINIG 259

Query: 107 III----IIIIIIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIDLIF 153
             I    +I++   + II + I   + I +  +          I+I+ ++++I  I    
Sbjct: 260 DFIERFELIVMTFWVFIIFVKIAFYLYIAVKGLSKLFKKRKYSILILPVLMVIFSISFFP 319

Query: 154 DFTFMYLKEFRV 165
           D +   L ++  
Sbjct: 320 DSSN-QLFDYLE 330

This model describes spore germination protein GerKB and paralogs from Bacillus subtilis, Clostridium tetani, and other known or predicted endospore-forming members of the Firmicutes (low-GC Gram positive bacteria). Members show some similarity to amino acid permeases [Transport and binding proteins, Amino acids, peptides and amines]. Length = 359

>gnl|CDD|225146 COG2237, COG2237, Predicted membrane protein [Function unknown]

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 15/72 (20%), Positives = 31/72 (43%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
               +II   + I  + I    +II  ++      I+ ++ I  +       + ++  +I
Sbjct: 280 IFFDLIIGGKVRIEYLKISFFYLIIAFLVYGAFGYILELLTIYSLSPEQPSALFLVAGVI 339

Query: 133 IIIIIIIIIIII 144
           I +III+ II  
Sbjct: 340 ISVIIILAIIYF 351

Length = 364

>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 17/93 (18%), Positives = 45/93 (48%), Gaps = 19/93 (20%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------------I 115
           KY + +I+I +I +II+  + +++ + +  +I+ +  + +                   I
Sbjct: 25  KYGLEVILINLIKLIIVYGVALLLGVFLETLIVHLSFLFLRRFAGGAHAKSSLLCTLLSI 84

Query: 116 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           II + I  +I  + + +  I+ + +I +++I I
Sbjct: 85  IIFVGIPFLIKFLDLNLPFILGLFLIGLVLIYI 117

The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. AgrB is involved in the proteolytic processing of AgrD and may have both proteolytic enzyme activity and a transporter facilitating the export of the processed AgrD peptide. Length = 184

>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 16/92 (17%), Positives = 43/92 (46%), Gaps = 10/92 (10%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII----------IIIIIIIIIIIIIIII 126
           III + I  +I  + + +  I+ + +I +++I I          +I   +   +    II
Sbjct: 84  IIIFVGIPFLIKFLDLNLPFILGLFLIGLVLIYIYAPADTEKQPVIPEKLKKKLKKKSII 143

Query: 127 IIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
           + +I+I+I +++       +I++ ++     +
Sbjct: 144 LSLILILISLLVPNEPYKSLILLGILLQSITL 175

The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. AgrB is involved in the proteolytic processing of AgrD and may have both proteolytic enzyme activity and a transporter facilitating the export of the processed AgrD peptide. Length = 184

>gnl|CDD|223548 COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 12/96 (12%), Positives = 40/96 (41%), Gaps = 5/96 (5%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           +  + + +I  +  +++II +  + I  + I + I    +   ++ I+  +  I+     
Sbjct: 97  LSPKIRGLIQKLKALLLIIALGELPIKFLDIPLGIPFFKLPGPLLFILFAVFAIVGASNA 156

Query: 130 IIII-----IIIIIIIIIIIIIIIIDLIFDFTFMYL 160
           + +      +   +  I ++ + +I L+     + L
Sbjct: 157 VNLTDGLDGLAAGLSAIALLALALIALLQGLGELAL 192

Length = 319

>gnl|CDD|146748 pfam04276, DUF443, Protein of unknown function (DUF443)

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 25/104 (24%), Positives = 40/104 (38%), Gaps = 27/104 (25%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIII------------------IIII-----IIIIIIIIII 110
            K I III II+I+ ++I+ + I                  I +         I+   I 
Sbjct: 87  EKLINIIICIIVILGVLILRLYINKKLKLKIYNRNKNNKEKIWLRPSFKNFFFILFAYIF 146

Query: 111 IIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIIID 150
                I+ +   I I    III I  II + +  +I ++ II  
Sbjct: 147 FGGFSILALSGFITIEVQNIIIFIGWIIFLFLFFLINMLSIIDG 190

Family of uncharacterized proteins. Length = 197

>gnl|CDD|223279 COG0201, SecY, Preprotein translocase subunit SecY [Intracellular trafficking and secretion]

 Score = 41.8 bits (99), Expect = 0.001
 Identities = 15/103 (14%), Positives = 42/103 (40%), Gaps = 14/103 (13%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIII--------------IIIIIIIII 110
           +V       S   +    I   ++II+ +    + ++              I +II   I
Sbjct: 133 VVLGGNNGGSPSDVGNGGIFFYLLIILQLTAGTMFLMWLGEQITKRGIGNGISLIIFAGI 192

Query: 111 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
           +  +   I  II  +    + + I+ +++++++ + II  +++
Sbjct: 193 VASLPSAIFGIIGALPTGALFLSILFLLLLVLLTLAIIFLVVY 235

Length = 436

>gnl|CDD|144205 pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 9/80 (11%), Positives = 36/80 (45%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           K I+   +  I+  + +     +   +++  +     + +++I  I+      I   ++ 
Sbjct: 99  KIILPNALPPILTGLALAFGGALGGAVLLEFLGSWPGLGLLLIEAILGYDYPEIQGPVLA 158

Query: 135 IIIIIIIIIIIIIIIDLIFD 154
             +I++++ +++ I+  + D
Sbjct: 159 AALILLLLNLLVDILQRLLD 178

The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices. Length = 183

>gnl|CDD|218835 pfam05975, EcsB, Bacterial ABC transporter protein EcsB

 Score = 41.8 bits (99), Expect = 0.001
 Identities = 13/113 (11%), Positives = 48/113 (42%), Gaps = 32/113 (28%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII-------------- 113
            F+R    Y+ + + + +I  ++II +    +  I+ ++ + +I                
Sbjct: 273 SFLRSGD-YLGLYLRLTLIGGLLIIFLPNGWLSAIVGVLFLYLIGFQLLPLWTHFDYNLW 331

Query: 114 -----------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
                            ++  ++++ +I++ +I++I    ++  ++++I+ I+
Sbjct: 332 TQLYPISEEEKLKALKQLLRRLLLLQLILLSLIVLIASGQLLPALLLLIVGIV 384

This family consists of several bacterial ABC transporter proteins which are homologous to the EcsB protein of Bacillus subtilis. EcsB is thought to encode a hydrophobic protein with six membrane-spanning helices in a pattern found in other hydrophobic components of ABC transporters. Length = 385

>gnl|CDD|215952 pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquinone oxidoreductase chain 6

 Score = 39.5 bits (93), Expect = 0.001
 Identities = 8/90 (8%), Positives = 45/90 (50%), Gaps = 2/90 (2%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--IIIIIIIIIIIIIIIIII 130
            SK  I + + +I++ + + +++ ++    + +I+ ++ +  I+++ + ++ +       
Sbjct: 9   FSKNPIYLGLSLILLSLSLSLLLFLLGSSWLGLILFLVYVGGILVLFLYVVSLSPNEKFK 68

Query: 131 IIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
                  ++++++++ I++     F+ +  
Sbjct: 69  FKKKSKFLLLLLLLLFILLLFFLLFSNLSF 98

Length = 140

>gnl|CDD|215952 pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquinone oxidoreductase chain 6

 Score = 39.5 bits (93), Expect = 0.001
 Identities = 9/75 (12%), Positives = 41/75 (54%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           +F  K+    ++++++++ I+++  ++   +   +  I    + ++ ++     +I I++
Sbjct: 66  KFKFKKKSKFLLLLLLLLFILLLFFLLFSNLSFSLNSISSSNVNLLSLLYSSNSLIFILL 125

Query: 128 IIIIIIIIIIIIIII 142
            ++++I +I +I + 
Sbjct: 126 SLLLLIALIGVIKLA 140

Length = 140

>gnl|CDD|214442 MTH00160, ND2, NADH dehydrogenase subunit 2; Provisional

 Score = 41.3 bits (98), Expect = 0.001
 Identities = 12/81 (14%), Positives = 37/81 (45%), Gaps = 6/81 (7%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIII 128
           K+III ++I   +  ++ I+I+  +I +   + I    +++        +        +I
Sbjct: 255 KWIIIQLLISNNMFFLLFILIMSSLITLYFYLRISYSSLMLNYNKNKWNLKKKKNKFSLI 314

Query: 129 IIIIIIIIIIIIIIIIIIIII 149
           +  +  I +  +I+  ++ ++
Sbjct: 315 LNFLSFISLFGLILSSLLFLL 335

Length = 335

>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters

 Score = 41.5 bits (98), Expect = 0.001
 Identities = 3/78 (3%), Positives = 39/78 (50%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           ++R + + +      +  ++  ++  ++   +    + +I+ I+ +++ ++++ ++ +++
Sbjct: 119 KERGRALGLFSAGFGLGALLGPLLGGLLAESLGWRWLFLILAILGLLLALLLLFLLRLLL 178

Query: 131 IIIIIIIIIIIIIIIIII 148
           ++ +   ++      ++ 
Sbjct: 179 LLALAFFLLSFGYYGLLT 196

MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of substrates including ions, sugar phosphates, drugs, neurotransmitters, nucleosides, amino acids, and peptides. They do so using the electrochemical potential of the transported substrates. Uniporters transport a single substrate, while symporters and antiporters transport two substrates in the same or in opposite directions, respectively, across membranes. MFS proteins are typically 400 to 600 amino acids in length, and the majority contain 12 transmembrane alpha helices (TMs) connected by hydrophilic loops. The N- and C-terminal halves of these proteins display weak similarity and may be the result of a gene duplication/fusion event. Based on kinetic studies and the structures of a few bacterial superfamily members, GlpT (glycerol-3-phosphate transporter), LacY (lactose permease), and EmrD (multidrug transporter), MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement. Bacterial members function primarily for nutrient uptake, and as drug-efflux pumps to confer antibiotic resistance. Some MFS proteins have medical significance in humans such as the glucose transporter Glut4, which is impaired in type II diabetes, and glucose-6-phosphate transporter (G6PT), which causes glycogen storage disease when mutated. Length = 352

>gnl|CDD|233873 TIGR02454, CbiQ_TIGR, cobalt ABC transporter, permease protein CbiQ

 Score = 40.3 bits (95), Expect = 0.001
 Identities = 9/67 (13%), Positives = 38/67 (56%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           R K I  + ++++ +++   I ++I+ I  ++++ +  I + I++  + + I  +++ ++
Sbjct: 4   RVKLISALALLVLAVLLPNPIALLILAIFALLLVGLAGIPLRILLKRLAVPIGFLLVGLL 63

Query: 133 IIIIIII 139
           +++    
Sbjct: 64  LLLFSNG 70

This model represents the permease component of the cobalt-specific ABC transporter. This model finds permeases which are generally next to the other subunits of the complex (CbiN and CbiO) or the cobalamin biosynthesis protein CbiM which is a transmembrane protein which likely interacts with the complex in some manner. In genomes which possess all of these subunits the ATPase is most likely running in the direction of import (for the biosynthesis of coenzyme B12). In other genomes, this subunit may be involved in the export of cobalt and/or other closely related heavy metals [Transport and binding proteins, Cations and iron carrying compounds]. Length = 198

>gnl|CDD|234335 TIGR03732, lanti_perm_MutE, lantibiotic protection ABC transporter permease subunit, MutE/EpiE family

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 19/87 (21%), Positives = 45/87 (51%), Gaps = 1/87 (1%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           I++I I ++I  II+ I +++I  +I    I I   ++  ++I +  +  I + + +   
Sbjct: 90  ILVIAIYLLISCIILFIGLVLIGFVIPPSNISIGQALLASLLIWLTSLWQIPLCLFLARK 149

Query: 137 IIIIIIIIIIIIIDLIFDFTFMYLKEF 163
             + + I++ +++ LIF    +  K F
Sbjct: 150 FGMFVSILVNLVLGLIFG-IVLATKSF 175

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family is largely restricted to gallidermin-family lantibiotic cassettes, but also include orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes. In most species, this subunit is paralogous to an adjacent gene, modeled separately. Length = 241

>gnl|CDD|133466 cd06856, GT_GPT_archaea, UDP-GlcNAc:dolichol-P GlcNAc-1-P transferase (GPT)-like proteins in archaea

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 17/103 (16%), Positives = 44/103 (42%), Gaps = 19/103 (18%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------- 120
           + +  K ++  +  I ++++     +  + I   ++ I+  ++I+ + I           
Sbjct: 63  LSQSEKVLLTALPAIPLLVLKAGNPLTSLPIGGRVLGILYYLLIVPLGITGASNAFNMLA 122

Query: 121 ----------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
                     III++ + II++I      +II +I++   L F
Sbjct: 123 GFNGLEAGMGIIILLALAIILLINGDYDALIIALILVAALLAF 165

Eukaryotic GPT catalyzes the transfer of GlcNAc-1-P from UDP-GlcNAc to dolichol-P to form GlcNAc-P-P-dolichol. The reaction is the first step in the assembly of dolichol-linked oligosaccharide intermediates and is essential for eukaryotic N-linked glycosylation. Evidence for the existence of the N-glycosylation pathway in archaea has emerged and genes responsible for the pathway have been identified. A glycosyl transferase gene Mv1751 in M. voltae encodes for the enzyme that carries out the first step in the pathway, the attachment of GlcNAc to a dolichol lipid carrier in the membrane. A lethal mutation in the alg7 (GPT) gene in Saccharomyces cerevisiae was successfully complemented with Mv1751, the archaea gene, indicating that eukaryotic and archaeal enzymes may use the same substrates and are evolutionarily closer than the bacterial enzyme, which uses a different substrate. Length = 280

>gnl|CDD|220439 pfam09847, DUF2074, Predicted permease (DUF2074)

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 18/115 (15%), Positives = 44/115 (38%), Gaps = 25/115 (21%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIII------IIIIIIIIIIIIIIIIIIIII-------- 117
             SK + + +I + I + ++I+++I      + +  +    I+   I + I         
Sbjct: 335 LLSKLLTMSLIYLAISLTLLILVLIYKGMNALYLFPLFPDPILTSGISLFINYNRLGAET 394

Query: 118 -----------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLK 161
                      I++ I+  II+ I  I+  I+   +  ++     I     ++ K
Sbjct: 395 INLPSFGFLAFIVLFILNGIIVGIAAILSFILSYPLSFLVSTAITIIGALLLWKK 449

This domain, found in various archaeal hypothetical proteins, has no known function. Length = 449

>gnl|CDD|220687 pfam10316, 7TM_GPCR_Srbc, Serpentine type 7TM GPCR chemoreceptor Srbc

 Score = 41.0 bits (97), Expect = 0.001
 Identities = 15/114 (13%), Positives = 38/114 (33%), Gaps = 19/114 (16%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           +     +K+    +      + +     + I ++  I+  I     +  +I  + +    
Sbjct: 30  IFYSKKKKKPDMSLFYFRFALDVFYGFSVSIYLLYYILYSISPEFFVKNLIFYLGLPSSN 89

Query: 125 IIIIIIIIIIII-------------------IIIIIIIIIIIIIDLIFDFTFMY 159
           I  I  I+ ++I                    I   II+I+ I   +F+   ++
Sbjct: 90  IGAIRSILALLISIERVIAVYFPIFYHNYRPKIPNFIILILAISYGLFEQYVLF 143

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srbc is a solo family amongst the superfamilies of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. Length = 272

>gnl|CDD|217005 pfam02378, PTS_EIIC, Phosphotransferase system, EIIC

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 14/101 (13%), Positives = 36/101 (35%), Gaps = 9/101 (8%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---IIIIIIIIIIIIIII- 129
               + II   + +++I  ++ +I   I   +  + +++I+   ++  +II  +  ++  
Sbjct: 150 GPRFVPIITGFVTLLVIGPVLGLIWPAIQGGLNALGLLLILAGSLLGSLIIGFLERLLWP 209

Query: 130 -----IIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRV 165
                  I I   + I     I           +    F V
Sbjct: 210 FGLHGAFIAIAWFLPIGGSNAIANQQAYGAGAHILTGGFDV 250

The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The sugar-specific permease of the PTS consists of three domains (IIA, IIB and IIC). The IIC domain catalyzes the transfer of a phosphoryl group from IIB to the sugar substrate. Length = 313

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 11/75 (14%), Positives = 34/75 (45%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
             II+ ++I++I+ I+  ++I+ ++    +        + +  +        III I+ +
Sbjct: 236 RAIILSLLIVLILYILGALVIVGVLPAGDLAASAPSAPLALAALFGGGNWGAIIIAILAL 295

Query: 142 IIIIIIIIDLIFDFT 156
           + +   ++  I   +
Sbjct: 296 LSLFGSLLAWILAVS 310

Length = 466

>gnl|CDD|223605 COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 11/77 (14%), Positives = 38/77 (49%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           II+ ++I++I+ I+  ++I+ ++    +        + +  +        III I+ ++ 
Sbjct: 238 IILSLLIVLILYILGALVIVGVLPAGDLAASAPSAPLALAALFGGGNWGAIIIAILALLS 297

Query: 137 IIIIIIIIIIIIIDLIF 153
           +   ++  I+ +  +++
Sbjct: 298 LFGSLLAWILAVSRVLY 314

Length = 466

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 39.5 bits (93), Expect = 0.002
 Identities = 13/51 (25%), Positives = 33/51 (64%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 121
           RK+ K   II+++I+++I +I+     I+++I++ I++  I ++ I   ++
Sbjct: 134 RKKLKIKSIIVLLILLVISLILSENYFILLLIVLGILLQSITLLPIGYKLL 184

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 14/69 (20%), Positives = 32/69 (46%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDL 151
           I   III+ I+  +++ + +II I+I            +    +   ++I +++I++ D+
Sbjct: 11  ISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLLILLDDI 70

Query: 152 IFDFTFMYL 160
           I  F     
Sbjct: 71  IVFFYIANF 79

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|219503 pfam07666, MpPF26, M penetrans paralogue family 26

 Score = 38.5 bits (90), Expect = 0.002
 Identities = 14/71 (19%), Positives = 33/71 (46%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           I   III+ I+  +++ + +II I+I            +    +   ++I +++I++  I
Sbjct: 11  ISWTIIILYILATLLLFVSLIIYIVISSKSNSTSSDYYLESSPLEANLLIGVLLILLDDI 70

Query: 149 IDLIFDFTFMY 159
           I   +   F+ 
Sbjct: 71  IVFFYIANFIL 81

These proteins include those ascribed to M penetrans paralogue family 26 in. Length = 133

>gnl|CDD|149215 pfam08006, DUF1700, Protein of unknown function (DUF1700)

 Score = 39.1 bits (92), Expect = 0.002
 Identities = 12/73 (16%), Positives = 42/73 (57%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +I  II+I++++ + II +++++  +I+++  I      II  +   I +  + +++ I+
Sbjct: 97  LIPFIILILLVLSLWIIGLVLLLSPLILLVKGIFGGFFFIIFNVFFSIGLFGLGLLLAIV 156

Query: 137 IIIIIIIIIIIII 149
           +  +  ++  +++
Sbjct: 157 MYYLTKLLYRLLV 169

This family contains many hypothetical bacterial proteins and two putative membrane proteins. Length = 181

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 96  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 99  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 100 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 101 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 102 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 103 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 104 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 106 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 107 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 108 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|220342 pfam09685, Tic20, Tic20-like protein

 Score = 38.3 bits (90), Expect = 0.002
 Identities = 11/41 (26%), Positives = 25/41 (60%)

Query: 109 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           I ++I  +I+ I+  I+  I  +++I++ I+ ++  II  I
Sbjct: 47  ISLLIYTVILGILSFILGFIGFLLLILLWILSLVFTIIAAI 87

Chloroplast function requires the import of nuclear encoded proteins from the cytoplasm across the chloroplast double membrane. This is accomplished by two protein complexes, the Toc complex located at the outer membrane and the Tic complex located at the inner membrane. The Toc complex recognises specific proteins by a cleavable N-terminal sequence and is primarily responsible for translocation through the outer membrane, while the Tic complex translocates the protein through the inner membrane. This entry represents Tic20, a core member of the Tic complex. This protein is deeply embedded in the inner envelope membrane and is thought to function as a protein- conducting component of the Tic complex. This family also includes many proteins of unknown function from non-synthetic organisms. Length = 104

>gnl|CDD|219520 pfam07694, 5TM-5TMR_LYT, 5TMR of 5TMR-LYT

 Score = 39.5 bits (93), Expect = 0.002
 Identities = 9/64 (14%), Positives = 36/64 (56%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           R + +  I  ++ ++I ++  I+ +++I+++     + + ++  I + +I++  +   + 
Sbjct: 103 RLKRRKKISWLVALLIGLLAEILQMLLILLLAKPFDLALELVSTIALPMILVNSLGTALF 162

Query: 131 IIII 134
           ++II
Sbjct: 163 LLII 166

This entry represents the transmembrane region of the 5TM-LYT (5TM Receptors of the LytS-YhcK type). Length = 169

>gnl|CDD|218173 pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein

 Score = 39.8 bits (94), Expect = 0.002
 Identities = 6/116 (5%), Positives = 44/116 (37%), Gaps = 42/116 (36%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------------------ 111
             +  ++  + ++++  +  +++++  I + +++ +                        
Sbjct: 101 AALAGLLAWLGVLLLFFVAAVVLLVAKIELALLLALGPIFIAFLLFPATRDMFENWLGQV 160

Query: 112 ---IIIIIIIIIIIIIII---------------IIIIIIIIIIIIIIIIIIIIIII 149
               ++++++ +I+ I                   +   + I+++ ++++ ++I I
Sbjct: 161 LSYALLLLLLALIVGIGSGLFDSYLAALGDAADPTLGTALAILLLSLVLLFLVIQI 216

Length = 223

>gnl|CDD|235682 PRK06041, PRK06041, flagellar assembly protein J; Reviewed

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 15/102 (14%), Positives = 38/102 (37%), Gaps = 20/102 (19%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------------------III 116
            +  II  I+        + + + + + I +  + +I                      I
Sbjct: 204 AVFAIISPILTGTDPTTTLSLSLFLFLFIEVGGVYVIKKRVPKDPLWHTLEIKTKEQKKI 263

Query: 117 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFM 158
             ++II + +  I++++++++  II  I+I  I L       
Sbjct: 264 RKLLIISVPLSAILVLLLLLLGFIIGPILIDKIPLPILIALP 305

Length = 553

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 39.6 bits (93), Expect = 0.002
 Identities = 7/88 (7%), Positives = 47/88 (53%), Gaps = 9/88 (10%)

Query: 81  IIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           +++ +I  ++ +++ +++ II+         ++  II +++ +  +++ ++++++  +++
Sbjct: 5   LLLALIATLLALVLGLLLGIILARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLL 64

Query: 132 IIIIIIIIIIIIIIIIIIDLIFDFTFMY 159
              I+  + +  +I+ ++ +      + 
Sbjct: 65  GWGILPGLGLPALILALLLIAPFARLIR 92

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 7/85 (8%), Positives = 46/85 (54%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
              +    + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++I++
Sbjct: 117 LYSRLGLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILLILL 176

Query: 129 IIIIIIIIIIIIIIIIIIIIIDLIF 153
           ++   I++I+   +      I  + 
Sbjct: 177 LLAAAILLILTAFLRRREFKIGRLR 201

Length = 322

>gnl|CDD|220689 pfam10318, 7TM_GPCR_Srh, Serpentine type 7TM GPCR chemoreceptor Srh

 Score = 40.6 bits (96), Expect = 0.002
 Identities = 25/139 (17%), Positives = 53/139 (38%), Gaps = 50/139 (35%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIII--------------------------IIIIIII 104
            K+++ + +I   II ++ +I I + I                          + ++   
Sbjct: 123 WKKTRVLYLIFNYIIALLFLIPIYLNIPDQEEAKLKVLKKLPCLPPEFFDEPPVFVLATD 182

Query: 105 IIIIIIIIIIIIIIIIIIIIIIIIIIII------------------------IIIIIIII 140
               +I I+I+I+I+II I+  + + I                         +II + I 
Sbjct: 183 STYFLISIVILILILIIQILFFVFLTIYYLFKSLKSSLSKKTRKLQKKFLIALIIQVSIP 242

Query: 141 IIIIIIIIIDLIFDFTFMY 159
           +I+I+I +I  ++   F Y
Sbjct: 243 LIVILIPLIYFLYSIIFGY 261

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srh is part of the Str superfamily of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. Length = 302

>gnl|CDD|233180 TIGR00912, 2A0309, spore germination protein (amino acid permease)

 Score = 41.1 bits (97), Expect = 0.002
 Identities = 29/138 (21%), Positives = 56/138 (40%), Gaps = 45/138 (32%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIII-------------------------IIIIIIIIIIII 106
            +  +I II+  +III ++ ++I                         ++ I+ I+   +
Sbjct: 33  GQDGWISIILGGLIIIFLLCLMIKIMSKFPEKNFSEILSKYLGKILGRLLSILFILYFFL 92

Query: 107 IIIIIIIIIIIII---------IIIIIIIIIIIIIIII-----------IIIIIIIIIII 146
           I   +I I    I         II+III+III+ I I+            I++II +I+ 
Sbjct: 93  IAAYLIRIFADFIKTYLLPRTPIIVIIILIIIVSIYIVRKGIEVLLRTAEILLIIFLILF 152

Query: 147 IIIDLIFDFTFMYLKEFR 164
           I++ ++       +K   
Sbjct: 153 ILVLILLAPKLGNIKNLL 170

This model describes spore germination protein GerKB and paralogs from Bacillus subtilis, Clostridium tetani, and other known or predicted endospore-forming members of the Firmicutes (low-GC Gram positive bacteria). Members show some similarity to amino acid permeases [Transport and binding proteins, Amino acids, peptides and amines]. Length = 359

>gnl|CDD|218933 pfam06195, DUF996, Protein of unknown function (DUF996)

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 10/64 (15%), Positives = 32/64 (50%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +   I+ +I  ++ I++++ +  ++ +   +       + I  +  I+  +II+ +++II
Sbjct: 31  LYSFILALIGSVVFIVLLVALAGVLPVKGSLGAAANPYLFISPLGSILAGLIILWVLVII 90

Query: 150 DLIF 153
              F
Sbjct: 91  SAYF 94

Family of uncharacterized bacterial and archaeal proteins. Length = 139

>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B

 Score = 39.5 bits (93), Expect = 0.002
 Identities = 16/99 (16%), Positives = 42/99 (42%), Gaps = 24/99 (24%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------------------------IIII 111
             + I  +I  + + +  I+ + +I +++I I                        II+ 
Sbjct: 86  IFVGIPFLIKFLDLNLPFILGLFLIGLVLIYIYAPADTEKQPVIPEKLKKKLKKKSIILS 145

Query: 112 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIID 150
           +I+I+I +++       +I++ I++  I ++ I   + D
Sbjct: 146 LILILISLLVPNEPYKSLILLGILLQSITLLPITYKLED 184

The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. AgrB is involved in the proteolytic processing of AgrD and may have both proteolytic enzyme activity and a transporter facilitating the export of the processed AgrD peptide. Length = 184

>gnl|CDD|221791 pfam12822, DUF3816, Protein of unknown function (DUF3816)

 Score = 39.1 bits (92), Expect = 0.002
 Identities = 13/76 (17%), Positives = 39/76 (51%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           +K  K  ++ II+  I+  ++  ++ + +I+ +    + + I  I+  +   +++ ++  
Sbjct: 93  KKTKKRAVLAIILGTILGTLVATLLNLGLILPLYAKFLGMPISAIVGALFAAVLLPVLPF 152

Query: 131 IIIIIIIIIIIIIIII 146
            +I  II  II+ ++ 
Sbjct: 153 NLIKGIIASIIVYLLY 168

This family of proteins is functionally uncharacterized but are likely to be membrane transporters. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 177 and 208 amino acids in length. A subset of this family is associated with the TM1506 proteins. In this context, transport through the channel is predicted to be regulated by the TM1506 protein by either regulating redox potential or modification of substrates. Length = 168

>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 12/49 (24%), Positives = 31/49 (63%)

Query: 108 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFT 156
             ++++ I +++I+ +  I  +  I+II+I II++++I+++      FT
Sbjct: 44  KSVLLVFIPLLLILFLSNIFGLPFILIILIYIILLLLIVLLTPFFVKFT 92

This small, uncommon, poorly conserved protein is found primarily in the Firmicutes. It features are pair of CxxC motifs separated by about 20 amino acids, followed by a highly hydrophobic region of about 45 amino acids. It has no conserved gene neighborhood, and its function is unknown. Length = 94

>gnl|CDD|219524 pfam07698, 7TM-7TMR_HD, 7TM receptor with intracellular HD hydrolase

 Score = 39.8 bits (94), Expect = 0.002
 Identities = 8/100 (8%), Positives = 52/100 (52%), Gaps = 15/100 (15%)

Query: 76  YIIIIIIIIIIIII---------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 120
             +++++++ ++++               ++++ +I+I+ +++  +I +I I  ++ +  
Sbjct: 7   LFLLVLLLLGVLLLYLRRFRPELRKRNKKLLLLSLILILSLLLAKLISLISIPYLVPLAA 66

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
             +++ I++   + +++ +++ +++ ++     +F    L
Sbjct: 67  APMLLAILLGSRLALVVSVLLALLLGLMFGNNLEFLLYAL 106

These bacterial 7TM receptor proteins have an intracellular pfam01966. This entry corresponds to the 7 helix transmembrane domain. These proteins also contain an N-terminal extracellular domain. Length = 189

>gnl|CDD|219524 pfam07698, 7TM-7TMR_HD, 7TM receptor with intracellular HD hydrolase

 Score = 39.8 bits (94), Expect = 0.002
 Identities = 8/81 (9%), Positives = 46/81 (56%)

Query: 67  CEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
            E  ++  K +++ +I+I+ +++  +I +I I  ++ +    +++ I++   + +++ ++
Sbjct: 27  PELRKRNKKLLLLSLILILSLLLAKLISLISIPYLVPLAAAPMLLAILLGSRLALVVSVL 86

Query: 127 IIIIIIIIIIIIIIIIIIIII 147
           + +++ ++    +  ++  ++
Sbjct: 87  LALLLGLMFGNNLEFLLYALL 107

These bacterial 7TM receptor proteins have an intracellular pfam01966. This entry corresponds to the 7 helix transmembrane domain. These proteins also contain an N-terminal extracellular domain. Length = 189

>gnl|CDD|234350 TIGR03766, TIGR03766, conserved hypothetical integral membrane protein

 Score = 41.1 bits (97), Expect = 0.002
 Identities = 18/91 (19%), Positives = 45/91 (49%), Gaps = 10/91 (10%)

Query: 76  YIIIIIIIIIIIIIIIIII--------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           +I++  I     I  + +         I++++I+II +I+III     +      ++   
Sbjct: 5   FILLFSITFYFAIQSVNLNLWGISTTLIVLLLILIIFLILIIIYFWKKVKKRYRFLMRHK 64

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLI--FDFT 156
            + II+I I+++I+ +I++  +  +  +D  
Sbjct: 65  GVTIIVIFILLLILQLILVTALHPLIGWDAG 95

Models TIGR03110, TIGR03111, and TIGR03112 describe a three-gene system found in several Gram-positive bacteria, where TIGR03110 (XrtG) is distantly related to a putative transpeptidase, exosortase (TIGR02602). This model describes a small clade that correlates by both gene clustering and phyletic pattern, although imperfectly, to the three gene system. Both this narrow clade, and the larger set of full-length homologous integral membrane proteins, have an especially well-conserved region near the C-terminus with an invariant tyrosine. The function is unknown. Length = 483

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 129
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 130
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 84  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 86  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 136
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 87  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 89  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 92  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 93  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 143
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 94  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 145
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 96  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 146
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 97  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|224055 COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

 Score = 41.3 bits (97), Expect = 0.002
 Identities = 4/51 (7%), Positives = 33/51 (64%)

Query: 99  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           +  ++  +++++   I+++I  ++++  +   + +I+++I+ ++ +++ ++
Sbjct: 122 VSNLVSTVLVLVFTSILLLIGSLVLLFSLSWRLALILLLILPLLALVLSLL 172

Length = 567

>gnl|CDD|223608 COG0534, NorM, Na+-driven multidrug efflux pump [Defense mechanisms]

 Score = 41.1 bits (97), Expect = 0.002
 Identities = 13/123 (10%), Positives = 45/123 (36%), Gaps = 32/123 (26%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIII 115
            R+ ++  + + ++I ++I +++++              +I + +I+++I  +      I
Sbjct: 316 ARRAARLALKLSLLIALLIALLLLLFREPIISLFTTDPEVIALAVILLLIAALFQPFDGI 375

Query: 116 ------------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
                             II ++      + +  ++    + +  + I   + LI     
Sbjct: 376 QFVLSGVLRGAGDAKIPFIISLLSYWGFRLPLAYLLGFFFLGLAGVWIGFPLSLILRAIL 435

Query: 158 MYL 160
           + L
Sbjct: 436 LLL 438

Length = 455

>gnl|CDD|144205 pfam00528, BPD_transp_1, Binding-protein-dependent transport system inner membrane component

 Score = 39.6 bits (93), Expect = 0.002
 Identities = 8/77 (10%), Positives = 35/77 (45%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           II+   +  I+  + +     +   +++  +     + +++I  I+      I   ++  
Sbjct: 100 IILPNALPPILTGLALAFGGALGGAVLLEFLGSWPGLGLLLIEAILGYDYPEIQGPVLAA 159

Query: 139 IIIIIIIIIIIDLIFDF 155
            +I++++ +++D++   
Sbjct: 160 ALILLLLNLLVDILQRL 176

The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices. Length = 183

>gnl|CDD|234335 TIGR03732, lanti_perm_MutE, lantibiotic protection ABC transporter permease subunit, MutE/EpiE family

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 16/84 (19%), Positives = 45/84 (53%), Gaps = 7/84 (8%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIIIIIIIIIIIIII 128
            +K ++I I ++I  II+ I +++I  +I    I I   ++  ++I +  +  I + + +
Sbjct: 87  IAKILVIAIYLLISCIILFIGLVLIGFVIPPSNISIGQALLASLLIWLTSLWQIPLCLFL 146

Query: 129 ---IIIIIIIIIIIIIIIIIIIII 149
                + + I++ +++ +I  I++
Sbjct: 147 ARKFGMFVSILVNLVLGLIFGIVL 170

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family is largely restricted to gallidermin-family lantibiotic cassettes, but also include orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes. In most species, this subunit is paralogous to an adjacent gene, modeled separately. Length = 241

>gnl|CDD|224900 COG1989, PulO, Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 9/80 (11%), Positives = 43/80 (53%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
           I    I I   ++ ++  ++ +++ I+     +++I ++++I  ++ + +I +   ++  
Sbjct: 65  ICKSKISIRYPLVELLTGVLFLLLKILPFGWGVLLIGLLVLISFLLALSLIDLDTQLLPD 124

Query: 141 IIIIIIIIIDLIFDFTFMYL 160
           ++ + ++ + L+F    +++
Sbjct: 125 LLTLPLLWLGLLFSLIVIFI 144

Length = 254

>gnl|CDD|224900 COG1989, PulO, Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 8/87 (9%), Positives = 46/87 (52%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 134
             + +++ I+     +++I ++++I  ++ + +I +   ++  ++ + ++ + ++  +I+
Sbjct: 82  GVLFLLLKILPFGWGVLLIGLLVLISFLLALSLIDLDTQLLPDLLTLPLLWLGLLFSLIV 141

Query: 135 IIIIIIIIIIIIIIIDLIFDFTFMYLK 161
           I I ++  ++  ++   +    ++  K
Sbjct: 142 IFIALLDALLGAVVGYGLLALIYLLYK 168

Length = 254

>gnl|CDD|226657 COG4194, COG4194, Predicted membrane protein [General function prediction only]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 15/62 (24%), Positives = 30/62 (48%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
              R R    II +I+   +  +  II  +I++ +    +I  +II II+I +  + + +
Sbjct: 211 RAARFREFLNIIALIVGWFMFSLFAIISAMILLRLNPSGLITHVIIAIILIAVSTLALAL 270

Query: 128 II 129
            I
Sbjct: 271 KI 272

Length = 350

>gnl|CDD|227395 COG5063, CTH1, CCCH-type Zn-finger protein [General function prediction only]

 Score = 40.4 bits (94), Expect = 0.002
 Identities = 39/213 (18%), Positives = 64/213 (30%), Gaps = 45/213 (21%)

Query: 247 YYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLR----PPVYDIKEIQALENPEGDPNSN 302
            YKT M    +     C +      FAH           P Y  + ++   NP   P S 
Sbjct: 112 LYKTEML-RSSTEIPYC-RYPDKNPFAHSKAISSLAQTHPKYKTESLEVFINPGYVPYSK 169

Query: 303 SNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRS 362
                +L                   ++     Q  R P+  +   +      S      
Sbjct: 170 RCCFISL---------------PLTDINLQPLSQ--RKPKSGKNCTSYTLGKESDAHPHD 212

Query: 363 PRTFKYRSTPCPNVKHGDEWGEPANCESGDL---CQYCHTRTEQQF----------HPE- 408
              ++ +    P  K       P  CES      C Y  +  + QF            + 
Sbjct: 213 ELIYQKQEQNKPLYK-----TNPELCESFTRKGTCPYWISGVKCQFACRGHGLNELKSKK 267

Query: 409 ---IYKSTKCNDVQQAGYCPRGVFCAFAHVDTE 438
               +++  C + +++GYCP G+ C F H D  
Sbjct: 268 KKQNFRTEPCINWEKSGYCPYGLRCCFKHGDDS 300

Length = 351

>gnl|CDD|216683 pfam01758, SBF, Sodium Bile acid symporter family

 Score = 39.2 bits (92), Expect = 0.002
 Identities = 12/77 (15%), Positives = 40/77 (51%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           +++  +++ +   +  + +I  ++I +II +I  I+    +        I+ ++  I +I
Sbjct: 109 FLLSGLLLDVGTAVSPLSLIKSVLIYVIIPLIAGILTRYFLPREWFEQRILPVLPPISLI 168

Query: 136 IIIIIIIIIIIIIIDLI 152
            +++ I++I  +  ++I
Sbjct: 169 GLLLTIVVIFSLKGEVI 185

This family consists of Na+/bile acid co-transporters. These transmembrane proteins function in the liver in the uptake of bile acids from portal blood plasma a process mediated by the co-transport of Na+. Also in the family is ARC3 from S. cerevisiae, this is a putative transmembrane protein involved in resistance to arsenic compounds. Length = 188

>gnl|CDD|218853 pfam06011, TRP, Transient receptor potential (TRP) ion channel

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 14/89 (15%), Positives = 42/89 (47%), Gaps = 16/89 (17%)

Query: 77  IIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIII-------IIIII 120
           ++ ++II ++ +I++I            + I I ++  +  ++ +          I+  +
Sbjct: 420 VVGLLIIEVLYLILLIWFRPYMDKRTNALNIAIAVVRFLNALLFLFFSPLFGQSEIVRGV 479

Query: 121 IIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
           + ++I +I   + + ++I+I I  II + 
Sbjct: 480 MGVVIFVINAAVALFLLILIAINTIIALF 508

This family of proteins are transient receptor potential (TRP) ion channels. They are essential for cellular viability and are involved in cell growth and cell wall synthesis. The genes for these proteins are homologous to polycystic kidney disease related ion channel genes. Length = 531

>gnl|CDD|220695 pfam10328, 7TM_GPCR_Srx, Serpentine type 7TM GPCR chemoreceptor Srx

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 17/83 (20%), Positives = 27/83 (32%), Gaps = 22/83 (26%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIII----------------------IIIIIIII 108
           +  S     III  I II III  +    +                       I      
Sbjct: 104 KIFSIKNTKIIITFIWIIAIIISTLFYFPLGCHFYYSPESLTWSFDEDPPCAEIGWYGDF 163

Query: 109 IIIIIIIIIIIIIIIIIIIIIII 131
           +  ++++II  II +I  I +  
Sbjct: 164 LKNLVLVIITNIINVITFIKLRK 186

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type. Srx is part of the Srg superfamily of chemoreceptors. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf'. Length = 275

>gnl|CDD|119394 cd06261, TM_PBP2, Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 10/91 (10%), Positives = 49/91 (53%), Gaps = 9/91 (9%)

Query: 82  IIIIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           +++ +I  ++ +++ +++ II+         ++  II +++ +  +++ ++++++  +++
Sbjct: 5   LLLALIATLLALVLGLLLGIILARKRGKLDRLLRRIIDLLLSLPSLVLGLLLVLLFGVLL 64

Query: 133 IIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
              I+  + +  +I+ + LI  F  +  +  
Sbjct: 65  GWGILPGLGLPALILALLLIAPFARLIRRAA 95

These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others. Length = 190

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 40.1 bits (94), Expect = 0.003
 Identities = 6/80 (7%), Positives = 41/80 (51%)

Query: 95  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFD 154
            + + ++  I+  +++   + ++++ ++I++ + + + + ++++ +++ I++I++ L   
Sbjct: 122 GLSVALVSRILAFLLLTFGLGLLLLFLLILLFVPLKLALFLLLLTLLLRILLILLLLAAA 181

Query: 155 FTFMYLKEFRVEQCPLFLQH 174
              +     R  +  +    
Sbjct: 182 ILLILTAFLRRREFKIGRLR 201

Length = 322

>gnl|CDD|223469 COG0392, COG0392, Predicted integral membrane protein [Function unknown]

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 5/70 (7%), Positives = 34/70 (48%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
                I  I+ ++ +++ I+++ I++ +  + +  ++  +  I +  +++  ++ ++   
Sbjct: 8   GIRSIIKKILGLLAVLLAIVLLFILLRLFGLDLKEVLAALKGINLTWLLLAFLLYLLSYA 67

Query: 132 IIIIIIIIII 141
           ++ +     +
Sbjct: 68  LLTLYDRTAL 77

Length = 322

>gnl|CDD|233180 TIGR00912, 2A0309, spore germination protein (amino acid permease)

 Score = 40.3 bits (95), Expect = 0.003
 Identities = 17/90 (18%), Positives = 39/90 (43%), Gaps = 14/90 (15%)

Query: 73  RSKYIIIIIIIIIIIIIIIIIIII--------------IIIIIIIIIIIIIIIIIIIIII 118
           R + I++   + II + I   + I               I+I+ ++++I  I        
Sbjct: 264 RFELIVMTFWVFIIFVKIAFYLYIAVKGLSKLFKKRKYSILILPVLMVIFSISFFPDSSN 323

Query: 119 IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 148
            +   +  + II I+  +++ +I+ II+ I
Sbjct: 324 QLFDYLEFLPIIAIVFFLLLPLILFIIVKI 353

This model describes spore germination protein GerKB and paralogs from Bacillus subtilis, Clostridium tetani, and other known or predicted endospore-forming members of the Firmicutes (low-GC Gram positive bacteria). Members show some similarity to amino acid permeases [Transport and binding proteins, Amino acids, peptides and amines]. Length = 359

>gnl|CDD|225694 COG3152, COG3152, Predicted membrane protein [Function unknown]

 Score = 38.0 bits (89), Expect = 0.003
 Identities = 10/86 (11%), Positives = 42/86 (48%), Gaps = 10/86 (11%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII------- 123
           R    Y+I+  +II +++ ++  I+ + I  +++++  + ++ + +  + + +       
Sbjct: 20  RSEFWYVILFNLIIGVVLFVLAFILGLSIAGVLVLLTALYLLALFLPTLALTVRRLHDRG 79

Query: 124 ---IIIIIIIIIIIIIIIIIIIIIII 146
                 ++ +I ++  I+ ++I+   
Sbjct: 80  RSGWWALLALIPVVGWIVGLLIVFGC 105

Length = 125

>gnl|CDD|221690 pfam12650, DUF3784, Domain of unknown function (DUF3784)

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 13/49 (26%), Positives = 28/49 (57%)

Query: 66  VCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 114
           +C+F+      I II++I  ++ + +    II II  I+++I ++I + 
Sbjct: 42  LCKFMGNFMFLIGIILLIGALLSLFLSKYFIIAIIAFIVLLIFLVIYLA 90

This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 96 and 110 amino acids in length. Length = 96

>gnl|CDD|221791 pfam12822, DUF3816, Protein of unknown function (DUF3816)

 Score = 38.7 bits (91), Expect = 0.003
 Identities = 14/84 (16%), Positives = 45/84 (53%)

Query: 64  CMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
            ++ + +RK++K   ++ II+  I+  ++  ++ + +I+ +    + + I  I+  +   
Sbjct: 85  GLIYKKLRKKTKKRAVLAIILGTILGTLVATLLNLGLILPLYAKFLGMPISAIVGALFAA 144

Query: 124 IIIIIIIIIIIIIIIIIIIIIIII 147
           +++ ++   +I  II  II+ ++ 
Sbjct: 145 VLLPVLPFNLIKGIIASIIVYLLY 168

This family of proteins is functionally uncharacterized but are likely to be membrane transporters. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 177 and 208 amino acids in length. A subset of this family is associated with the TM1506 proteins. In this context, transport through the channel is predicted to be regulated by the TM1506 protein by either regulating redox potential or modification of substrates. Length = 168

>gnl|CDD|234471 TIGR04104, cxxc_20_cxxc, cxxc_20_cxxc protein

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 12/51 (23%), Positives = 31/51 (60%)

Query: 112 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKE 162
             ++++ I +++I+ +  I  +  I+II+I II++++I L+  F   +  +
Sbjct: 44  KSVLLVFIPLLLILFLSNIFGLPFILIILIYIILLLLIVLLTPFFVKFTDK 94

This small, uncommon, poorly conserved protein is found primarily in the Firmicutes. It features are pair of CxxC motifs separated by about 20 amino acids, followed by a highly hydrophobic region of about 45 amino acids. It has no conserved gene neighborhood, and its function is unknown. Length = 94

>gnl|CDD|223548 COG0472, Rfe, UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]

 Score = 39.9 bits (94), Expect = 0.003
 Identities = 10/81 (12%), Positives = 34/81 (41%), Gaps = 12/81 (14%)

Query: 76  YIIIIIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 123
           Y+ ++++ ++   +I  +            +I  +  +++II +  + I  + I + I  
Sbjct: 74  YVWLVLLGLLGFGLIGFLDDRLKLSPKIRGLIQKLKALLLIIALGELPIKFLDIPLGIPF 133

Query: 124 IIIIIIIIIIIIIIIIIIIII 144
             +   ++ I+  +  I+   
Sbjct: 134 FKLPGPLLFILFAVFAIVGAS 154

Length = 319

>gnl|CDD|224975 COG2064, TadC, Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 40.2 bits (94), Expect = 0.003
 Identities = 8/81 (9%), Positives = 35/81 (43%)

Query: 78  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 137
           +    +  ++ ++   +     +   + ++ + +     + +  I    I + I++ +I+
Sbjct: 237 LGSDEVKRVVSLLTQALESGGSLADALRVLSMELSRETRLKLGEIRAGKIGVGILLPLIL 296

Query: 138 IIIIIIIIIIIIDLIFDFTFM 158
           +II +++ ++I+  I      
Sbjct: 297 VIIPVLLFVVILPAILGIASS 317

Length = 320

>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373)

 Score = 40.3 bits (95), Expect = 0.003
 Identities = 9/54 (16%), Positives = 26/54 (48%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
            +  +YI     ++ I +++  +    + I + +  I  + I I++ I+I ++ 
Sbjct: 291 FRLWRYINAPFFVLAIGLVVYGLSGYFLSIELALTSISYLAISIVVGILISLVG 344

Archaeal domain of unknown function. Predicted to be an integral membrane protein with six transmembrane regions. Length = 344

>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373)

 Score = 39.9 bits (94), Expect = 0.003
 Identities = 10/74 (13%), Positives = 32/74 (43%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           ++ +  +I  +  +I   +     +   I     ++ I +++  +    + I + +  I 
Sbjct: 269 WLALAALIAFLGKLIDEYLNGRFRLWRYINAPFFVLAIGLVVYGLSGYFLSIELALTSIS 328

Query: 136 IIIIIIIIIIIIII 149
            + I I++ I+I +
Sbjct: 329 YLAISIVVGILISL 342

Archaeal domain of unknown function. Predicted to be an integral membrane protein with six transmembrane regions. Length = 344

>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373)

 Score = 39.9 bits (94), Expect = 0.003
 Identities = 15/108 (13%), Positives = 41/108 (37%), Gaps = 8/108 (7%)

Query: 57  YLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 116
           +L+   K +       R  +I  ++ II+I+I II   + +  +  I    +    +   
Sbjct: 207 FLRELLKRVRESLYEGRITFITYVVSIILILIGIIYGYLSLEKLSAISAGGVAATFLNGA 266

Query: 117 IIIIIIIIIIIIIIIII--------IIIIIIIIIIIIIIIIDLIFDFT 156
           +  + +  +I  +  +I         +   I     ++ I  +++  +
Sbjct: 267 VPWLALAALIAFLGKLIDEYLNGRFRLWRYINAPFFVLAIGLVVYGLS 314

Archaeal domain of unknown function. Predicted to be an integral membrane protein with six transmembrane regions. Length = 344

>gnl|CDD|219625 pfam07895, DUF1673, Protein of unknown function (DUF1673)

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 15/100 (15%), Positives = 48/100 (48%), Gaps = 9/100 (9%)

Query: 70  VRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII---III 126
           +RKRS  +++  I + +   ++I  + I ++ ++  + + +++ +      +I    +  
Sbjct: 52  LRKRSNRLLLASIFLTLAYFLVISQLGINLLFLLAGLFLSLLLYLFTWKKQMIRYDALAK 111

Query: 127 IIII------IIIIIIIIIIIIIIIIIIIDLIFDFTFMYL 160
             +I       I+  +++II+++I++++        F  L
Sbjct: 112 KPVIRYSNKKKIVRSLLVIILLLILLLLFLYYILGHFESL 151

This family contains hypothetical proteins of unknown function expressed by two archaeal species. Length = 204

>gnl|CDD|217647 pfam03631, Virul_fac_BrkB, Virulence factor BrkB

 Score = 39.9 bits (94), Expect = 0.003
 Identities = 5/70 (7%), Positives = 41/70 (58%)

Query: 90  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 149
            +   ++ + + +++ +++++ +++ + +  ++  +I+++ + + I +++ ++  ++ ++
Sbjct: 107 FLRRRLLSLGLTLLLGLLLLLSLLLSVFLPSLLGFLILLLGLGLEIAVLLQLLRWLLSLL 166

Query: 150 DLIFDFTFMY 159
            L   F  +Y
Sbjct: 167 LLFLLFALLY 176

This family acts as a virulence factor. In Bordetella pertussis, brkB is essential for resistance to complement-dependent killing by serum. This family was originally predicted to be ribonuclease BN, but this prediction has since been shown to be incorrect. Length = 255

>gnl|CDD|214793 smart00730, PSN, Presenilin, signal peptide peptidase, family

 Score = 39.5 bits (93), Expect = 0.003
 Identities = 14/85 (16%), Positives = 42/85 (49%)

Query: 72  KRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 131
           K  KY++I+++I    + ++ +  ++  + +  +    ++I+++   ++    I      
Sbjct: 26  KFFKYLVIVLVIYFSSLGVLFLYSLLYPLEVFRVDYPTLLILLLNFAVVGFWCIHRKGAW 85

Query: 132 IIIIIIIIIIIIIIIIIIDLIFDFT 156
           I   +I I + + I+ I+ L  ++T
Sbjct: 86  IQQDLIGISLCMAILFILRLPSEWT 110

Presenilin 1 and presenilin 2 are polytopic membrane proteins, whose genes are mutated in some individuals with Alzheimer's disease. Distant homologues, present in eukaryotes and archaea, also contain conserved aspartic acid residues which are predicted to contribute to catalysis. At least one member of this family has been shown to possess signal peptide peptidase activity. Length = 249

>gnl|CDD|119348 cd06550, TM_ABC_iron-siderophores_like, Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+

 Score = 39.8 bits (94), Expect = 0.003
 Identities = 8/82 (9%), Positives = 36/82 (43%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            + +++ +++ I +    +        + I ++++++     +    +I+I I++     
Sbjct: 39  LLGVVLALLLGIGLSNYALGAFAFAGALAIALLVLLLASRGGLSPSKLILIGIVLSAFFS 98

Query: 136 IIIIIIIIIIIIIIDLIFDFTF 157
             +I+I ++    +  +  + F
Sbjct: 99  AGVILISLLSDDSLQDLNIWLF 120

PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The TMs are bundles of alpha helices that transverse the cytoplasmic membrane multiple times. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Each TM has a prominent cytoplasmic loop which contacts an ABC and represents a conserved motif. The two TMs form either a homodimer (e.g. in the case of the BtuC subunits of the Escherichia coli BtuCD vitamin B12 transporter), a heterodimer (e.g. the TroC and TroD subunits of the Treponema pallidum general transition metal transporter, TroBCD), or a pseudo-heterodimer (e.g. the FhuB protein of the E. coli ferrichrome transporter, FhuBC). FhuB contains two tandem TMs which associate to form the pseudo-heterodimer. Both FhuB TMs are found in this hierarchy. Length = 261

>gnl|CDD|119348 cd06550, TM_ABC_iron-siderophores_like, Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+

 Score = 39.5 bits (93), Expect = 0.003
 Identities = 12/110 (10%), Positives = 44/110 (40%), Gaps = 18/110 (16%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
                S Y +        + I ++++++     +    +I+I I++       +I+I ++
Sbjct: 48  LGIGLSNYALGAFAFAGALAIALLVLLLASRGGLSPSKLILIGIVLSAFFSAGVILISLL 107

Query: 129 IIIII------------------IIIIIIIIIIIIIIIIDLIFDFTFMYL 160
               +                  ++I++II+++++++++ L      +  
Sbjct: 108 SDDSLQDLNIWLFGSILGVTWEDLLILLIILLLVLLLLLLLSRKLNLLTF 157

PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The TMs are bundles of alpha helices that transverse the cytoplasmic membrane multiple times. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Each TM has a prominent cytoplasmic loop which contacts an ABC and represents a conserved motif. The two TMs form either a homodimer (e.g. in the case of the BtuC subunits of the Escherichia coli BtuCD vitamin B12 transporter), a heterodimer (e.g. the TroC and TroD subunits of the Treponema pallidum general transition metal transporter, TroBCD), or a pseudo-heterodimer (e.g. the FhuB protein of the E. coli ferrichrome transporter, FhuBC). FhuB contains two tandem TMs which associate to form the pseudo-heterodimer. Both FhuB TMs are found in this hierarchy. Length = 261

>gnl|CDD|224185 COG1266, COG1266, Predicted metal-dependent membrane protease [General function prediction only]

 Score = 39.5 bits (92), Expect = 0.003
 Identities = 6/98 (6%), Positives = 50/98 (51%), Gaps = 20/98 (20%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII- 134
             ++++++++ + +I +  ++  + ++ ++    +  I+++++ +++I ++  + + ++ 
Sbjct: 44  LALLLVLLLLALFLIALAFLLGFLKLLGLLRKGGLAWILLLLLGLLLIPLLFSLFLSLLS 103

Query: 135 -----------------IIIIIIIIIIIIIII--DLIF 153
                             +++  ++++I+  +  +L+F
Sbjct: 104 VGLLLNQLPLLLTLAVLWLLLFFLVLLILAPLAEELLF 141

Length = 226

>gnl|CDD|227053 COG4709, COG4709, Predicted membrane protein [Function unknown]

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 19/96 (19%), Positives = 43/96 (44%), Gaps = 6/96 (6%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
              +II + ++I +I+ +I I++  + +I     ++   I+  +I+ +  + +I   I  
Sbjct: 90  LLAVIIGLPLLIGVILFVIAILVAALTLIFSGWALVAAGILGGVILGVESLFLIGSSISA 149

Query: 134 IIIII------IIIIIIIIIIIDLIFDFTFMYLKEF 163
             I I      + + I+I  I+      T  Y+K  
Sbjct: 150 FFIGIGSLLLGLGLGIVIFAIVKYASRLTGKYIKWH 185

Length = 195

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 20/106 (18%), Positives = 50/106 (47%), Gaps = 17/106 (16%)

Query: 65  MVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 124
           ++       S  +++ II++++ II   +I++ I +++I I   +  + +++ + ++  +
Sbjct: 167 LISSLFSSSSLALLVSIILLLLFIIAFSLILLFISVLLIGIAPTLNTLSLLLPLYLLAEL 226

Query: 125 IIII-----------------IIIIIIIIIIIIIIIIIIIIIDLIF 153
              I                 ++    I+I+II I+I + I  LIF
Sbjct: 227 AFTILLQSGFSDSILTLNESLLLAWFNILILIIYILIFLSIAYLIF 272

Length = 278

>gnl|CDD|224196 COG1277, NosY, ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 12/83 (14%), Positives = 42/83 (50%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
            ++ I ++I  +     + +++ II++++ II   +I++ I +++I I   +  + +++ 
Sbjct: 160 VLLSISLLISSLFSSSSLALLVSIILLLLFIIAFSLILLFISVLLIGIAPTLNTLSLLLP 219

Query: 136 IIIIIIIIIIIIIIDLIFDFTFM 158
           + ++  +   I++     D    
Sbjct: 220 LYLLAELAFTILLQSGFSDSILT 242

Length = 278

>gnl|CDD|212032 cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain

 Score = 39.8 bits (94), Expect = 0.004
 Identities = 17/94 (18%), Positives = 37/94 (39%), Gaps = 21/94 (22%)

Query: 77  IIIIIIIIIIIIIIIIIIIIIIIIII------------------IIIIIIIIIIIIIIII 118
           I     +I   + ++++ +     +                    + I+  IIIII +I 
Sbjct: 68  ISAGWYVIGAALGLLLLALFFAPRLRRLGVKTIPETLLERYYSKGVRILSAIIIIIFLIG 127

Query: 119 IIIIIII---IIIIIIIIIIIIIIIIIIIIIIII 149
            +   +I   II+  ++ I      II+ +I+I+
Sbjct: 128 YLAAQLIGGGIILSTLLGIPYWTGAIILAVIVIL 161

This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease. Length = 455

>gnl|CDD|147012 pfam04647, AgrB, Accessory gene regulator B

 Score = 38.7 bits (91), Expect = 0.004
 Identities = 11/52 (21%), Positives = 32/52 (61%)

Query: 71  RKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 122
            ++   I  II+++I+++I +I+     I+++I++ I++  I ++ I   ++
Sbjct: 133 LRKKLKIKSIIVLLILLVISLILSENYFILLLIVLGILLQSITLLPIGYKLL 184

The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein. Length = 185

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 15/59 (25%), Positives = 27/59 (45%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 132
           S  III++    I      +    +  I+  I       I +I++II I+  II ++I+
Sbjct: 22  SLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKIGLILLIIGILFFIINLLIV 80

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 16/61 (26%), Positives = 29/61 (47%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 133
           S  +IIII++    I      +    +  I+  I       I +I++II I+  II ++I
Sbjct: 20  SASLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKIGLILLIIGILFFIINLLI 79

Query: 134 I 134
           +
Sbjct: 80  V 80

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 17/75 (22%), Positives = 35/75 (46%)

Query: 80  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 139
           +II+I++ + + +  I     +IIII++    I      +    +  I+  I       I
Sbjct: 2   LIIVIVLFLFLSLSSIPFSASLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKI 61

Query: 140 IIIIIIIIIIDLIFD 154
            +I++II I+  I +
Sbjct: 62  GLILLIIGILFFIIN 76

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|216774 pfam01901, DUF70, Protein of unknown function DUF70

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 15/65 (23%), Positives = 29/65 (44%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
            +   +  IIII++    I      +    +  I+  I       I +I++II I+  II
Sbjct: 16  SIPFSASLIIIILLGFFSIFFGSGYLKGSKLGKILKKIKYKKSEKIGLILLIIGILFFII 75

Query: 129 IIIII 133
            ++I+
Sbjct: 76  NLLIV 80

Archaebacterial proteins of unknown function. Members of this family may be transmembrane proteins. Length = 331

>gnl|CDD|233180 TIGR00912, 2A0309, spore germination protein (amino acid permease)

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 19/136 (13%), Positives = 53/136 (38%), Gaps = 26/136 (19%)

Query: 64  CMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIII--------------IIII 109
            +V + +    +   I++II +I+ I+++I++   +  I  +                 +
Sbjct: 128 YIVRKGIEVLLRTAEILLIIFLILFILVLILLAPKLGNIKNLLPVLENGLSPILKGAYPV 187

Query: 110 IIIIIIIIIIIIII------------IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTF 157
           +      I I  ++             II  III +++ I+   + I +   ++  +  +
Sbjct: 188 VTFAFGEIEIFFLLFPLLSKKKKIKKSIIKAIIIGVLLYILTTFVSISVFGGNVTKNLYW 247

Query: 158 MYLKEFRVEQCPLFLQ 173
             L+  ++     F++
Sbjct: 248 PTLELIKLINIGDFIE 263

This model describes spore germination protein GerKB and paralogs from Bacillus subtilis, Clostridium tetani, and other known or predicted endospore-forming members of the Firmicutes (low-GC Gram positive bacteria). Members show some similarity to amino acid permeases [Transport and binding proteins, Amino acids, peptides and amines]. Length = 359

>gnl|CDD|225146 COG2237, COG2237, Predicted membrane protein [Function unknown]

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 15/73 (20%), Positives = 32/73 (43%)

Query: 81  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 140
            I   +II   + I  + I    +II  ++      I+ ++ I  +       + ++  +
Sbjct: 279 GIFFDLIIGGKVRIEYLKISFFYLIIAFLVYGAFGYILELLTIYSLSPEQPSALFLVAGV 338

Query: 141 IIIIIIIIIDLIF 153
           II +III+  + F
Sbjct: 339 IISVIIILAIIYF 351

Length = 364

>gnl|CDD|217911 pfam04123, DUF373, Domain of unknown function (DUF373)

 Score = 39.5 bits (93), Expect = 0.004
 Identities = 10/74 (13%), Positives = 31/74 (41%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
             +  +I  +  +I   +     +   I     ++ I +++  +    + I + +  I  
Sbjct: 270 LALAALIAFLGKLIDEYLNGRFRLWRYINAPFFVLAIGLVVYGLSGYFLSIELALTSISY 329

Query: 136 IIIIIIIIIIIIII 149
           + I I++ I+I ++
Sbjct: 330 LAISIVVGILISLV 343

Archaeal domain of unknown function. Predicted to be an integral membrane protein with six transmembrane regions. Length = 344

>gnl|CDD|215952 pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquinone oxidoreductase chain 6

 Score = 38.0 bits (89), Expect = 0.004
 Identities = 9/76 (11%), Positives = 41/76 (53%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           E  + + K   ++++++++ I+++  ++   +   +  I    + ++ ++     +I I+
Sbjct: 65  EKFKFKKKSKFLLLLLLLLFILLLFFLLFSNLSFSLNSISSSNVNLLSLLYSSNSLIFIL 124

Query: 128 IIIIIIIIIIIIIIII 143
           + ++++I +I +I + 
Sbjct: 125 LSLLLLIALIGVIKLA 140

Length = 140

>gnl|CDD|215952 pfam00499, Oxidored_q3, NADH-ubiquinone/plastoquinone oxidoreductase chain 6

 Score = 38.0 bits (89), Expect = 0.004
 Identities = 7/108 (6%), Positives = 50/108 (46%), Gaps = 5/108 (4%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII--IIIIIIIIIIII---I 123
            +  ++   + + +I++ + + +++ ++    + +I+ ++ +  I+++ + ++ +     
Sbjct: 7   VLFSKNPIYLGLSLILLSLSLSLLLFLLGSSWLGLILFLVYVGGILVLFLYVVSLSPNEK 66

Query: 124 IIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLF 171
                    ++++++++ I+++  ++     F+   +    V    L 
Sbjct: 67  FKFKKKSKFLLLLLLLLFILLLFFLLFSNLSFSLNSISSSNVNLLSLL 114

Length = 140

>gnl|CDD|233873 TIGR02454, CbiQ_TIGR, cobalt ABC transporter, permease protein CbiQ

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 7/76 (9%), Positives = 40/76 (52%)

Query: 83  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 142
           +I  + ++++ +++   I ++I+ I  ++++ +  I + I++  + + I  +++ +++++
Sbjct: 7   LISALALLVLAVLLPNPIALLILAIFALLLVGLAGIPLRILLKRLAVPIGFLLVGLLLLL 66

Query: 143 IIIIIIIDLIFDFTFM 158
                  + +     +
Sbjct: 67  FSNGTPGEPLLVLGPL 82

This model represents the permease component of the cobalt-specific ABC transporter. This model finds permeases which are generally next to the other subunits of the complex (CbiN and CbiO) or the cobalamin biosynthesis protein CbiM which is a transmembrane protein which likely interacts with the complex in some manner. In genomes which possess all of these subunits the ATPase is most likely running in the direction of import (for the biosynthesis of coenzyme B12). In other genomes, this subunit may be involved in the export of cobalt and/or other closely related heavy metals [Transport and binding proteins, Cations and iron carrying compounds]. Length = 198

>gnl|CDD|119348 cd06550, TM_ABC_iron-siderophores_like, Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+

 Score = 39.5 bits (93), Expect = 0.004
 Identities = 10/79 (12%), Positives = 36/79 (45%)

Query: 82  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 141
             ++ +++ +++ I +    +        + I ++++++     +    +I+I I++   
Sbjct: 37  GALLGVVLALLLGIGLSNYALGAFAFAGALAIALLVLLLASRGGLSPSKLILIGIVLSAF 96

Query: 142 IIIIIIIIDLIFDFTFMYL 160
               +I+I L+ D +   L
Sbjct: 97  FSAGVILISLLSDDSLQDL 115

PBP-dependent ABC transporters consist of a PBP, two TMs, and two cytoplasmic ABCs, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The TMs are bundles of alpha helices that transverse the cytoplasmic membrane multiple times. The two ABCs bind and hydrolyze ATP and drive the transport reaction. Each TM has a prominent cytoplasmic loop which contacts an ABC and represents a conserved motif. The two TMs form either a homodimer (e.g. in the case of the BtuC subunits of the Escherichia coli BtuCD vitamin B12 transporter), a heterodimer (e.g. the TroC and TroD subunits of the Treponema pallidum general transition metal transporter, TroBCD), or a pseudo-heterodimer (e.g. the FhuB protein of the E. coli ferrichrome transporter, FhuBC). FhuB contains two tandem TMs which associate to form the pseudo-heterodimer. Both FhuB TMs are found in this hierarchy. Length = 261

>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

 Score = 40.3 bits (95), Expect = 0.004
 Identities = 10/55 (18%), Positives = 29/55 (52%)

Query: 98  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLI 152
           I+ +II ++  +I + ++ +    + +I++  I + ++I +I   ++      LI
Sbjct: 271 ILTLIIDLLFALIFLAVMFLYSWKLTLIVLAAIPLNVLITLIFQPLLRRKTRKLI 325

Length = 709

>gnl|CDD|227621 COG5305, COG5305, Predicted membrane protein [Function unknown]

 Score = 40.1 bits (94), Expect = 0.004
 Identities = 17/108 (15%), Positives = 39/108 (36%), Gaps = 1/108 (0%)

Query: 31  NSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIII 90
           NS  +     I        + ++ I  L  A               +   I  +   +  
Sbjct: 266 NSFRVGIPDLITLDGIVG-QLINPIYPLIAAWLLAFSLLFFDLLHGLDFPINGVARFLYP 324

Query: 91  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I + II+I+  +  +       I++ I+ +II   + +I+  ++ + I
Sbjct: 325 IWLAIILILGALYTLCRATERKILLFILTLIIAPALPLILSDLVSVFI 372

Length = 552

>gnl|CDD|215733 pfam00122, E1-E2_ATPase, E1-E2 ATPase

 Score = 39.1 bits (92), Expect = 0.004
 Identities = 6/49 (12%), Positives = 21/49 (42%)

Query: 69  FVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 117
             R   K   I++ I++ + I++ +I        +  ++  + +++   
Sbjct: 140 LQRLLDKLAKILVPIVLALAILVFLIWFFRGGDFLEALLRALAVLVAAC 188

Length = 222

>gnl|CDD|219372 pfam07314, DUF1461, Protein of unknown function (DUF1461)

 Score = 38.3 bits (90), Expect = 0.004
 Identities = 14/62 (22%), Positives = 37/62 (59%), Gaps = 9/62 (14%)

Query: 102 IIIIIIIIIIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIIIDLIFD-- 154
           + ++  ++  I++++ ++I + ++       +++   II++I+ +II +I +ID  FD  
Sbjct: 91  LFLLGYLVFNILLLLALLIFLYLLKKKKKWKLLLKTSIILLILPLIIGLIALID--FDKF 148

Query: 155 FT 156
           FT
Sbjct: 149 FT 150

This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long. These are possibly integral membrane proteins. Length = 180

>gnl|CDD|219372 pfam07314, DUF1461, Protein of unknown function (DUF1461)

 Score = 38.3 bits (90), Expect = 0.004
 Identities = 10/55 (18%), Positives = 33/55 (60%), Gaps = 5/55 (9%)

Query: 75  KYIIIIIIIIIIIIIIIIIIIIIIIIII-----IIIIIIIIIIIIIIIIIIIIII 124
           K + ++  ++  I++++ ++I + ++       +++   II++I+ +II +I +I
Sbjct: 89  KNLFLLGYLVFNILLLLALLIFLYLLKKKKKWKLLLKTSIILLILPLIIGLIALI 143

This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long. These are possibly integral membrane proteins. Length = 180

>gnl|CDD|233138 TIGR00813, sss, transporter, SSS family

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 16/103 (15%), Positives = 48/103 (46%), Gaps = 12/103 (11%)

Query: 68  EFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           E++ KR    I+  + ++ +I+ I + + + +    ++I +I  + + + ++++  I I+
Sbjct: 70  EYLEKRFGKRILRGLSVLSLILYIFLYMSVDLFSGALLIELITGLDLYLSLLLLGAITIL 129

Query: 128 IIII----------II--IIIIIIIIIIIIIIIIDLIFDFTFM 158
             +            I  +I+I+   I+ +    ++    TF+
Sbjct: 130 YTVFGGLKAVVWTDTIQAVIMILGTFILPVFAFSEVGGLGTFV 172

The Solute:Sodium Symporter (SSS) Family (TC 2.A.21) Members of the SSS family catalyze solute:Na+ symport. The solutes transported may be sugars, amino acids, nucleosides, inositols, vitamins, urea or anions, depending on the system. Members of the SSS family have been identified in bacteria, archaea and animals, and all functionally well characterized members catalyze solute uptake via Na+ symport. Proteins of the SSS generally share a core of 13 TMSs, but different members of the family may have different numbers of TMSs. A 13 TMS topology with a periplasmic N-terminus and a cytoplasmic C-terminus has been experimentally determined for the proline:Na+ symporter, PutP, of E. coli [Transport and binding proteins, Cations and iron carrying compounds]. Length = 407

>gnl|CDD|201526 pfam00957, Synaptobrevin, Synaptobrevin

 Score = 36.4 bits (85), Expect = 0.004
 Identities = 11/26 (42%), Positives = 19/26 (73%)

Query: 72 KRSKYIIIIIIIIIIIIIIIIIIIII 97
          K  K  II+ ++++I+I+IIII+I  
Sbjct: 64 KNMKLKIILGLVVLILILIIIIVICG 89

Length = 89

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	711
KOG1595|consensus	528		100.0
KOG1595|consensus	528		99.9
COG5063	351	CTH1 CCCH-type Zn-finger protein [General function	99.5
COG5063	351	CTH1 CCCH-type Zn-finger protein [General function	99.46
KOG1677|consensus	332		99.44
KOG1677|consensus	332		99.19
KOG1040|consensus	325		98.92
KOG1040|consensus	325		98.6
KOG1492|consensus	377		98.35
KOG2494|consensus	331		98.04
COG5084	285	YTH1 Cleavage and polyadenylation specificity fact	97.99
PF00642	27	zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si	97.96
PF00642	27	zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si	97.49
COG5084	285	YTH1 Cleavage and polyadenylation specificity fact	97.41
smart00356	27	ZnF_C3H1 zinc finger.	97.22
KOG4791|consensus	667		97.1
KOG1492|consensus	377		97.03
KOG2494|consensus	331		96.62
KOG4791|consensus	667		96.45
smart00356	27	ZnF_C3H1 zinc finger.	96.42
KOG2333|consensus	614		96.38
KOG1763|consensus	343		96.15
KOG2333|consensus	614		95.44
KOG3702|consensus	681		94.78
COG5252	299	Uncharacterized conserved protein, contains CCCH-t	94.6
KOG1763|consensus	343		93.29
PF14608	19	zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type	89.1
KOG2185|consensus	486		87.05
COG5252	299	Uncharacterized conserved protein, contains CCCH-t	86.79
PF05297	381	Herpes_LMP1: Herpesvirus latent membrane protein 1	86.33
COG5152	259	Uncharacterized conserved protein, contains RING a	85.84
COG5152	259	Uncharacterized conserved protein, contains RING a	85.44
PF08006	181	DUF1700: Protein of unknown function (DUF1700); In	84.42
PF14608	19	zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type	83.68
KOG2185|consensus	486		82.73
KOG1813|consensus	313		82.04
KOG3702|consensus	681		81.92
PF05656	120	DUF805: Protein of unknown function (DUF805); Inte	81.65

>KOG1595|consensus

Probab=100.00  E-value=4.8e-58  Score=499.03  Aligned_cols=272  Identities=56%  Similarity=1.084  Sum_probs=247.8

Q ss_pred             cccccchhhhhcccccccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCC-
Q psy3120         150 DLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDE-  228 (711)
Q Consensus       150 ~~~k~~h~~yL~~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~-  228 (711)
                      +.++++|+.|+++|+++. +.|.+|+|.+|+|++|+.||+.+++||+|.++.+|+|+|+++.+|.+|+|.++.||.|+. 
T Consensus        17 e~~~~~~~~~~k~~~~e~-~~~~~~~~~~~r~~~~~k~~~~~qR~~~~v~~~~Gs~~~~~~i~~~~~~e~~~~C~~~~~~   95 (528)
T KOG1595|consen   17 EFEAPNDYAYLKEFRVEQ-PLFLQHKCLQHRPFVCFKWHFLNQRRRRPVARRDGSFNYSPDIYCTKYDEVTGICPDGDEH   95 (528)
T ss_pred             hhccccHHHHHHHHHHhc-hhhhhhhhcccccchhhhhhhhccccccchhhhcCccccccceeecchhhccccCCCCccc
Confidence            889999999999999999 999999999999999999999999999999999999999999999999999999999999 


Q ss_pred             CCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCCCCchHHHhhhcCCCCCCCCCCCCCCC
Q psy3120         229 CPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNA  308 (711)
Q Consensus       229 C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elqal~~~~~~~~~~~~Gp~~  308 (711)
                      |.++|.+.++.|+.||...|||..|..  ..+|+|+|.+.+|.|||++.++|.|+.+..|++.     +....+    +.
T Consensus        96 C~~~g~s~~~~e~~~hL~~~k~~~~~t--da~g~~~~~v~~~~~~~~~~~~r~~~~~l~e~~~-----~~~~~~----~e  164 (528)
T KOG1595|consen   96 CAVLGRSVGDTERTYHLRYYKTLPCVT--DARGNCVKNVLHCAFAHGPNDLRPPVEDLLELQG-----GSGLPD----DE  164 (528)
T ss_pred             chhcccccCCcceeEeccccccccCcc--ccCCCcccCcccccccCCccccccHHHHHHhccc-----ccCccC----CC
Confidence            999999999999999999999999984  4579999999999999999999999877666641     000001    11


Q ss_pred             cccccc----cccCCCCCCC-------ccceeccccccccCCCCCCCCCCCCCCCCC-CCcCccCCCCccccCCCCCCCC
Q psy3120         309 LDKEGK----LLTEDPKWQD-------TNYVLSNYKTEQCKRPPRLCRQGYACPQFH-NSRDKRRSPRTFKYRSTPCPNV  376 (711)
Q Consensus       309 ld~~~k----lm~edPkw~D-------ddfvL~~YKTklC~~~~G~C~~G~~CpFAH-n~kDlRR~P~~~kYkT~LCP~f  376 (711)
                      .+.+.+    .+.+||+|+|       |+|+|+.|||++|++.  .||+|.+||||| +++++||+|++|+|..++||.|
T Consensus       165 ~~~~~~~~~~~y~~Dp~~pdi~~~ys~DeFrMy~fKir~C~R~--~shDwteCPf~HpgEkARRRDPRkyhYs~tpCPef  242 (528)
T KOG1595|consen  165 PEVESKLDVTEYPEDPSWPDINGIYSSDEFRMYSFKIRRCSRP--RSHDWTECPFAHPGEKARRRDPRKYHYSSTPCPEF  242 (528)
T ss_pred             cccccccccccccCCCCcccccccccccceEEEeeeecccCCc--cCCCcccCCccCCCcccccCCcccccccCccCccc
Confidence            122344    8899999999       8899999999999996  899999999999 8999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhccccCC
Q psy3120         377 KHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMA  446 (711)
Q Consensus       377 kkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~~~~~  446 (711)
                      ++|       .|++||+|.||||++|.|+||.+|||++|++.   |+|++ .+|+|||.++|||......
T Consensus       243 rkG-------~C~rGD~CEyaHgvfEcwLHPa~YRT~~CkDg---~~C~R-rvCfFAH~~eqLR~l~~s~  301 (528)
T KOG1595|consen  243 RKG-------SCERGDSCEYAHGVFECWLHPARYRTRKCKDG---GYCPR-RVCFFAHSPEQLRPLPPST  301 (528)
T ss_pred             ccC-------CCCCCCccccccceehhhcCHHHhccccccCC---CCCcc-ceEeeecChHHhcccCCCC
Confidence            985       99999999999999999999999999999998   69999 8999999999999988743

>KOG1595|consensus

Probab=99.90  E-value=1.5e-24  Score=237.87  Aligned_cols=116  Identities=31%  Similarity=0.536  Sum_probs=100.8

Q ss_pred             Hhhhcccccc-------hhhhhcccccccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCcccccccccccccc
Q psy3120         146 IIIIDLIFDF-------TFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDE  218 (711)
Q Consensus       146 ~~~~~~~k~~-------h~~yL~~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e  218 (711)
                      ....|..||+       .++.|+.|||++|++-+.|+|+     .|||||..+..|||+++|    |.|+. ++||.|  
T Consensus       175 ~y~~Dp~~pdi~~~ys~DeFrMy~fKir~C~R~~shDwt-----eCPf~HpgEkARRRDPRk----yhYs~-tpCPef--  242 (528)
T KOG1595|consen  175 EYPEDPSWPDINGIYSSDEFRMYSFKIRRCSRPRSHDWT-----ECPFAHPGEKARRRDPRK----YHYSS-TPCPEF--  242 (528)
T ss_pred             cccCCCCcccccccccccceEEEeeeecccCCccCCCcc-----cCCccCCCcccccCCccc----ccccC-ccCccc--
Confidence            3456777777       6789999999999999888877     699999666666666664    99998 799999  


Q ss_pred             ccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCC
Q psy3120         219 TTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPP  282 (711)
Q Consensus       219 ~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P  282 (711)
                      ++|.|++||.|.|||+   .+|.|+||..|||++|++.    |+|+ + ..|+|||.+++||.-
T Consensus       243 rkG~C~rGD~CEyaHg---vfEcwLHPa~YRT~~CkDg----~~C~-R-rvCfFAH~~eqLR~l  297 (528)
T KOG1595|consen  243 RKGSCERGDSCEYAHG---VFECWLHPARYRTRKCKDG----GYCP-R-RVCFFAHSPEQLRPL  297 (528)
T ss_pred             ccCCCCCCCccccccc---eehhhcCHHHhccccccCC----CCCc-c-ceEeeecChHHhccc
Confidence            5799999999999995   7999999999999999986    6796 4 999999999999963

>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]

Probab=99.50  E-value=4.3e-14  Score=147.65  Aligned_cols=209  Identities=19%  Similarity=0.233  Sum_probs=142.1

Q ss_pred             cccccccccccCCCCCCCCCCCCccCCCcccccc--cccccccccccccccccccccccccccCCCCCCCCCCCCCCchH
Q psy3120         210 DTYCTKYDETTGLCPDGDECPFLHRTAGDTERRY--HLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIK  287 (711)
Q Consensus       210 ~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~y--HP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~  287 (711)
                      |.+|..-. ..+.|.+++.|+|||+   ..+..+  .+.+|||+-|.-+.+ -|+|+ ++.+|.|-|-+----.+     
T Consensus       115 t~~l~ss~-~~~~~~~p~~n~fahs---~~issl~~~~~K~kt~slev~in-~~~vp-~s~~~~~~slP~t~~~~-----  183 (351)
T COG5063         115 TEMLRSST-EIPYCRYPDKNPFAHS---KAISSLAQTHPKYKTESLEVFIN-PGYVP-YSKRCCFISLPLTDINL-----  183 (351)
T ss_pred             chhhhccc-cccccccCCCCcCCCc---cccccccccCccccccceeEEec-CCccc-cccccccccccccccCc-----
Confidence            36776432 2478999999999997   344433  345799999999887 48898 89999999954322221     


Q ss_pred             HHhhhcCCCCC----CCCCCCCCCCcccccccccCCCCCCCccceeccccc--cccCCC--CCCCCC---CCCCCCC---
Q psy3120         288 EIQALENPEGD----PNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKT--EQCKRP--PRLCRQ---GYACPQF---  353 (711)
Q Consensus       288 Elqal~~~~~~----~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKT--klC~~~--~G~C~~---G~~CpFA---  353 (711)
                        +.+...+..    ..+...+-+.-+.+....    .++-...-+..|||  .+|.-|  .|.|++   |..|.|+   
T Consensus       184 --q~l~~rkpks~~~~~s~t~~kes~a~P~~~~----~~~~~e~n~~L~kt~~~lc~~ft~kg~~p~~~sG~~~q~a~~~  257 (351)
T COG5063         184 --QPLSQRKPKSGKNCTSYTLGKESDAHPHDEL----IYQKQEQNKPLYKTNPELCESFTRKGTCPYWISGVKCQFACRG  257 (351)
T ss_pred             --chhhccCcccCcCccccccccccccCchhhh----hhhhhhccchhhcCCHHHhhccCcCCCCccccccccccccccc
Confidence              111110100    011111111101100000    01111223567899  999998  599999   9999999   


Q ss_pred             CCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccc---ccc-ccccccccccCccccCCCCCCC
Q psy3120         354 HNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQ---FHP-EIYKSTKCNDVQQAGYCPRGVF  429 (711)
Q Consensus       354 Hn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~---yHP-~~YKTklC~~fq~tG~Cp~G~~  429 (711)
                      |+..+....-..-.|+|++|-+|.+.      |.|++|.+|.|+||-.+..   .|+ ..|+...|+.+.+.|.||+|-.
T Consensus       258 HGlN~l~~k~k~~~frTePcinwe~s------Gyc~yg~Rc~F~hgd~~~ie~~~~~~~~y~~~~crt~~~~g~~p~g~~  331 (351)
T COG5063         258 HGLNELKSKKKKQNFRTEPCINWEKS------GYCPYGLRCCFKHGDDSDIEMYEEASLGYLDGPCRTRAKGGAFPSGGA  331 (351)
T ss_pred             cccccccccccccccccCCccchhhc------ccCccccccccccCChhhccccccccccccccccccccccCccCCCCc
Confidence            99876655444456899999998754      8999999999999988764   344 4799999999999999999999


Q ss_pred             CCCCCcchhhhc
Q psy3120         430 CAFAHVDTEMAN  441 (711)
Q Consensus       430 C~FAHgeaELR~  441 (711)
                      |.|-|.+.-+..
T Consensus       332 ~c~~~dkkn~~~  343 (351)
T COG5063         332 VCKSFDKKNLDF  343 (351)
T ss_pred             hhhccccchhhh
Confidence            999998776654

>COG5063 CTH1 CCCH-type Zn-finger protein [General function prediction only]

Probab=99.46  E-value=1.3e-13  Score=144.20  Aligned_cols=185  Identities=21%  Similarity=0.291  Sum_probs=139.2

Q ss_pred             hhhccccccccccc-ccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCccCC
Q psy3120         158 MYLKEFRVEQCPLF-LQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTA  236 (711)
Q Consensus       158 ~yL~~FKTk~C~~f-~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs~~  236 (711)
                      .-...|||.+|.-. .-+.|+..+  .|+|+|+....|-.+..     ..|++ +-|.-+- ..+.||++.+|-|.|= +
T Consensus       108 ~p~g~~kt~~l~ss~~~~~~~~p~--~n~fahs~~issl~~~~-----~K~kt-~slev~i-n~~~vp~s~~~~~~sl-P  177 (351)
T COG5063         108 KPYGLYKTEMLRSSTEIPYCRYPD--KNPFAHSKAISSLAQTH-----PKYKT-ESLEVFI-NPGYVPYSKRCCFISL-P  177 (351)
T ss_pred             CccccccchhhhccccccccccCC--CCcCCCccccccccccC-----ccccc-cceeEEe-cCCccccccccccccc-c
Confidence            33567999999764 257899865  89999998887754432     45776 6787775 6789999988877762 2


Q ss_pred             Ccc--------------------------------cccc-----ccccccc--cccccccccccccccc---ccccCCC-
Q psy3120         237 GDT--------------------------------ERRY-----HLRYYKT--CMCVHDTDARGLCVKN---GAHCAFA-  273 (711)
Q Consensus       237 G~~--------------------------------E~~y-----HP~~YKT--klCk~~~~~kG~C~K~---G~~C~FA-  273 (711)
                      ...                                |+.|     |-..|||  .+|..|.. +|+|+ +   |..|.|| 
T Consensus       178 ~t~~~~q~l~~rkpks~~~~~s~t~~kes~a~P~~~~~~~~~e~n~~L~kt~~~lc~~ft~-kg~~p-~~~sG~~~q~a~  255 (351)
T COG5063         178 LTDINLQPLSQRKPKSGKNCTSYTLGKESDAHPHDELIYQKQEQNKPLYKTNPELCESFTR-KGTCP-YWISGVKCQFAC  255 (351)
T ss_pred             ccccCcchhhccCcccCcCccccccccccccCchhhhhhhhhhccchhhcCCHHHhhccCc-CCCCc-cccccccccccc
Confidence            111                                1112     2357999  89999986 69997 9   9999999 


Q ss_pred             --CCCCCCCCCCCchHHHhhhcCCCCCCCCCCCCCCCcccccccccCCCCCCCccceeccccccccCCCC--CCCCCCCC
Q psy3120         274 --HGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPP--RLCRQGYA  349 (711)
Q Consensus       274 --Hg~~ELR~P~~~~~Elqal~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKTklC~~~~--G~C~~G~~  349 (711)
                        ||..|+..--                                            .-..|||++|.++.  |.|+||.+
T Consensus       256 ~~HGlN~l~~k~--------------------------------------------k~~~frTePcinwe~sGyc~yg~R  291 (351)
T COG5063         256 RGHGLNELKSKK--------------------------------------------KKQNFRTEPCINWEKSGYCPYGLR  291 (351)
T ss_pred             cccccccccccc--------------------------------------------cccccccCCccchhhcccCccccc
Confidence              9988887521                                            02458999999995  89999999


Q ss_pred             CCCCCCCcCccCCCCcc--ccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccc
Q psy3120         350 CPQFHNSRDKRRSPRTF--KYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQ  404 (711)
Q Consensus       350 CpFAHn~kDlRR~P~~~--kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~  404 (711)
                      |+|+|+.+..-..+...  .|+...|..+.++      |.|+.|..|.+.|...-+.
T Consensus       292 c~F~hgd~~~ie~~~~~~~~y~~~~crt~~~~------g~~p~g~~~c~~~dkkn~~  342 (351)
T COG5063         292 CCFKHGDDSDIEMYEEASLGYLDGPCRTRAKG------GAFPSGGAVCKSFDKKNLD  342 (351)
T ss_pred             cccccCChhhcccccccccccccccccccccc------CccCCCCchhhccccchhh
Confidence            99999996544444332  6889999999876      8999999999999765443

>KOG1677|consensus

Probab=99.44  E-value=9e-14  Score=145.63  Aligned_cols=103  Identities=25%  Similarity=0.573  Sum_probs=84.4

Q ss_pred             cccCCC--CCCCCCCCCCCCCCCCcCccCCCC--------ccccCCCCCCCCcCCCCCCCCCCCCC-CCCcccccCcccc
Q psy3120         335 EQCKRP--PRLCRQGYACPQFHNSRDKRRSPR--------TFKYRSTPCPNVKHGDEWGEPANCES-GDLCQYCHTRTEQ  403 (711)
Q Consensus       335 klC~~~--~G~C~~G~~CpFAHn~kDlRR~P~--------~~kYkT~LCP~fkkG~~w~~~G~Cp~-GdsC~FAHg~~El  403 (711)
                      ..|..+  .+.|.++..|+|.|...+.|..+.        .-.|++.+|..|...      +.|.+ |++|+|+|+.+|+
T Consensus        87 ~~~~~~~~~~~~~~~s~~~~~~p~~~~~~~~~~~~~~~~~p~~~kt~lc~~~~~~------g~c~y~ge~crfah~~~e~  160 (332)
T KOG1677|consen   87 GDCSAYLRTGVCGYGSSCRYNHPDLRLRPRPVRRSRGERKPERYKTPLCRSFRKS------GTCKYRGEQCRFAHGLEEL  160 (332)
T ss_pred             cccccccccCCCCCCCCCCccCcccccccCCccccccccCcccccCCcceeeecC------ccccccCchhhhcCCcccc
Confidence            567666  368888899999999744433321        124789999998754      89999 9999999999999


Q ss_pred             c--------cccccccccccccCccccCCCCCCCCCCCCcchhhhccc
Q psy3120         404 Q--------FHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAR  443 (711)
Q Consensus       404 ~--------yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~~  443 (711)
                      +        ..|.+|||++|.+|+++|+|+||.+|+|+|+..|.+...
T Consensus       161 r~~~~~~~~~~~~~~kt~lC~~f~~tG~C~yG~rC~F~H~~~~~~~~~  208 (332)
T KOG1677|consen  161 RLPSSENQVGNPPKYKTKLCPKFQKTGLCKYGSRCRFIHGEPEDRASN  208 (332)
T ss_pred             cccccchhhcCCCCCCCcCCCccccCCCCCCCCcCeecCCCccccccc
Confidence            8        346679999999999999999999999999999888743

>KOG1677|consensus

Probab=99.19  E-value=2.1e-11  Score=127.99  Aligned_cols=111  Identities=32%  Similarity=0.592  Sum_probs=86.1

Q ss_pred             cccc-ccccccc-cCcccCCCCCcccCCCCCCCCCCCCC---CCCCCCccccccccccccccccCCCCC-CCCCCCCccC
Q psy3120         162 EFRV-EQCPLFL-QHKCTQHRPFTCFHWHFMNQRRRRPV---RKRDGSFNYSPDTYCTKYDETTGLCPD-GDECPFLHRT  235 (711)
Q Consensus       162 ~FKT-k~C~~f~-qg~C~~g~p~~C~FAH~~ed~RR~P~---~r~dGt~nYst~~lCpkf~e~tG~Cp~-GD~C~FAHs~  235 (711)
                      .+.+ ..|..+. .+.|..+.  .|+|.|...+.|..+.   ......-.|++ .+|..|. .+|.|.+ |++|+|+|..
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~s--~~~~~~p~~~~~~~~~~~~~~~~~p~~~kt-~lc~~~~-~~g~c~y~ge~crfah~~  157 (332)
T KOG1677|consen   82 ERSGEGDCSAYLRTGVCGYGS--SCRYNHPDLRLRPRPVRRSRGERKPERYKT-PLCRSFR-KSGTCKYRGEQCRFAHGL  157 (332)
T ss_pred             CCCCccccccccccCCCCCCC--CCCccCcccccccCCccccccccCcccccC-Ccceeee-cCccccccCchhhhcCCc
Confidence            3344 6788776 58888876  8999999866665552   22222335776 7999996 8999999 9999999964


Q ss_pred             CCccccc--------ccccccccccccccccccccccccccccCCCCCCCCCCC
Q psy3120         236 AGDTERR--------YHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP  281 (711)
Q Consensus       236 ~G~~E~~--------yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~  281 (711)
                         .|.+        ..+..|||++|.+|... |.|+ ||.+|.|+|+..+.+.
T Consensus       158 ---~e~r~~~~~~~~~~~~~~kt~lC~~f~~t-G~C~-yG~rC~F~H~~~~~~~  206 (332)
T KOG1677|consen  158 ---EELRLPSSENQVGNPPKYKTKLCPKFQKT-GLCK-YGSRCRFIHGEPEDRA  206 (332)
T ss_pred             ---ccccccccchhhcCCCCCCCcCCCccccC-CCCC-CCCcCeecCCCccccc
Confidence               4444        45778999999999864 9995 9999999999998885

>KOG1040|consensus

Probab=98.92  E-value=9.8e-10  Score=117.37  Aligned_cols=140  Identities=30%  Similarity=0.619  Sum_probs=104.9

Q ss_pred             cccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCCCCchHHHhh
Q psy3120         212 YCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQA  291 (711)
Q Consensus       212 lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elqa  291 (711)
                      .|..+......|.+|-.|+..|.   +.+     +.+++.+|++|.  +|.| +.|+.|.|+|.. ++.           
T Consensus        47 ~~~~~~~~~~~~~~~~~~~~~~~---~~~-----~~~~~~vcK~~l--~glC-~kgD~C~Flhe~-~~~-----------  103 (325)
T KOG1040|consen   47 TCEFNESREKPCERGPICPKSHN---DVS-----DSRGKVVCKHWL--RGLC-KKGDQCEFLHEY-DLT-----------  103 (325)
T ss_pred             hhcccccCCCCccCCCCCccccC---Ccc-----ccCCceeehhhh--hhhh-hccCcCcchhhh-hhc-----------
Confidence            46655322267999999999996   332     468899999998  5899 589999999966 333           


Q ss_pred             hcCCCCCCCCCCCCCCCcccccccccCCCCCCCccceeccccccccCCC--CCCCCCCCCCCCCCCCcCccCCCCccccC
Q psy3120         292 LENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRP--PRLCRQGYACPQFHNSRDKRRSPRTFKYR  369 (711)
Q Consensus       292 l~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKTklC~~~--~G~C~~G~~CpFAHn~kDlRR~P~~~kYk  369 (711)
                                                               |...|.+|  .+.|..+.+|+|+|..-      .   -+
T Consensus       104 -----------------------------------------k~rec~ff~~~g~c~~~~~c~y~h~dp------q---t~  133 (325)
T KOG1040|consen  104 -----------------------------------------KMRECKFFSLFGECTNGKDCPYLHGDP------Q---TA  133 (325)
T ss_pred             -----------------------------------------ccccccccccccccccccCCcccCCCh------h---hh
Confidence                                                     22334444  25667789999999852      1   12


Q ss_pred             CCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCC-CCCCCcchhhhccc
Q psy3120         370 STPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVF-CAFAHVDTEMANAR  443 (711)
Q Consensus       370 T~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~-C~FAHgeaELR~~~  443 (711)
                      ...|+.+       ..|.|+.|.+|++.|-..           .+|+.|. .|.|+.|.. |-+.|.+.++....
T Consensus       134 ~k~c~~~-------~~g~c~~g~~c~~~h~~~-----------~~c~~y~-~gfC~~g~q~c~~~hp~~~~~~~~  189 (325)
T KOG1040|consen  134 IKKCKWY-------KEGFCRGGPSCKKRHERK-----------VLCPPYN-AGFCPKGPQRCDMLHPEFQQPPFH  189 (325)
T ss_pred             hhccchh-------hhccCCCcchhhhhhhcc-----------cCCCchh-hhhccCCCCcccccCCCCCCChhh
Confidence            4567754       456999999999999654           5799997 699999999 99999988877643

>KOG1040|consensus

Probab=98.60  E-value=9.3e-08  Score=102.45  Aligned_cols=144  Identities=26%  Similarity=0.502  Sum_probs=106.7

Q ss_pred             ccccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCCCCchHHHh
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQ  290 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elq  290 (711)
                      .+|..|  ..|.|..||.|.|+|..          +.-|-..|.+|.. .|.|. ++..|.|-|++-+-           
T Consensus        78 ~vcK~~--l~glC~kgD~C~Flhe~----------~~~k~rec~ff~~-~g~c~-~~~~c~y~h~dpqt-----------  132 (325)
T KOG1040|consen   78 VVCKHW--LRGLCKKGDQCEFLHEY----------DLTKMRECKFFSL-FGECT-NGKDCPYLHGDPQT-----------  132 (325)
T ss_pred             eeehhh--hhhhhhccCcCcchhhh----------hhccccccccccc-ccccc-cccCCcccCCChhh-----------
Confidence            699988  57999999999999951          2345556888864 79997 89999999976411           


Q ss_pred             hhcCCCCCCCCCCCCCCCcccccccccCCCCCCCccceeccccccccCCC-CCCCCCCCCCCCCCCCcCccCCCCccccC
Q psy3120         291 ALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRP-PRLCRQGYACPQFHNSRDKRRSPRTFKYR  369 (711)
Q Consensus       291 al~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKTklC~~~-~G~C~~G~~CpFAHn~kDlRR~P~~~kYk  369 (711)
                                                                +.+.|+++ .|.|+.|..|.+.|..+            
T Consensus       133 ------------------------------------------~~k~c~~~~~g~c~~g~~c~~~h~~~------------  158 (325)
T KOG1040|consen  133 ------------------------------------------AIKKCKWYKEGFCRGGPSCKKRHERK------------  158 (325)
T ss_pred             ------------------------------------------hhhccchhhhccCCCcchhhhhhhcc------------
Confidence                                                      13346665 37788899999999742            


Q ss_pred             CCCCCCCcCCCCCCCCCCCCCCCC-cccccCcccccc-------c-cccccccccccCccccCCCCCCCCCCCCcchhhh
Q psy3120         370 STPCPNVKHGDEWGEPANCESGDL-CQYCHTRTEQQF-------H-PEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMA  440 (711)
Q Consensus       370 T~LCP~fkkG~~w~~~G~Cp~Gds-C~FAHg~~El~y-------H-P~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR  440 (711)
                       .+|+.|..       +.|+.|.. |.+.|...++--       | |....--.|..+. ...|.....|-+.+...|-.
T Consensus       159 -~~c~~y~~-------gfC~~g~q~c~~~hp~~~~~~~~~~~~q~~~~~~~~~~~~~~~-~~~~~k~~~~~~~~~~~~~~  229 (325)
T KOG1040|consen  159 -VLCPPYNA-------GFCPKGPQRCDMLHPEFQQPPFHQGSVQHPPQRQSQQPGKISG-EEKIHKLLQDKQLPQQHEEK  229 (325)
T ss_pred             -cCCCchhh-------hhccCCCCcccccCCCCCCChhhccccCCCCCCCCcCcccccc-ccccchhhhhhhhhHHHHHH
Confidence             67898764       59999998 999999887642       3 2334444455554 35688888999999888876


Q ss_pred             cc
Q psy3120         441 NA  442 (711)
Q Consensus       441 ~~  442 (711)
                      +.
T Consensus       230 q~  231 (325)
T KOG1040|consen  230 QK  231 (325)
T ss_pred             Hh
Confidence            65

>KOG1492|consensus

Probab=98.35  E-value=5.2e-07  Score=92.49  Aligned_cols=133  Identities=23%  Similarity=0.531  Sum_probs=99.3

Q ss_pred             ccccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCCCCchHHHh
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQ  290 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elq  290 (711)
                      .+|..|. ..|.|-+|..|+|.|.          |  -+..+|..|.+  |.|. ....|...|..++.|.|.+      
T Consensus       207 vycryyn-angicgkgaacrfvhe----------p--trkticpkfln--grcn-kaedcnlsheldprripac------  264 (377)
T KOG1492|consen  207 VYCRYYN-ANGICGKGAACRFVHE----------P--TRKTICPKFLN--GRCN-KAEDCNLSHELDPRRIPAC------  264 (377)
T ss_pred             eEEEEec-CCCcccCCceeeeecc----------c--cccccChHHhc--CccC-chhcCCcccccCccccchh------
Confidence            6899886 7899999999999995          1  23347999984  8896 6899999999988887742      


Q ss_pred             hhcCCCCCCCCCCCCCCCcccccccccCCCCCCCccceeccccccccCCCCCCCCCCCCCCCCCCCcCccCCCCccccCC
Q psy3120         291 ALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRS  370 (711)
Q Consensus       291 al~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKTklC~~~~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT  370 (711)
                                                             .+|-...|.+        ..|.|.|-..         ....
T Consensus       265 ---------------------------------------ryfllgkcnn--------pncryvhihy---------sena  288 (377)
T KOG1492|consen  265 ---------------------------------------RYFLLGKCNN--------PNCRYVHIHY---------SENA  288 (377)
T ss_pred             ---------------------------------------hhhhhccCCC--------CCceEEEEee---------cCCC
Confidence                                                   1223333433        6899998642         1123


Q ss_pred             CCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         371 TPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       371 ~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      .+|=.|.      ..|.|..|.+|+.-|-.             .|.+|.+.|.|.. +.|..+|+.-....
T Consensus       289 picfefa------kygfcelgtscknqhil-------------qctdyamfgscnn-pqcslyhgavsadv  339 (377)
T KOG1492|consen  289 PICFEFA------KYGFCELGTSCKNQHIL-------------QCTDYAMFGSCNN-PQCSLYHGAVSADV  339 (377)
T ss_pred             ceeeeeh------hcceeccccccccceee-------------eecchhhhcCCCC-CcceeecceeccCC
Confidence            4576654      35899999999998843             5999999999997 89999998654444

>KOG2494|consensus

Probab=98.04  E-value=5.9e-06  Score=88.32  Aligned_cols=64  Identities=20%  Similarity=0.582  Sum_probs=50.9

Q ss_pred             ccccccccccccccCCCCCCCC-CCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCC
Q psy3120         207 YSPDTYCTKYDETTGLCPDGDE-CPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP  281 (711)
Q Consensus       207 Yst~~lCpkf~e~tG~Cp~GD~-C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~  281 (711)
                      |.+++.|..|  ..+.|.+||. |+|+|--    + ..+-..-+-..|.++.  +|.|.  .+.|+|.|.+.+++.
T Consensus        34 wl~~eVCReF--~rn~C~R~d~~CkfaHP~----~-~~~V~~g~v~aC~Ds~--kgrCs--R~nCkylHpp~hlkd   98 (331)
T KOG2494|consen   34 WLTLEVCREF--LRNTCSRGDRECKFAHPP----K-NCQVSNGRVIACFDSQ--KGRCS--RENCKYLHPPQHLKD   98 (331)
T ss_pred             hhHHHHHHHH--HhccccCCCccccccCCC----C-CCCccCCeEEEEeccc--cCccC--cccceecCCChhhhh
Confidence            5667899999  5899999999 9999942    1 2334455667799986  58896  688999999988885

>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

Probab=97.99  E-value=4.8e-05  Score=80.68  Aligned_cols=148  Identities=21%  Similarity=0.437  Sum_probs=101.1

Q ss_pred             ccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCCCCCchHHHhhh
Q psy3120         213 CTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQAL  292 (711)
Q Consensus       213 Cpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elqal  292 (711)
                      |..+. ..+.+-..-.|++-|..         |..+....|++|.  .|.|+ -+..|.|+|+.+-++. .         
T Consensus        77 ~~~~~-~~~~~~~~~s~~~~~~~---------~~~~s~V~c~~~~--~g~c~-s~~~c~~lh~~d~~~s-~---------  133 (285)
T COG5084          77 CISRN-FNSIRGSRLSTPNNHVN---------PVLSSSVVCKFFL--RGLCK-SGFSCEFLHEYDLRSS-Q---------  133 (285)
T ss_pred             ccccc-ccCCccccccCCccccC---------ccccCCcccchhc--cccCc-CCCccccccCCCcccc-c---------
Confidence            55443 33333334467777741         2257788999997  58996 8999999998765442 1         


Q ss_pred             cCCCCCCCCCCCCCCCcccccccccCCCCCCCccceeccccccccCCC--CCCCCCCCCCCCCCCCcCccCCCCccccCC
Q psy3120         293 ENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLSNYKTEQCKRP--PRLCRQGYACPQFHNSRDKRRSPRTFKYRS  370 (711)
Q Consensus       293 ~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~~YKTklC~~~--~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT  370 (711)
                                                               +-.|+.|  .|.|..|..|+|.|..      |+.+   .
T Consensus       134 -----------------------------------------~~~c~~Fs~~G~cs~g~~c~~~h~d------p~~~---~  163 (285)
T COG5084         134 -----------------------------------------GPPCRSFSLKGSCSSGPSCGYSHID------PDSF---A  163 (285)
T ss_pred             -----------------------------------------CCCcccccccceeccCCCCCccccC------cccc---c
Confidence                                                     2246666  4788899999999986      4332   2


Q ss_pred             CCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCC--------------CCCCCcc
Q psy3120         371 TPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVF--------------CAFAHVD  436 (711)
Q Consensus       371 ~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~--------------C~FAHge  436 (711)
                      ..|..+...    ..+.|+.|..|++.|+...+-|-     +.+|.++. .+.||.|..              |...|..
T Consensus       164 ~~~~~~~~~----~~~f~p~g~~c~~~H~~~~~~~~-----~~p~~~y~-~~fsP~g~~~~~~~~~~~~~~~~~~~~~ps  233 (285)
T COG5084         164 GNCDQYSGA----TYGFCPLGASCKFSHTLKRVSYG-----SSPCGNYT-PPFSPPGTPSESVSSWGYGKGTSCSLSHPS  233 (285)
T ss_pred             ccccccCcc----cccccCCCCcccccccccccccc-----ccccccCc-CCcCCCCCCccccccccccccccccCCCcc
Confidence            345554321    24699999999999998755444     44899997 478888877              8888877


Q ss_pred             hhhhccc
Q psy3120         437 TEMANAR  443 (711)
Q Consensus       437 aELR~~~  443 (711)
                      .+.....
T Consensus       234 ~~~~iq~  240 (285)
T COG5084         234 LNIDIQQ  240 (285)
T ss_pred             ccCCcCC
Confidence            6655543

>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.96  E-value=1.2e-06  Score=62.11  Aligned_cols=27  Identities=41%  Similarity=0.811  Sum_probs=22.6

Q ss_pred             ccccccccCccccCCCCCCCCCCCCcc
Q psy3120         410 YKSTKCNDVQQAGYCPRGVFCAFAHVD  436 (711)
Q Consensus       410 YKTklC~~fq~tG~Cp~G~~C~FAHge  436 (711)
                      |||.+|.+|.+.|.|++|+.|.|+|++
T Consensus         1 ~k~~~C~~f~~~g~C~~G~~C~f~H~~   27 (27)
T PF00642_consen    1 YKTKLCRFFMRTGTCPFGDKCRFAHGE   27 (27)
T ss_dssp             TTSSB-HHHHHTS--TTGGGSSSBSSG
T ss_pred             CccccChhhccCCccCCCCCcCccCCC
Confidence            799999999999999999999999984

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 C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....

>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.49  E-value=2.8e-05  Score=55.21  Aligned_cols=27  Identities=44%  Similarity=0.862  Sum_probs=21.1

Q ss_pred             cccccccccccccccccccccccCCCCCC
Q psy3120         248 YKTCMCVHDTDARGLCVKNGAHCAFAHGN  276 (711)
Q Consensus       248 YKTklCk~~~~~kG~C~K~G~~C~FAHg~  276 (711)
                      |||++|++|.. .|.|+ +|+.|.|+|++
T Consensus         1 ~k~~~C~~f~~-~g~C~-~G~~C~f~H~~   27 (27)
T PF00642_consen    1 YKTKLCRFFMR-TGTCP-FGDKCRFAHGE   27 (27)
T ss_dssp             TTSSB-HHHHH-TS--T-TGGGSSSBSSG
T ss_pred             CccccChhhcc-CCccC-CCCCcCccCCC
Confidence            79999999985 59996 99999999974

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 C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....

>COG5084 YTH1 Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

Probab=97.41  E-value=0.0007  Score=72.05  Aligned_cols=57  Identities=30%  Similarity=0.615  Sum_probs=44.1

Q ss_pred             ccccccccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCC
Q psy3120         207 YSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN  276 (711)
Q Consensus       207 Yst~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~  276 (711)
                      |+. ..|+.|+  -|.|+.|+.|.|+|+.  +   +.++   -.-.|+.|. ..|.|. .|..|.+.|.+
T Consensus       102 ~s~-V~c~~~~--~g~c~s~~~c~~lh~~--d---~~~s---~~~~c~~Fs-~~G~cs-~g~~c~~~h~d  158 (285)
T COG5084         102 SSS-VVCKFFL--RGLCKSGFSCEFLHEY--D---LRSS---QGPPCRSFS-LKGSCS-SGPSCGYSHID  158 (285)
T ss_pred             cCC-cccchhc--cccCcCCCccccccCC--C---cccc---cCCCccccc-ccceec-cCCCCCccccC
Confidence            454 8999995  7999999999999973  1   1111   255699985 379995 99999999987

>smart00356 ZnF_C3H1 zinc finger

Probab=97.22  E-value=0.00021  Score=49.38  Aligned_cols=26  Identities=46%  Similarity=0.922  Sum_probs=23.7

Q ss_pred             ccccccccCccccCCCCCCCCCCCCcc
Q psy3120         410 YKSTKCNDVQQAGYCPRGVFCAFAHVD  436 (711)
Q Consensus       410 YKTklC~~fq~tG~Cp~G~~C~FAHge  436 (711)
                      ||+.+|.+| .+|.|++|+.|+|.|..
T Consensus         2 ~k~~~C~~~-~~g~C~~g~~C~~~H~~   27 (27)
T smart00356        2 YKTELCKFF-KRGYCPYGDRCKFAHPL   27 (27)
T ss_pred             CCCCcCcCc-cCCCCCCCCCcCCCCcC
Confidence            789999999 68999999999999973

>KOG4791|consensus

Probab=97.10  E-value=0.00042  Score=77.47  Aligned_cols=81  Identities=22%  Similarity=0.504  Sum_probs=57.9

Q ss_pred             CCCCCCCCCCCCCCCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCcc
Q psy3120         341 PRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQ  420 (711)
Q Consensus       341 ~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~  420 (711)
                      +..|.+++.|+|.|++..+.        .-..|.+|..+      -.|..  .|+|.|+.....     ..-.+|..|.+
T Consensus        11 ys~cKk~d~c~~rh~E~al~--------n~t~C~~w~~~------~~C~k--~C~YRHSe~~~k-----r~e~~CYwe~~   69 (667)
T KOG4791|consen   11 YSTCKKGDSCPFRHCEAALG--------NETVCTLWQEG------RCCRK--VCRYRHSEIDKK-----RSEIPCYWENQ   69 (667)
T ss_pred             hhhhhccCcCcchhhHHHhc--------Ccchhhhhhhc------Ccccc--cccchhhHHhhh-----cCcccceeecC
Confidence            35677789999999975431        13679998754      46764  899999975443     23458988875


Q ss_pred             ccCCCCCCCCCCCCcchhhhccc
Q psy3120         421 AGYCPRGVFCAFAHVDTEMANAR  443 (711)
Q Consensus       421 tG~Cp~G~~C~FAHgeaELR~~~  443 (711)
                      ...|-. ++|-|-|....|...-
T Consensus        70 p~gC~k-~~CgfRH~~pPLkg~l   91 (667)
T KOG4791|consen   70 PTGCQK-LNCGFRHNRPPLKGVL   91 (667)
T ss_pred             CCccCC-CccccccCCCchhhhc
Confidence            444997 8999999876666543

>KOG1492|consensus

Probab=97.03  E-value=0.00044  Score=71.45  Aligned_cols=135  Identities=22%  Similarity=0.500  Sum_probs=89.3

Q ss_pred             ccccccccccccccccccccCCCCCCCCCCCCCCchHHHhhhcCCCCCCCCCCCCCCCcccccccccCCCCCCCccceec
Q psy3120         251 CMCVHDTDARGLCVKNGAHCAFAHGNPDLRPPVYDIKEIQALENPEGDPNSNSNGPNALDKEGKLLTEDPKWQDTNYVLS  330 (711)
Q Consensus       251 klCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P~~~~~Elqal~~~~~~~~~~~~Gp~~ld~~~klm~edPkw~DddfvL~  330 (711)
                      ..|++|.. .|.|- .|..|+|.|.+      .                                               
T Consensus       207 vycryyna-ngicg-kgaacrfvhep------t-----------------------------------------------  231 (377)
T KOG1492|consen  207 VYCRYYNA-NGICG-KGAACRFVHEP------T-----------------------------------------------  231 (377)
T ss_pred             eEEEEecC-CCccc-CCceeeeeccc------c-----------------------------------------------
Confidence            34988865 69997 79999999932      1                                               


Q ss_pred             cccccccCCC-CCCCCCCCCCCCCCCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCcccccccccc
Q psy3120         331 NYKTEQCKRP-PRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEI  409 (711)
Q Consensus       331 ~YKTklC~~~-~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~  409 (711)
                        +...||+| .|.|...++|...|... .||-|.        |+.|.-       |.|. ..+|+|-|-....      
T Consensus       232 --rkticpkflngrcnkaedcnlsheld-prripa--------cryfll-------gkcn-npncryvhihyse------  286 (377)
T KOG1492|consen  232 --RKTICPKFLNGRCNKAEDCNLSHELD-PRRIPA--------CRYFLL-------GKCN-NPNCRYVHIHYSE------  286 (377)
T ss_pred             --ccccChHHhcCccCchhcCCcccccC-ccccch--------hhhhhh-------ccCC-CCCceEEEEeecC------
Confidence              13358887 58899899999999864 455443        888764       5894 4789998843210      


Q ss_pred             ccccccccCccccCCCCCCCCCCCCcchhhhccccCCCCCCCCCCCCCCCccccccCCCCCC
Q psy3120         410 YKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAREMAGGLGPLDGTPGSGLSDILAGGLPNS  471 (711)
Q Consensus       410 YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~~~~~~g~g~l~~s~~~s~~~~~s~~~Pp~  471 (711)
                       ..-.|..|.+.|.|.-|..|.-.|-..-.    ++.- .|.-...+-+.+.+++|..||--
T Consensus       287 -napicfefakygfcelgtscknqhilqct----dyam-fgscnnpqcslyhgavsadvpeq  342 (377)
T KOG1492|consen  287 -NAPICFEFAKYGFCELGTSCKNQHILQCT----DYAM-FGSCNNPQCSLYHGAVSADVPEQ  342 (377)
T ss_pred             -CCceeeeehhcceeccccccccceeeeec----chhh-hcCCCCCcceeecceeccCCccc
Confidence             13369999999999999999998864321    1110 11111223344555666666653

>KOG2494|consensus

Probab=96.62  E-value=0.00054  Score=73.72  Aligned_cols=62  Identities=23%  Similarity=0.525  Sum_probs=49.4

Q ss_pred             CCCCCCcCCCCCCCCCCCCCCCC-cccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhccc
Q psy3120         371 TPCPNVKHGDEWGEPANCESGDL-CQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANAR  443 (711)
Q Consensus       371 ~LCP~fkkG~~w~~~G~Cp~Gds-C~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~~  443 (711)
                      +.|+.|.++       .|.+||. |+|+|--.-.  +-..-+-..|.|++ +|.|.+ +.|.|.|...+++...
T Consensus        38 eVCReF~rn-------~C~R~d~~CkfaHP~~~~--~V~~g~v~aC~Ds~-kgrCsR-~nCkylHpp~hlkdql  100 (331)
T KOG2494|consen   38 EVCREFLRN-------TCSRGDRECKFAHPPKNC--QVSNGRVIACFDSQ-KGRCSR-ENCKYLHPPQHLKDQL  100 (331)
T ss_pred             HHHHHHHhc-------cccCCCccccccCCCCCC--CccCCeEEEEeccc-cCccCc-ccceecCCChhhhhhh
Confidence            679999876       8999999 9999975522  22334566799998 589999 7899999999987743

>KOG4791|consensus

Probab=96.45  E-value=0.0017  Score=72.83  Aligned_cols=84  Identities=21%  Similarity=0.575  Sum_probs=59.5

Q ss_pred             ccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCccCCCcccccccc
Q psy3120         166 EQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHL  245 (711)
Q Consensus       166 k~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP  245 (711)
                      .-|.+|.++.|.+++  .|+|.|...-+            ++.+  .|..|. ..-.|.+  .|+|.|+   .+-++   
T Consensus         4 ~dcyff~ys~cKk~d--~c~~rh~E~al------------~n~t--~C~~w~-~~~~C~k--~C~YRHS---e~~~k---   58 (667)
T KOG4791|consen    4 EDCYFFFYSTCKKGD--SCPFRHCEAAL------------GNET--VCTLWQ-EGRCCRK--VCRYRHS---EIDKK---   58 (667)
T ss_pred             ccchhhhhhhhhccC--cCcchhhHHHh------------cCcc--hhhhhh-hcCcccc--cccchhh---HHhhh---
Confidence            358889999999997  99999985422            2333  699886 3455764  9999997   23222   


Q ss_pred             ccccccccccccccccc-ccccccccCCCCCCCCCC
Q psy3120         246 RYYKTCMCVHDTDARGL-CVKNGAHCAFAHGNPDLR  280 (711)
Q Consensus       246 ~~YKTklCk~~~~~kG~-C~K~G~~C~FAHg~~ELR  280 (711)
                        ..-.+|.+|.+  ++ |.  ...|-|-|.--+|.
T Consensus        59 --r~e~~CYwe~~--p~gC~--k~~CgfRH~~pPLk   88 (667)
T KOG4791|consen   59 --RSEIPCYWENQ--PTGCQ--KLNCGFRHNRPPLK   88 (667)
T ss_pred             --cCcccceeecC--CCccC--CCccccccCCCchh
Confidence              34568988864  45 97  59999999654444

>smart00356 ZnF_C3H1 zinc finger

Probab=96.42  E-value=0.0018  Score=44.64  Aligned_cols=26  Identities=46%  Similarity=0.858  Sum_probs=22.7

Q ss_pred             cccccccccccccccccccccccCCCCCC
Q psy3120         248 YKTCMCVHDTDARGLCVKNGAHCAFAHGN  276 (711)
Q Consensus       248 YKTklCk~~~~~kG~C~K~G~~C~FAHg~  276 (711)
                      +|+.+|.+|.  .|.|. +|+.|+|+|..
T Consensus         2 ~k~~~C~~~~--~g~C~-~g~~C~~~H~~   27 (27)
T smart00356        2 YKTELCKFFK--RGYCP-YGDRCKFAHPL   27 (27)
T ss_pred             CCCCcCcCcc--CCCCC-CCCCcCCCCcC
Confidence            7899999994  58996 99999999974

>KOG2333|consensus

Probab=96.38  E-value=0.0015  Score=73.60  Aligned_cols=65  Identities=31%  Similarity=0.753  Sum_probs=48.7

Q ss_pred             CCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccc--cccccccccccCccccCCCCCCCCCCC--Ccchhh
Q psy3120         369 RSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFH--PEIYKSTKCNDVQQAGYCPRGVFCAFA--HVDTEM  439 (711)
Q Consensus       369 kT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yH--P~~YKTklC~~fq~tG~Cp~G~~C~FA--HgeaEL  439 (711)
                      ...+||.+..+    +...|++|++|+|-|..+..+..  |+.  --.|.-|...|.||+|..|+|+  |-..+-
T Consensus        75 ~n~LCPsli~g----~~~~C~f~d~Crf~HDi~ayLatK~~Di--g~~Cp~f~s~G~Cp~G~~CRFl~aHld~~g  143 (614)
T KOG2333|consen   75 QNRLCPSLIQG----DISKCSFGDNCRFVHDIEAYLATKAPDI--GPSCPVFESLGFCPYGFKCRFLGAHLDIEG  143 (614)
T ss_pred             hhccChHhhcC----CCccCcccccccccccHHHHHhccCccc--CCccceeeccccCCccceeehhhcccCccc
Confidence            36899999765    44699999999999998754422  111  1349999999999999999996  544433

>KOG1763|consensus

Probab=96.15  E-value=0.0011  Score=70.80  Aligned_cols=70  Identities=26%  Similarity=0.498  Sum_probs=51.5

Q ss_pred             ccccccccccCcccCCCCCcccCCCCCCCCCCCCCCC---------------------CCCCcccccccccccccc----
Q psy3120         164 RVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRK---------------------RDGSFNYSPDTYCTKYDE----  218 (711)
Q Consensus       164 KTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r---------------------~dGt~nYst~~lCpkf~e----  218 (711)
                      |+..|.+|.+|.|++|+  .|.|+|..+..|+.+-..                     ..|...-.++..|..|.+    
T Consensus        91 KSvvCafFk~g~C~KG~--kCKFsHdl~~~~k~eK~dly~d~rdemWD~~kl~~vv~~K~~k~k~~tdiVCKfFLeAvE~  168 (343)
T KOG1763|consen   91 KSVVCAFFKQGTCTKGD--KCKFSHDLAVERKKEKIDLYPDTRDEMWDEEKLEEVVLKKHGKPKPTTDIVCKFFLEAVEN  168 (343)
T ss_pred             hHHHHHHHhccCCCCCC--cccccchHHHhhhccchhccccchhhhhhHHHHHHHHHhhccCCCCchhHHHHHHHHHHhc
Confidence            67789999999999997  999999999999877421                     111122234568987753    


Q ss_pred             ----ccCCCCCC-CCCCCCccC
Q psy3120         219 ----TTGLCPDG-DECPFLHRT  235 (711)
Q Consensus       219 ----~tG~Cp~G-D~C~FAHs~  235 (711)
                          --..||.| +.|.|.|.+
T Consensus       169 ~kYGWfW~CPnGg~~C~YrHaL  190 (343)
T KOG1763|consen  169 GKYGWFWECPNGGDKCIYRHAL  190 (343)
T ss_pred             CCccceeECCCCCCeeeeeecC
Confidence                12479996 699999974

>KOG2333|consensus

Probab=95.44  E-value=0.0059  Score=69.05  Aligned_cols=57  Identities=25%  Similarity=0.459  Sum_probs=41.0

Q ss_pred             cccccccccc--CCCCCCCCCCCCccCCCcccccc---cccccccccccccccccccccccccccCCCCCC
Q psy3120         211 TYCTKYDETT--GLCPDGDECPFLHRTAGDTERRY---HLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN  276 (711)
Q Consensus       211 ~lCpkf~e~t--G~Cp~GD~C~FAHs~~G~~E~~y---HP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~  276 (711)
                      .+||..- ..  ..|++||+|+|.|+    .|...   .|+.-  --|.-|. +.|.|+ ||-.|+|+-+.
T Consensus        77 ~LCPsli-~g~~~~C~f~d~Crf~HD----i~ayLatK~~Dig--~~Cp~f~-s~G~Cp-~G~~CRFl~aH  138 (614)
T KOG2333|consen   77 RLCPSLI-QGDISKCSFGDNCRFVHD----IEAYLATKAPDIG--PSCPVFE-SLGFCP-YGFKCRFLGAH  138 (614)
T ss_pred             ccChHhh-cCCCccCccccccccccc----HHHHHhccCcccC--Cccceee-ccccCC-ccceeehhhcc
Confidence            6999885 44  68999999999996    45421   11111  2398886 479998 99999997543

>KOG3702|consensus

Probab=94.78  E-value=0.072  Score=62.18  Aligned_cols=70  Identities=24%  Similarity=0.421  Sum_probs=45.5

Q ss_pred             CCCCCCCCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCC
Q psy3120         348 YACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRG  427 (711)
Q Consensus       348 ~~CpFAHn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G  427 (711)
                      .+|+|.|...   +.|..  |++.+|+.=..    ...+-|.|+-.|+.-   .=..|||.     .|++..   +|+..
T Consensus       597 sDC~~sH~~~---~~pvq--~t~ip~~~~~~----ti~~~CrY~pnCrnm---~C~F~HPk-----~cRf~~---~c~~~  656 (681)
T KOG3702|consen  597 SDCNYSHAGR---RIPVQ--PTRIPPPFPGG----TIRGLCRYRPNCRNM---QCKFYHPK-----TCRFNT---NCPNN  656 (681)
T ss_pred             ccCcccccCC---CCCCc--cccCCCCCCCC----CccccceeccCcCCc---cccccCCc-----cccccc---cCCCC
Confidence            7999999863   44554  55666664311    234567777766521   11136665     688876   68877


Q ss_pred             CCCCCCCcch
Q psy3120         428 VFCAFAHVDT  437 (711)
Q Consensus       428 ~~C~FAHgea  437 (711)
                      ..|-|+|...
T Consensus       657 ~sc~fYh~r~  666 (681)
T KOG3702|consen  657 PSCTFYHERP  666 (681)
T ss_pred             cccccccCCc
Confidence            8999999865

>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]

Probab=94.60  E-value=0.0067  Score=63.31  Aligned_cols=72  Identities=24%  Similarity=0.484  Sum_probs=52.0

Q ss_pred             ccccccccccccCcccCCCCCcccCCCCCCCCCCCCCC------------CCCCCcc-cccccccccccc--------cc
Q psy3120         162 EFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVR------------KRDGSFN-YSPDTYCTKYDE--------TT  220 (711)
Q Consensus       162 ~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~------------r~dGt~n-Yst~~lCpkf~e--------~t  220 (711)
                      .=|+..|..|..+.|.+|+  .|.|+|..++.|+.--.            .+.+... -.++..|.+|-+        -.
T Consensus        82 dpK~~vcalF~~~~c~kg~--~ckF~h~~ee~r~~eK~DLYsDvRd~~ed~pl~krP~intd~VCkffieA~e~GkYgw~  159 (299)
T COG5252          82 DPKTVVCALFLNKTCAKGD--ACKFAHGKEEARKTEKPDLYSDVRDKEEDVPLGKRPWINTDRVCKFFIEAMESGKYGWG  159 (299)
T ss_pred             CchhHHHHHhccCccccCc--hhhhhcchHHHhhhcccchhhhhhhhhccCCcccCCCCChhHHHHHHHHHHhcCCccce
Confidence            3478899999999999997  89999999998875421            0111111 125689987743        22


Q ss_pred             CCCCCC-CCCCCCccC
Q psy3120         221 GLCPDG-DECPFLHRT  235 (711)
Q Consensus       221 G~Cp~G-D~C~FAHs~  235 (711)
                      ..||+| +.|-|.|.+
T Consensus       160 W~CPng~~~C~y~H~L  175 (299)
T COG5252         160 WTCPNGNMRCSYIHKL  175 (299)
T ss_pred             eeCCCCCceeeeeecc
Confidence            479996 899999975

>KOG1763|consensus

Probab=93.29  E-value=0.014  Score=62.48  Aligned_cols=31  Identities=23%  Similarity=0.378  Sum_probs=25.9

Q ss_pred             cccccCCCC-CCCCCCCCCCCCCCCcCccCCC
Q psy3120         333 KTEQCKRPP-RLCRQGYACPQFHNSRDKRRSP  363 (711)
Q Consensus       333 KTklC~~~~-G~C~~G~~CpFAHn~kDlRR~P  363 (711)
                      |+..|-+|. |.|..|+.|.|+|+....|+.+
T Consensus        91 KSvvCafFk~g~C~KG~kCKFsHdl~~~~k~e  122 (343)
T KOG1763|consen   91 KSVVCAFFKQGTCTKGDKCKFSHDLAVERKKE  122 (343)
T ss_pred             hHHHHHHHhccCCCCCCcccccchHHHhhhcc
Confidence            788999985 8999999999999986555554

>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type

Probab=89.10  E-value=0.28  Score=32.68  Aligned_cols=19  Identities=42%  Similarity=0.910  Sum_probs=15.3

Q ss_pred             ccCCCCCCCCCCCCCCCCCC
Q psy3120         336 QCKRPPRLCRQGYACPQFHN  355 (711)
Q Consensus       336 lC~~~~G~C~~G~~CpFAHn  355 (711)
                      +|+++.+ |.++++|+|+|.
T Consensus         1 ~Ck~~~~-C~~~~~C~f~HP   19 (19)
T PF14608_consen    1 PCKFGPN-CTNGDNCPFSHP   19 (19)
T ss_pred             CCcCcCC-CCCCCcCccCCc
Confidence            4776655 999999999994

>KOG2185|consensus

Probab=87.05  E-value=0.36  Score=54.12  Aligned_cols=31  Identities=26%  Similarity=0.461  Sum_probs=26.6

Q ss_pred             ccccccccccccccccccccccccccccCCCCCC
Q psy3120         243 YHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGN  276 (711)
Q Consensus       243 yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~  276 (711)
                      .||+.---++|++|+  .|.| +++..|+|.||.
T Consensus       133 l~PTh~sMkpC~ffL--eg~C-RF~enCRfSHG~  163 (486)
T KOG2185|consen  133 LTPTHESMKPCKFFL--EGRC-RFGENCRFSHGL  163 (486)
T ss_pred             ecCcchhhccchHhh--cccc-ccCcccccccCc
Confidence            468777788999998  4889 599999999996

>COG5252 Uncharacterized conserved protein, contains CCCH-type Zn-finger protein [General function prediction only]

Probab=86.79  E-value=0.14  Score=53.85  Aligned_cols=30  Identities=30%  Similarity=0.547  Sum_probs=24.8

Q ss_pred             cccccCCCC-CCCCCCCCCCCCCCCcCccCC
Q psy3120         333 KTEQCKRPP-RLCRQGYACPQFHNSRDKRRS  362 (711)
Q Consensus       333 KTklC~~~~-G~C~~G~~CpFAHn~kDlRR~  362 (711)
                      ||..|..|. +.|..|+.|.|+|..++-|+.
T Consensus        84 K~~vcalF~~~~c~kg~~ckF~h~~ee~r~~  114 (299)
T COG5252          84 KTVVCALFLNKTCAKGDACKFAHGKEEARKT  114 (299)
T ss_pred             hhHHHHHhccCccccCchhhhhcchHHHhhh
Confidence            788898884 889999999999997665543

>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4)

Probab=86.33  E-value=0.22  Score=53.82  Aligned_cols=8  Identities=25%  Similarity=0.501  Sum_probs=0.0

Q ss_pred             HHHhccCC
Q psy3120          11 EISRLSGT   18 (711)
Q Consensus        11 elE~l~~~   18 (711)
                      ++|+=+++
T Consensus         4 ~~~rg~~g   11 (381)
T PF05297_consen    4 DLNRGRGG   11 (381)
T ss_dssp             --------
T ss_pred             ccccCCCC
Confidence            34443333

LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=85.84  E-value=0.33  Score=50.08  Aligned_cols=33  Identities=30%  Similarity=0.780  Sum_probs=28.5

Q ss_pred             ccccccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         404 QFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       404 ~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      .|+|.     .|.+|..+|+|-||+-|.|.|..++...
T Consensus       138 D~qpd-----VCKdyk~TGYCGYGDsCKflH~R~D~Kt  170 (259)
T COG5152         138 DTQPD-----VCKDYKETGYCGYGDSCKFLHDRSDFKT  170 (259)
T ss_pred             ecCcc-----cccchhhcccccCCchhhhhhhhhhhhc
Confidence            46776     6999999999999999999999887654

>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]

Probab=85.44  E-value=0.34  Score=49.99  Aligned_cols=28  Identities=43%  Similarity=0.994  Sum_probs=24.6

Q ss_pred             ccccccccccccccccCCCCCCCCCCCCcc
Q psy3120         205 FNYSPDTYCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       205 ~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      ..|.+ ..|..|. .+|.|-|||.|.|+|.
T Consensus       137 iD~qp-dVCKdyk-~TGYCGYGDsCKflH~  164 (259)
T COG5152         137 IDTQP-DVCKDYK-ETGYCGYGDSCKFLHD  164 (259)
T ss_pred             eecCc-ccccchh-hcccccCCchhhhhhh
Confidence            35777 4899998 7999999999999996

>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT)

Probab=84.42  E-value=17  Score=35.99  Aligned_cols=11  Identities=18%  Similarity=0.283  Sum_probs=5.8

Q ss_pred             HHHHHHHHhhH
Q psy3120          39 KCIQSQLRGDL   49 (711)
Q Consensus        39 ~slQsQLr~dL   49 (711)
                      +.+-+|+..|.
T Consensus        54 ~~iA~~i~~~~   64 (181)
T PF08006_consen   54 KEIAREILAEY   64 (181)
T ss_pred             HHHHHHHHHhh
Confidence            44555555553

>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type

Probab=83.68  E-value=0.8  Score=30.53  Aligned_cols=19  Identities=32%  Similarity=0.683  Sum_probs=14.6

Q ss_pred             ccccCccccCCCCCCCCCCCCc
Q psy3120         414 KCNDVQQAGYCPRGVFCAFAHV  435 (711)
Q Consensus       414 lC~~fq~tG~Cp~G~~C~FAHg  435 (711)
                      +|++|.   .|.+++.|.|+|.
T Consensus         1 ~Ck~~~---~C~~~~~C~f~HP   19 (19)
T PF14608_consen    1 PCKFGP---NCTNGDNCPFSHP   19 (19)
T ss_pred             CCcCcC---CCCCCCcCccCCc
Confidence            477775   4888889999884

>KOG2185|consensus

Probab=82.73  E-value=0.73  Score=51.74  Aligned_cols=32  Identities=25%  Similarity=0.421  Sum_probs=26.4

Q ss_pred             cccccccccccccCccccCCCCCCCCCCCCcch
Q psy3120         405 FHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDT  437 (711)
Q Consensus       405 yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgea  437 (711)
                      .||.---.++|.+|. .|.|.++..|+|.||..
T Consensus       133 l~PTh~sMkpC~ffL-eg~CRF~enCRfSHG~~  164 (486)
T KOG2185|consen  133 LTPTHESMKPCKFFL-EGRCRFGENCRFSHGLD  164 (486)
T ss_pred             ecCcchhhccchHhh-ccccccCcccccccCcc
Confidence            356655678899998 58999999999999964

>KOG1813|consensus

Probab=82.04  E-value=0.45  Score=51.44  Aligned_cols=29  Identities=48%  Similarity=1.127  Sum_probs=25.8

Q ss_pred             CccccccccccccccccCCCCCCCCCCCCcc
Q psy3120         204 SFNYSPDTYCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       204 t~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      ...|.++ +|..|. .+|.|-+||.|.|.|.
T Consensus       181 ~~d~qpD-icKdyk-eTgycg~gdSckFlh~  209 (313)
T KOG1813|consen  181 RIDYQPD-ICKDYK-ETGYCGYGDSCKFLHD  209 (313)
T ss_pred             eeecCch-hhhhhH-hhCcccccchhhhhhh
Confidence            4678885 999997 7999999999999996

>KOG3702|consensus

Probab=81.92  E-value=5  Score=47.61  Aligned_cols=85  Identities=22%  Similarity=0.442  Sum_probs=48.8

Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCcC--ccCCCC-----ccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccc
Q psy3120         334 TEQCKRPPRLCRQGYACPQFHNSRD--KRRSPR-----TFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFH  406 (711)
Q Consensus       334 TklC~~~~G~C~~G~~CpFAHn~kD--lRR~P~-----~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yH  406 (711)
                      ..+|+++. .|. +..|-|+|..-.  ...-|.     ...|....|.+=         ..|.. ..|.|+|+..-.   
T Consensus       544 l~~Cky~~-~Ct-~a~Ce~~HPtaa~~~~s~p~k~fa~~~~ks~p~Ck~~---------~kCta-sDC~~sH~~~~~---  608 (681)
T KOG3702|consen  544 LTRCKYGP-ACT-SAECEFAHPTAAENAKSLPNKKFASKCLKSHPGCKFG---------KKCTA-SDCNYSHAGRRI---  608 (681)
T ss_pred             eccccCCC-cCC-chhhhhcCCcchhhhhccccccccccceecccccccc---------ccccc-ccCcccccCCCC---
Confidence            45677653 355 789999998732  222222     122333444432         35643 568999987543   


Q ss_pred             ccccc-----------ccccccCccccCCCCCCCCCCCCcch
Q psy3120         407 PEIYK-----------STKCNDVQQAGYCPRGVFCAFAHVDT  437 (711)
Q Consensus       407 P~~YK-----------TklC~~fq~tG~Cp~G~~C~FAHgea  437 (711)
                      |-.+|           +.+|+++   ++|.. ..|+|.|...
T Consensus       609 pvq~t~ip~~~~~~ti~~~CrY~---pnCrn-m~C~F~HPk~  646 (681)
T KOG3702|consen  609 PVQPTRIPPPFPGGTIRGLCRYR---PNCRN-MQCKFYHPKT  646 (681)
T ss_pred             CCccccCCCCCCCCCccccceec---cCcCC-ccccccCCcc
Confidence            22223           3456665   35775 7999999754

>PF05656 DUF805: Protein of unknown function (DUF805); InterPro: IPR008523 This entry is represented by Lactobacillus phage LBR48, DUF805

Probab=81.65  E-value=16  Score=33.24  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=15.7

Q ss_pred             ccccccccccceEehhHHHHHHHHH
Q psy3120          65 MVCEFVRKRSKYIIIIIIIIIIIII   89 (711)
Q Consensus        65 ~~C~e~~~~~~~~~~~~~~~~~~~~   89 (711)
                      ...+.+..|..|....++.+++.++
T Consensus         3 f~f~GR~~R~~fw~~~l~~~~~~~~   27 (120)
T PF05656_consen    3 FNFKGRISRKEFWWFFLINILIFIL   27 (120)
T ss_pred             ccCcCCcCHHHHHHHHHHHHHHHHH
Confidence            3556788888888666554444333

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0016021 integral to membrane

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	711
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	2e-12
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	2e-07
2rhk_C	72	Cleavage and polyadenylation specificity factor su	1e-05
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	2e-05
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	4e-04
4djk_A	511	Probable glutamate/gamma-aminobutyrate antiporter;	2e-05
4djk_A	511	Probable glutamate/gamma-aminobutyrate antiporter;	7e-05
4djk_A	511	Probable glutamate/gamma-aminobutyrate antiporter;	1e-04
4djk_A	511	Probable glutamate/gamma-aminobutyrate antiporter;	2e-04
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	6e-05
3sqn_A	485	Conserved domain protein; structural genomics, PSI	1e-04
4aps_A	491	DI-OR tripeptide H+ symporter; transport protein,	3e-04
3dh4_A	530	Sodium/glucose cotransporter; membrane protein, sy	4e-04
2xq2_A	593	Sodium/glucose cotransporter; transport protein, i	8e-04

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A Length = 77

 Score = 61.9 bits (150), Expect = 2e-12
 Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 8/80 (10%)

Query: 361 RSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHP--EIYKSTKCNDV 418
               + +Y++  C        + E   C  G  CQ+ H   E +       YK+  C+  
Sbjct: 3   HMTTSSRYKTELCRT------YSESGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKF 56

Query: 419 QQAGYCPRGVFCAFAHVDTE 438
           +  G CP G  C F H  TE
Sbjct: 57  KLQGRCPYGSRCHFIHNPTE 76

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A Length = 77

 Score = 48.0 bits (114), Expect = 2e-07
 Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 4/63 (6%)

Query: 213 CTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAF 272
           C  Y   +G C  G +C F H   G+  +      YKT +C H    +G C   G+ C F
Sbjct: 15  CRTY-SESGRCRYGAKCQFAH-GLGELRQANRHPKYKTELC-HKFKLQGRC-PYGSRCHF 70

Query: 273 AHG 275
            H 
Sbjct: 71  IHN 73

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens} Length = 72

 Score = 42.9 bits (101), Expect = 1e-05
 Identities = 18/68 (26%), Positives = 26/68 (38%), Gaps = 15/68 (22%)

Query: 213 CTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAF 272
           C  +    GLC  GD+C FLH         Y +     C   +     G C  +   C F
Sbjct: 19  CKHWLR--GLCKKGDQCEFLH--------EYDMTKMSEC---YFYSKFGEC--SNKECPF 63

Query: 273 AHGNPDLR 280
            H +P+ +
Sbjct: 64  LHIDPESK 71

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 77

 Score = 42.6 bits (100), Expect = 2e-05
 Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 13/63 (20%)

Query: 221 GLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLR 280
           GLC  GD+C FLH    D  +     +Y            G C  +   C F H +P+ +
Sbjct: 19  GLCKKGDQCEFLHEY--DMTKMPECYFYSKF---------GEC--SNKECPFLHIDPESK 65

Query: 281 PPV 283
              
Sbjct: 66  IKD 68

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 77

 Score = 38.7 bits (90), Expect = 4e-04
 Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 15/77 (19%)

Query: 362 SPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQA 421
           S  +   ++  C +   G        C+ GD C++ H     ++     K  +C    + 
Sbjct: 2   SSGSSGEKTVVCKHWLRG-------LCKKGDQCEFLH-----EYDMT--KMPECYFYSKF 47

Query: 422 GYCPRGVFCAFAHVDTE 438
           G C     C F H+D E
Sbjct: 48  GECSNKE-CPFLHIDPE 63

>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT, glutamate-GABA antiporter, transport protein; 3.10A {Escherichia coli} PDB: 4dji_A Length = 511

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 12/74 (16%), Positives = 26/74 (35%)

Query: 85  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 144
           I   I  +II+  + +           I  +     I++   I+I +  I +     + I
Sbjct: 128 ITKTIAALIILWALALTQFGGTKYTARIAKVGFFAGILLPAFILIALAAIYLHSGAPVAI 187

Query: 145 IIIIIDLIFDFTFM 158
            +       DF+ +
Sbjct: 188 EMDSKTFFPDFSKV 201

>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT, glutamate-GABA antiporter, transport protein; 3.10A {Escherichia coli} PDB: 4dji_A Length = 511

 Score = 44.9 bits (106), Expect = 7e-05
 Identities = 13/97 (13%), Positives = 29/97 (29%), Gaps = 9/97 (9%)

Query: 76  YIIIIIIIIIIIIIIIIIII---------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
             I  I ++  ++  +  I+         I   I  +II+  + +           I  +
Sbjct: 99  IAIGFIPMLYFVLGALSYILKWPALNEDPITKTIAALIILWALALTQFGGTKYTARIAKV 158

Query: 127 IIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEF 163
                I++   I+I +  I +               F
Sbjct: 159 GFFAGILLPAFILIALAAIYLHSGAPVAIEMDSKTFF 195

>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT, glutamate-GABA antiporter, transport protein; 3.10A {Escherichia coli} PDB: 4dji_A Length = 511

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 12/85 (14%), Positives = 29/85 (34%), Gaps = 11/85 (12%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIII-----------IIIIIIIIIIIIIIIIIIIIIIIII 124
             + I I  I ++  ++  +  I+             I  +II+  + +           
Sbjct: 95  GYLQIAIGFIPMLYFVLGALSYILKWPALNEDPITKTIAALIILWALALTQFGGTKYTAR 154

Query: 125 IIIIIIIIIIIIIIIIIIIIIIIII 149
           I  +     I++   I+I +  I +
Sbjct: 155 IAKVGFFAGILLPAFILIALAAIYL 179

>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT, glutamate-GABA antiporter, transport protein; 3.10A {Escherichia coli} PDB: 4dji_A Length = 511

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 8/55 (14%), Positives = 18/55 (32%)

Query: 74  SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 128
                 I  +II+  + +           I  +     I++   I+I +  I + 
Sbjct: 126 DPITKTIAALIILWALALTQFGGTKYTARIAKVGFFAGILLPAFILIALAAIYLH 180

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1 Length = 98

 Score = 41.6 bits (97), Expect = 6e-05
 Identities = 14/79 (17%), Positives = 17/79 (21%), Gaps = 19/79 (24%)

Query: 359 KRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDV 418
              S      +   C     G        C   + C Y H                C   
Sbjct: 2   SSGSSGELPKKRELCKFYITG-------FCARAENCPYMHGDFP------------CKLY 42

Query: 419 QQAGYCPRGVFCAFAHVDT 437
              G C  G  C F+H   
Sbjct: 43  HTTGNCINGDDCMFSHDPL 61

>3sqn_A Conserved domain protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MGA family; 2.31A {Enterococcus faecalis} Length = 485

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 14/135 (10%), Positives = 34/135 (25%)

Query: 28  ADLNSMSISALKCIQSQLRGDLEKVDKILYLQTATKCMVCEFVRKRSKYIIIIIIIIIII 87
              + +S   LK    ++   L      + L T T  ++      R  Y  +++      
Sbjct: 115 LSTSGVSYETLKRHIKKMNQALRDFHLTIQLTTMTIQLIGAESNIRIFYHRLLVPFTHNN 174

Query: 88  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 147
                  I        +  +    + +    I       I  I       +         
Sbjct: 175 YFFDDYSIHEEHYFQFLKQVYSSELTVETEEIFGACWFFINTIRNKANCRVSQFSFDSKD 234

Query: 148 IIDLIFDFTFMYLKE 162
           ++  ++  +   L  
Sbjct: 235 VLFQLYQPSLAKLYA 249

>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide transport, major facilitator SUPE transporter, MFS; 3.30A {Streptococcus thermophilus} Length = 491

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 8/53 (15%), Positives = 25/53 (47%)

Query: 112 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFR 164
           +++ + + +   I II+++ ++    +   I ++ I+   I  F F ++    
Sbjct: 220 LLVKVSLAVAGFIAIIVVMNLVGWNSLPAYINLLTIVAIAIPVFYFAWMISSV 272

>3dh4_A Sodium/glucose cotransporter; membrane protein, symporter, sugar transport, SGLT, ION TRAN membrane, sodium transport, symport; HET: GAL; 2.70A {Vibrio parahaemolyticus} Length = 530

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 15/96 (15%), Positives = 43/96 (44%), Gaps = 11/96 (11%)

Query: 68  EFVRKR-SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
           EFV KR +K +  I+ +  I + I + +  ++ +  + +  I+ I ++  I+ + +  ++
Sbjct: 87  EFVEKRFNKKLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALV 146

Query: 127 IIII----------IIIIIIIIIIIIIIIIIIIDLI 152
             I           +I +  +++   +   + +  I
Sbjct: 147 YSIYGGLSAVVWTDVIQVFFLVLGGFMTTYMAVSFI 182

>2xq2_A Sodium/glucose cotransporter; transport protein, inverted repeats, LEUT-fold, galactose; 2.73A {Vibrio parahaemolyticus} PDB: 2xq2_B 2kpe_A Length = 593

 Score = 41.7 bits (98), Expect = 8e-04
 Identities = 15/96 (15%), Positives = 43/96 (44%), Gaps = 11/96 (11%)

Query: 68  EFVRKR-SKYIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 126
           EFV KR +K +  I+ +  I + I + +  ++ +  + +  I+ I ++  I+ + +  ++
Sbjct: 116 EFVEKRFNKKLKTILAVFWISLYIFVNLTSVLYLGGLALETILGIPLMYSILGLALFALV 175

Query: 127 IIII----------IIIIIIIIIIIIIIIIIIIDLI 152
             I           +I +  +++   +   + +  I
Sbjct: 176 YSIYGGLSAVVWTDVIQVFFLVLGGFMTTYMAVSFI 211

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	711
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	99.42
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	99.24
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	98.69
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	98.67
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	98.62
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	98.6
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	98.55
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	98.51
2rhk_C	72	Cleavage and polyadenylation specificity factor su	98.29
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	98.26
2d9m_A	69	Zinc finger CCCH-type domain containing protein 7A	98.24
2rhk_C	72	Cleavage and polyadenylation specificity factor su	98.19
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	98.11
2d9m_A	69	Zinc finger CCCH-type domain containing protein 7A	97.85
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	97.66
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	97.54
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	97.42
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	97.32
3u9g_A	229	Zinc finger CCCH-type antiviral protein 1; zinc fi	96.01
3u9g_A	229	Zinc finger CCCH-type antiviral protein 1; zinc fi	95.67
2lhn_A	80	Nuclear polyadenylated RNA-binding protein NAB2; n	92.17
2fc6_A	50	Nuclear, target of EGR1, member 1; structure genom	92.16
2fc6_A	50	Nuclear, target of EGR1, member 1; structure genom	92.1
2lhn_A	80	Nuclear polyadenylated RNA-binding protein NAB2; n	89.62
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	80.71

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=99.42  E-value=3.9e-14  Score=118.78  Aligned_cols=66  Identities=30%  Similarity=0.656  Sum_probs=28.8

Q ss_pred             ccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccc--cccccccccccCccccCCCCCCCCCCCCcchh
Q psy3120         367 KYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFH--PEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE  438 (711)
Q Consensus       367 kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yH--P~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaE  438 (711)
                      +|++++|+.|..      .|.|++|++|+|+|+..|++..  ...|||++|.+|...|.|++|.+|+|+|+..|
T Consensus         9 ~~kt~~C~~f~~------~G~C~~G~~C~f~H~~~e~~~~~~~~~~k~~~C~~f~~~G~C~~G~~C~f~H~~~e   76 (77)
T 1m9o_A            9 RYKTELCRTYSE------SGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKLQGRCPYGSRCHFIHNPTE   76 (77)
T ss_dssp             CCCSCCCSGGGG------TSCCTTTTTCSSCSSSCCGGGTC---------------------------------
T ss_pred             CccchhCHHhhh------CCCcCCCCCccCCCCChhhccccccccccCCcccchhhCcCCCCcCcCCCCCCCCC
Confidence            588999999852      2699999999999999998842  23599999999988999999999999999876

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=99.24  E-value=2.2e-12  Score=108.18  Aligned_cols=67  Identities=34%  Similarity=0.649  Sum_probs=29.8

Q ss_pred             ccccccccCCC--CCCCCCCCCCCCCCCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccc
Q psy3120         330 SNYKTEQCKRP--PRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTE  402 (711)
Q Consensus       330 ~~YKTklC~~~--~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~E  402 (711)
                      ..|||++|++|  .|.|.+|++|.|+|+..++|..+..-.|++.+|+.|..      .|.|++|++|+|+|+..|
T Consensus         8 ~~~kt~~C~~f~~~G~C~~G~~C~f~H~~~e~~~~~~~~~~k~~~C~~f~~------~G~C~~G~~C~f~H~~~e   76 (77)
T 1m9o_A            8 SRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKL------QGRCPYGSRCHFIHNPTE   76 (77)
T ss_dssp             SCCCSCCCSGGGGTSCCTTTTTCSSCSSSCCGGGTC---------------------------------------
T ss_pred             CCccchhCHHhhhCCCcCCCCCccCCCCChhhccccccccccCCcccchhh------CcCCCCcCcCCCCCCCCC
Confidence            35899999988  48999999999999999988654444678999998753      479999999999999876

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=98.69  E-value=6.3e-09  Score=92.59  Aligned_cols=52  Identities=23%  Similarity=0.478  Sum_probs=45.7

Q ss_pred             cCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchh
Q psy3120         368 YRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE  438 (711)
Q Consensus       368 YkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaE  438 (711)
                      +++.+|+.|..       |.|.+|++|+|+|.            +.+|..|...|.|++|+.|+|+|....
T Consensus        11 ~k~~lC~~f~~-------G~C~~G~~C~f~H~------------~~~C~~f~~~G~C~~G~~C~f~H~~~~   62 (98)
T 2cqe_A           11 KKRELCKFYIT-------GFCARAENCPYMHG------------DFPCKLYHTTGNCINGDDCMFSHDPLT   62 (98)
T ss_dssp             CCCSBCTTTTT-------TCCSCSTTCSSBSS------------SSBCSHHHHTSCCSSCTTCSSBCCCCC
T ss_pred             CCCccCccccc-------CcCCCCCCCCCCCC------------CCcCcCcccCCcCCCCCCCcccCCCCc
Confidence            56899999865       59999999999998            568999977899999999999998643

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=98.67  E-value=3.1e-09  Score=88.90  Aligned_cols=63  Identities=24%  Similarity=0.574  Sum_probs=56.1

Q ss_pred             CCCCCCCcCCCCCCCCCCCCCCCC-cccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         370 STPCPNVKHGDEWGEPANCESGDL-CQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       370 T~LCP~fkkG~~w~~~G~Cp~Gds-C~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      .+.|+.|.+|       .|.+|++ |+|+|..++....+..+++..|.+|.+ |.|.+| .|+|.|...+|+.
T Consensus         6 ~~vC~~f~~G-------~C~rg~~~C~f~H~~~~~~~~~~~~~~~vC~~flk-G~C~r~-~C~y~H~~~~L~~   69 (70)
T 3d2q_A            6 LEVCREYQRG-------NCNRGENDCRFAHPADSTMIDTNDNTVTVCMDYIK-GRCSRE-KCKYFHPPAHLQA   69 (70)
T ss_dssp             EEBCHHHHTT-------CCSSCTTTCSSBCCCTTSCCBTTTTEEEBCHHHHT-TCCCCT-TCCSBCCCHHHHC
T ss_pred             chhCHHHhcC-------CCCCCCCCCCCccCcccccccccCCcceeccccCc-CCCCCC-CcCeeCCHHHHhc
Confidence            5689999765       8999994 999999988877888899999999985 999998 9999999998874

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=98.62  E-value=4.7e-09  Score=87.87  Aligned_cols=61  Identities=23%  Similarity=0.609  Sum_probs=51.5

Q ss_pred             ccccccccccCCCCCCC-CCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCC
Q psy3120         211 TYCTKYDETTGLCPDGD-ECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLR  280 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD-~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR  280 (711)
                      .+|+.|  ..|.|.+|| .|+|+|.   ..+.+.++...++.+|.+|.  +|.|. +| .|+|+|.+.+|+
T Consensus         7 ~vC~~f--~~G~C~rg~~~C~f~H~---~~~~~~~~~~~~~~vC~~fl--kG~C~-r~-~C~y~H~~~~L~   68 (70)
T 3d2q_A            7 EVCREY--QRGNCNRGENDCRFAHP---ADSTMIDTNDNTVTVCMDYI--KGRCS-RE-KCKYFHPPAHLQ   68 (70)
T ss_dssp             EBCHHH--HTTCCSSCTTTCSSBCC---CTTSCCBTTTTEEEBCHHHH--TTCCC-CT-TCCSBCCCHHHH
T ss_pred             hhCHHH--hcCCCCCCCCCCCCccC---cccccccccCCcceeccccC--cCCCC-CC-CcCeeCCHHHHh
Confidence            689999  579999999 5999996   35566677889999999997  59996 77 999999887665

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=2.5e-08  Score=84.78  Aligned_cols=69  Identities=25%  Similarity=0.454  Sum_probs=55.2

Q ss_pred             cccccccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCccCCCccc
Q psy3120         161 KEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTE  240 (711)
Q Consensus       161 ~~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E  240 (711)
                      ...|+..|.+|++|.|.+|+  +|.|+|.....|               +.+|..|. ..|.|+ |++|+|+|..   . 
T Consensus         6 ~~~k~~~C~~fl~G~C~~G~--~C~fsH~~~~~~---------------~~~C~~f~-~~G~C~-~~~C~f~H~~---~-   62 (77)
T 2d9n_A            6 SGEKTVVCKHWLRGLCKKGD--QCEFLHEYDMTK---------------MPECYFYS-KFGECS-NKECPFLHID---P-   62 (77)
T ss_dssp             SCCTTSBCHHHHTTCCSCTT--SSSSBCSCCTTT---------------SCBCHHHH-HTCCCC-CSSCSSBCCC---T-
T ss_pred             CCCcceeCHhHccCcCCCCC--CCCCccccccCc---------------CCCCcccC-CCCccC-CCCeeccCCC---c-
Confidence            35799999999999999997  899999976432               24799884 349999 8999999962   1 


Q ss_pred             cccccccccccccccccc
Q psy3120         241 RRYHLRYYKTCMCVHDTD  258 (711)
Q Consensus       241 ~~yHP~~YKTklCk~~~~  258 (711)
                            ..++..|.+|..
T Consensus        63 ------~~~~~~C~~f~~   74 (77)
T 2d9n_A           63 ------ESKIKDCPWSGP   74 (77)
T ss_dssp             ------TSSCSSSSCCTT
T ss_pred             ------cccCCCCccccc
Confidence                  247889999874

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.55  E-value=1.8e-08  Score=85.68  Aligned_cols=64  Identities=25%  Similarity=0.500  Sum_probs=52.0

Q ss_pred             CCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         363 PRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       363 P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      |....+++++|+.|..|       .|.+|++|+|+|...+       -|+..|.+|.+.|.|. |+.|+|+|...+.+.
T Consensus         3 p~~~~~k~~~C~~fl~G-------~C~~G~~C~fsH~~~~-------~~~~~C~~f~~~G~C~-~~~C~f~H~~~~~~~   66 (77)
T 2d9n_A            3 SGSSGEKTVVCKHWLRG-------LCKKGDQCEFLHEYDM-------TKMPECYFYSKFGECS-NKECPFLHIDPESKI   66 (77)
T ss_dssp             CCCSCCTTSBCHHHHTT-------CCSCTTSSSSBCSCCT-------TTSCBCHHHHHTCCCC-CSSCSSBCCCTTSSC
T ss_pred             CCCCCCcceeCHhHccC-------cCCCCCCCCCcccccc-------CcCCCCcccCCCCccC-CCCeeccCCCccccC
Confidence            33345678999999765       8999999999998764       2566899999779999 899999999876543

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=98.51  E-value=6.1e-08  Score=86.24  Aligned_cols=55  Identities=29%  Similarity=0.732  Sum_probs=45.1

Q ss_pred             ccccccccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCC
Q psy3120         207 YSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP  281 (711)
Q Consensus       207 Yst~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~  281 (711)
                      +++ .+|+.|  ..|.|.+||+|+|+|+               +.+|++|.. +|.|+ +|+.|+|+|.....+.
T Consensus        11 ~k~-~lC~~f--~~G~C~~G~~C~f~H~---------------~~~C~~f~~-~G~C~-~G~~C~f~H~~~~~~~   65 (98)
T 2cqe_A           11 KKR-ELCKFY--ITGFCARAENCPYMHG---------------DFPCKLYHT-TGNCI-NGDDCMFSHDPLTEET   65 (98)
T ss_dssp             CCC-SBCTTT--TTTCCSCSTTCSSBSS---------------SSBCSHHHH-TSCCS-SCTTCSSBCCCCCHHH
T ss_pred             CCC-ccCccc--ccCcCCCCCCCCCCCC---------------CCcCcCccc-CCcCC-CCCCCcccCCCCcccc
Confidence            344 799988  5899999999999994               678999853 59996 9999999998764443

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=98.29  E-value=9e-08  Score=80.79  Aligned_cols=58  Identities=28%  Similarity=0.592  Sum_probs=47.6

Q ss_pred             cCCCCCCCCcCCCCCCCCCCCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhh
Q psy3120         368 YRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMA  440 (711)
Q Consensus       368 YkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR  440 (711)
                      +++++|+.|..|       .|.+|++|+|+|....       -++..|.+|.+.|.|.+ +.|+|.|...+.+
T Consensus        14 ~k~~vCk~fl~G-------~C~~G~~C~fsH~~~~-------~~~~~C~~f~~~G~C~~-~~C~y~H~~p~~k   71 (72)
T 2rhk_C           14 EKTVVCKHWLRG-------LCKKGDQCEFLHEYDM-------TKMSECYFYSKFGECSN-KECPFLHIDPESK   71 (72)
T ss_dssp             CCCSBCHHHHTT-------CCCCGGGSSSBCSCCT-------TSCCBCHHHHHHSCCSB-TTCCSBCCCCC--
T ss_pred             CcCeeCHHHhcC-------CCCCCCCCCCcccccc-------ccCCcccccCCCCCCCC-CCeeccCCCcccc
Confidence            457899999765       8999999999998542       36778999997699999 9999999876543

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=7.5e-08  Score=85.86  Aligned_cols=64  Identities=23%  Similarity=0.557  Sum_probs=55.2

Q ss_pred             CCCCCCCCcCCCCCCCCCCCCCCC-CcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         369 RSTPCPNVKHGDEWGEPANCESGD-LCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       369 kT~LCP~fkkG~~w~~~G~Cp~Gd-sC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      +.+.|+.|..|       .|.+|+ .|+|+|...+....+...++..|.+|.+ |.|.++ .|+|.|...+++.
T Consensus        19 k~~VCr~FlrG-------~C~rgd~~C~FsH~~~~~~~~~~~~~~~vC~~flk-G~C~r~-~C~y~H~~~~l~~   83 (98)
T 2e5s_A           19 KLEVCREFQRG-------NCARGETDCRFAHPADSTMIDTSDNTVTVCMDYIK-GRCMRE-KCKYFHPPAHLQA   83 (98)
T ss_dssp             EEEBCSHHHHT-------CCSSHHHHCSSBCCSSCCSCCTTTCEEEBCHHHHH-TCCCCT-TCCSBCCCHHHHH
T ss_pred             hhhhhHHHhcC-------cCCCCCCCCCCcCCchhccccccCCccccchhhcc-CCCCCC-CcCccCChHHHHH
Confidence            35789999865       899999 7999999887766666788999999985 999998 9999999988765

>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.24  E-value=1.9e-07  Score=78.90  Aligned_cols=32  Identities=31%  Similarity=0.586  Sum_probs=29.3

Q ss_pred             ccccccccCccccCCCCCCCCCCCCcchhhhcc
Q psy3120         410 YKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANA  442 (711)
Q Consensus       410 YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~  442 (711)
                      .|+++|++| .+|.|++|+.|+||||++||+..
T Consensus        18 ~k~~LC~~~-~~G~C~~G~~C~FAHG~~ELr~~   49 (69)
T 2d9m_A           18 GYFSICDRY-MNGTCPEGNSCKFAHGNAELHEW   49 (69)
T ss_dssp             SCCSBCHHH-HHSCCSSCSSCSSBSSHHHHHHH
T ss_pred             CCcccCccc-CcCCCCCCCccCCcCCHHHHhhH
Confidence            577999999 57999999999999999999984

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=98.19  E-value=4.3e-07  Score=76.64  Aligned_cols=55  Identities=36%  Similarity=0.802  Sum_probs=43.2

Q ss_pred             ccccccccccCCCCCCCCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCC
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLR  280 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR  280 (711)
                      .+|..|.  .|.|.+||+|+|+|+.  +        ..++.+|++|.. .|.|. + +.|+|.|...+.|
T Consensus        17 ~vCk~fl--~G~C~~G~~C~fsH~~--~--------~~~~~~C~~f~~-~G~C~-~-~~C~y~H~~p~~k   71 (72)
T 2rhk_C           17 VVCKHWL--RGLCKKGDQCEFLHEY--D--------MTKMSECYFYSK-FGECS-N-KECPFLHIDPESK   71 (72)
T ss_dssp             SBCHHHH--TTCCCCGGGSSSBCSC--C--------TTSCCBCHHHHH-HSCCS-B-TTCCSBCCCCC--
T ss_pred             eeCHHHh--cCCCCCCCCCCCcccc--c--------cccCCcccccCC-CCCCC-C-CCeeccCCCcccc
Confidence            6999884  5999999999999963  1        236788999973 38996 7 9999999876544

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.11  E-value=1.6e-07  Score=83.67  Aligned_cols=62  Identities=21%  Similarity=0.614  Sum_probs=50.1

Q ss_pred             ccccccccccCCCCCCC-CCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCCCCC
Q psy3120         211 TYCTKYDETTGLCPDGD-ECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP  281 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD-~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~  281 (711)
                      .+|+.|.  .|.|.+|| .|+|+|..   .+.+..+...++.+|.+|.  +|.|. ++ .|+|.|.+.+|+.
T Consensus        21 ~VCr~Fl--rG~C~rgd~~C~FsH~~---~~~~~~~~~~~~~vC~~fl--kG~C~-r~-~C~y~H~~~~l~~   83 (98)
T 2e5s_A           21 EVCREFQ--RGNCARGETDCRFAHPA---DSTMIDTSDNTVTVCMDYI--KGRCM-RE-KCKYFHPPAHLQA   83 (98)
T ss_dssp             EBCSHHH--HTCCSSHHHHCSSBCCS---SCCSCCTTTCEEEBCHHHH--HTCCC-CT-TCCSBCCCHHHHH
T ss_pred             hhhHHHh--cCcCCCCCCCCCCcCCc---hhccccccCCccccchhhc--cCCCC-CC-CcCccCChHHHHH
Confidence            6899995  69999999 79999963   3344445668899999997  59996 77 9999998877664

>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.85  E-value=4.1e-06  Score=70.90  Aligned_cols=42  Identities=26%  Similarity=0.605  Sum_probs=35.0

Q ss_pred             ccccccccccCCCCCCCCCCCCccCCCcccccc---cccccccccccccc
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHRTAGDTERRY---HLRYYKTCMCVHDT  257 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~y---HP~~YKTklCk~~~  257 (711)
                      ++|..|  .+|.||+|+.|.|||+   ..|++-   .+.+.|+++++-+.
T Consensus        21 ~LC~~~--~~G~C~~G~~C~FAHG---~~ELr~~~~R~~~~k~k~~~Ar~   65 (69)
T 2d9m_A           21 SICDRY--MNGTCPEGNSCKFAHG---NAELHEWEERRDALKMKLNKASG   65 (69)
T ss_dssp             SBCHHH--HHSCCSSCSSCSSBSS---HHHHHHHHHHHHHHTTTCCSCCC
T ss_pred             ccCccc--CcCCCCCCCccCCcCC---HHHHhhHHHHHHHHHHHHHHHhc
Confidence            699999  4789999999999995   678764   67888999988654

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=97.66  E-value=1.6e-05  Score=69.05  Aligned_cols=63  Identities=24%  Similarity=0.532  Sum_probs=49.6

Q ss_pred             CCCCCCCCcCCCCCCCCCCCCCCC-CcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhcc
Q psy3120         369 RSTPCPNVKHGDEWGEPANCESGD-LCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANA  442 (711)
Q Consensus       369 kT~LCP~fkkG~~w~~~G~Cp~Gd-sC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~  442 (711)
                      +.+.|+.|..|       .|.+|| .|+|+|....+..  ..-+...|.+|. .|.|.++ .|+|.|...++...
T Consensus         8 ~~~VCr~FlrG-------~C~r~d~~C~f~H~~~~~~~--~~~~~~vC~dfl-kG~C~r~-~C~y~H~~~~l~~~   71 (83)
T 3d2n_A            8 TLEVCREFQRG-------TCSRPDTECKFAHPSKSCQV--ENGRVIACFDSL-KGRCSRE-NCKYLHPPPHLKTQ   71 (83)
T ss_dssp             EEEBCTTGGGT-------CCCSCTTTCSSBCCCTTCCE--ETTEEECCHHHH-TTCCCCS-SCSSCCCCHHHHHH
T ss_pred             cchhcHHHhcC-------CCCCCCCCCCCcCCCccccc--cCCceeehhHhh-hccccCC-CcceeCChHHHHHH
Confidence            35789999865       899997 8999998754221  124567899998 4999997 99999999887653

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=97.54  E-value=4.2e-05  Score=66.39  Aligned_cols=60  Identities=23%  Similarity=0.448  Sum_probs=46.3

Q ss_pred             cccccccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCcc
Q psy3120         161 KEFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       161 ~~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      ...|+..|..|.+|.|..++ ..|.|+|......-.+     +    + ...|..|  ..|.|.++ .|+|.|.
T Consensus         5 ~~~~~~VCr~FlrG~C~r~d-~~C~f~H~~~~~~~~~-----~----~-~~vC~df--lkG~C~r~-~C~y~H~   64 (83)
T 3d2n_A            5 KWLTLEVCREFQRGTCSRPD-TECKFAHPSKSCQVEN-----G----R-VIACFDS--LKGRCSRE-NCKYLHP   64 (83)
T ss_dssp             GGGEEEBCTTGGGTCCCSCT-TTCSSBCCCTTCCEET-----T----E-EECCHHH--HTTCCCCS-SCSSCCC
T ss_pred             ccccchhcHHHhcCCCCCCC-CCCCCcCCCccccccC-----C----c-eeehhHh--hhccccCC-CcceeCC
Confidence            45688999999999999984 4699999976432111     1    1 2589988  57999998 9999995

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=97.42  E-value=3.4e-05  Score=67.89  Aligned_cols=59  Identities=22%  Similarity=0.452  Sum_probs=45.7

Q ss_pred             ccccccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCcc
Q psy3120         162 EFRVEQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       162 ~FKTk~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      ..|+..|..|.+|.|..++ ..|.|+|......-.     ++.     ...|..|  .+|.|.++ .|+|.|.
T Consensus        14 ~~~~~VCrdFlrG~C~r~d-~~CrfsH~~~~~~v~-----~~~-----~~vC~df--lkG~C~r~-~Cky~H~   72 (89)
T 2rpp_A           14 WLTLEVCRQFQRGTCSRSD-EECKFAHPPKSCQVE-----NGR-----VIACFDS--LKGRCSRE-NCKYLHP   72 (89)
T ss_dssp             SSEECBCHHHHHTCCCCCT-TTSSSBCCCSSSCCB-----TTB-----EEBCHHH--HHTCCCCT-TCCSBCC
T ss_pred             cchhhhchHHhcCCCCCCC-CCCCCcCCCcccccc-----CCc-----eeeehhh--hhCcCCCC-CcceecC
Confidence            4578899999999999984 469999997753221     121     2579888  58999997 9999995

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=97.32  E-value=6.6e-05  Score=66.12  Aligned_cols=62  Identities=24%  Similarity=0.543  Sum_probs=49.1

Q ss_pred             CCCCCCCcCCCCCCCCCCCCCCC-CcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchhhhcc
Q psy3120         370 STPCPNVKHGDEWGEPANCESGD-LCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANA  442 (711)
Q Consensus       370 T~LCP~fkkG~~w~~~G~Cp~Gd-sC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~  442 (711)
                      .+.|+.|..|       .|.+|+ .|+|+|-......-  .-+...|.+|. .|.|.++ .|+|.|....+...
T Consensus        17 ~~VCrdFlrG-------~C~r~d~~CrfsH~~~~~~v~--~~~~~vC~dfl-kG~C~r~-~Cky~H~~~hl~~~   79 (89)
T 2rpp_A           17 LEVCRQFQRG-------TCSRSDEECKFAHPPKSCQVE--NGRVIACFDSL-KGRCSRE-NCKYLHPPTHLKTQ   79 (89)
T ss_dssp             ECBCHHHHHT-------CCCCCTTTSSSBCCCSSSCCB--TTBEEBCHHHH-HTCCCCT-TCCSBCCCHHHHHH
T ss_pred             hhhchHHhcC-------CCCCCCCCCCCcCCCcccccc--CCceeeehhhh-hCcCCCC-CcceecCHHHHHHH
Confidence            4689999865       899998 99999986643221  23577899998 5999996 99999998877653

>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus}

Probab=96.01  E-value=0.0049  Score=62.48  Aligned_cols=80  Identities=23%  Similarity=0.510  Sum_probs=60.1

Q ss_pred             ccCCC-CCCCC----CCCCCCCCCCCcCc------c------------------CCCCccccCCCCCCCCcCCCCCCCCC
Q psy3120         336 QCKRP-PRLCR----QGYACPQFHNSRDK------R------------------RSPRTFKYRSTPCPNVKHGDEWGEPA  386 (711)
Q Consensus       336 lC~~~-~G~C~----~G~~CpFAHn~kDl------R------------------R~P~~~kYkT~LCP~fkkG~~w~~~G  386 (711)
                      +|+++ .|.|+    .|..|.|+|+....      |                  -||.   .-|++|..+ +|+  +..|
T Consensus        91 LCK~~l~G~C~~~~~~~~~Ck~SHdi~s~~N~~vLk~h~l~~L~~~eL~~LLLQnDp~---lLPeiC~~Y-kG~--g~~g  164 (229)
T 3u9g_A           91 LCKLNLLGRCHYAQSQRNLCKYSHDVLSEQNFQILKNHELSGLNQEELACLLVQSDPF---FLPEICKSY-KGE--GRKQ  164 (229)
T ss_dssp             CCHHHHTTCCGGGTCCSSCCSSCSCTTCHHHHHHHHHTTCTTCCHHHHHHHHHTTCGG---GSCCBCTTC-CCS--SSCC
T ss_pred             echhhhcCcCCcccCCCCCcccccccCchhHHHHHHHcCcccCCHhHhhheeccCCCc---cCchHHHHh-CCC--CCCC
Confidence            45555 57883    46889999987321      0                  1222   248999999 774  4678


Q ss_pred             CCCCCCCcccccCccccccccccccccccccCccccCCCCCCCCCCCCcchh
Q psy3120         387 NCESGDLCQYCHTRTEQQFHPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE  438 (711)
Q Consensus       387 ~Cp~GdsC~FAHg~~El~yHP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaE  438 (711)
                      .|.++++|..-|               .|.+|. .|.|.+ ..|.-.|.-.+
T Consensus       165 ~C~~~~~C~kLH---------------IC~~Fl-~G~C~f-~~CkRsH~~~~  199 (229)
T 3u9g_A          165 TCGQPQPCERLH---------------ICEHFT-RGNCSY-LNCLRSHNLMD  199 (229)
T ss_dssp             SCSSSSCCCSBC---------------SCHHHH-TTCCCC-SSCSSCCCTTS
T ss_pred             cCCCCCCCccee---------------ccchhh-cCCcCC-CCccCccCccC
Confidence            999999999988               699998 589999 79999998744

>3u9g_A Zinc finger CCCH-type antiviral protein 1; zinc finger protein; 1.80A {Rattus norvegicus}

Probab=95.67  E-value=0.0077  Score=61.09  Aligned_cols=89  Identities=26%  Similarity=0.474  Sum_probs=58.8

Q ss_pred             cccccccCcccCC--CCCcccCCCCCCCCCCCCCCCCCC--Cc--------------ccccccccccccc--ccCCCCCC
Q psy3120         167 QCPLFLQHKCTQH--RPFTCFHWHFMNQRRRRPVRKRDG--SF--------------NYSPDTYCTKYDE--TTGLCPDG  226 (711)
Q Consensus       167 ~C~~f~qg~C~~g--~p~~C~FAH~~ed~RR~P~~r~dG--t~--------------nYst~~lCpkf~e--~tG~Cp~G  226 (711)
                      .|++|..|+|+++  ....|-|.|.....--....+..|  .+              ..-| ++|..|..  ..|.|.++
T Consensus        91 LCK~~l~G~C~~~~~~~~~Ck~SHdi~s~~N~~vLk~h~l~~L~~~eL~~LLLQnDp~lLP-eiC~~YkG~g~~g~C~~~  169 (229)
T 3u9g_A           91 LCKLNLLGRCHYAQSQRNLCKYSHDVLSEQNFQILKNHELSGLNQEELACLLVQSDPFFLP-EICKSYKGEGRKQTCGQP  169 (229)
T ss_dssp             CCHHHHTTCCGGGTCCSSCCSSCSCTTCHHHHHHHHHTTCTTCCHHHHHHHHHTTCGGGSC-CBCTTCCCSSSCCSCSSS
T ss_pred             echhhhcCcCCcccCCCCCcccccccCchhHHHHHHHcCcccCCHhHhhheeccCCCccCc-hHHHHhCCCCCCCcCCCC
Confidence            4667788899543  236799999875432111000000  01              1245 69999931  23689999


Q ss_pred             CCCCCCccCCCcccccccccccccccccccccccccccccccccCCCCCCCC
Q psy3120         227 DECPFLHRTAGDTERRYHLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPD  278 (711)
Q Consensus       227 D~C~FAHs~~G~~E~~yHP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~E  278 (711)
                      +.|...|                  +|.+|.  +|.| |+ ..|.-+|...+
T Consensus       170 ~~C~kLH------------------IC~~Fl--~G~C-~f-~~CkRsH~~~~  199 (229)
T 3u9g_A          170 QPCERLH------------------ICEHFT--RGNC-SY-LNCLRSHNLMD  199 (229)
T ss_dssp             SCCCSBC------------------SCHHHH--TTCC-CC-SSCSSCCCTTS
T ss_pred             CCCccee------------------ccchhh--cCCc-CC-CCccCccCccC
Confidence            9999999                  499998  5899 58 89999997643

>2lhn_A Nuclear polyadenylated RNA-binding protein NAB2; nuclear protein; NMR {Saccharomyces cerevisiae S288C}

Probab=92.17  E-value=0.017  Score=50.05  Aligned_cols=65  Identities=28%  Similarity=0.544  Sum_probs=45.9

Q ss_pred             ccccCCCCCCCCCCCCCCCCCCCcCccCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCCcccccCcccccccccccccc
Q psy3120         334 TEQCKRPPRLCRQGYACPQFHNSRDKRRSPRTFKYRSTPCPNVKHGDEWGEPANCESGDLCQYCHTRTEQQFHPEIYKST  413 (711)
Q Consensus       334 TklC~~~~G~C~~G~~CpFAHn~kDlRR~P~~~kYkT~LCP~fkkG~~w~~~G~Cp~GdsC~FAHg~~El~yHP~~YKTk  413 (711)
                      .+.|+++. .|.+ .+|+|.|...            ..+|++.         ..|.. .+|.|+|-.           .+
T Consensus         9 ~e~CKf~~-~Ctn-~~C~f~Hp~~------------~~~Cr~g---------~~C~~-~~C~f~HP~-----------~~   53 (80)
T 2lhn_A            9 LEQCKFGT-HCTN-KRCKYRHARS------------HIMCREG---------ANCTR-IDCLFGHPI-----------NE   53 (80)
Confidence            35685543 5777 8999999641            2468865         37877 679999942           35


Q ss_pred             ccccCccccCCCCCCCCCCCCcch
Q psy3120         414 KCNDVQQAGYCPRGVFCAFAHVDT  437 (711)
Q Consensus       414 lC~~fq~tG~Cp~G~~C~FAHgea  437 (711)
                      .|+++.   .|.. ..|.|.|.+.
T Consensus        54 ~Crf~~---~C~n-~~C~F~Hp~g   73 (80)
T 2lhn_A           54 DCRFGV---NCKN-IYCLFRHPPG   73 (80)
Confidence            697775   5887 7999999643

>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1

Probab=92.16  E-value=0.046  Score=43.74  Aligned_cols=28  Identities=25%  Similarity=0.497  Sum_probs=24.9

Q ss_pred             cccccccccccccccccccccccCCCCCCC
Q psy3120         248 YKTCMCVHDTDARGLCVKNGAHCAFAHGNP  277 (711)
Q Consensus       248 YKTklCk~~~~~kG~C~K~G~~C~FAHg~~  277 (711)
                      .+|.+|+.|.. .|+|+ +|..|+|.|..+
T Consensus        18 ~~~~iC~~FSa-yGwCp-~G~~Cp~SHDiD   45 (50)
T 2fc6_A           18 HPTSICDNFSA-YGWCP-LGPQCPQSHDIS   45 (50)
T ss_dssp             CCSCBCSHHHH-TCCCT-TGGGCSSBCCCC
T ss_pred             cccchhhhccc-cccCC-CCCCCCccccCC
Confidence            68999999985 79997 999999999764

>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1

Probab=92.10  E-value=0.027  Score=45.05  Aligned_cols=28  Identities=25%  Similarity=0.629  Sum_probs=25.7

Q ss_pred             ccccccccCccccCCCCCCCCCCCCcch
Q psy3120         410 YKSTKCNDVQQAGYCPRGVFCAFAHVDT  437 (711)
Q Consensus       410 YKTklC~~fq~tG~Cp~G~~C~FAHgea  437 (711)
                      .+|.+|..|...|+||+|..|+|.|..+
T Consensus        18 ~~~~iC~~FSayGwCp~G~~Cp~SHDiD   45 (50)
T 2fc6_A           18 HPTSICDNFSAYGWCPLGPQCPQSHDIS   45 (50)
T ss_dssp             CCSCBCSHHHHTCCCTTGGGCSSBCCCC
T ss_pred             cccchhhhccccccCCCCCCCCccccCC
Confidence            6789999999999999999999999854

>2lhn_A Nuclear polyadenylated RNA-binding protein NAB2; nuclear protein; NMR {Saccharomyces cerevisiae S288C}

Probab=89.62  E-value=0.055  Score=46.93  Aligned_cols=64  Identities=28%  Similarity=0.496  Sum_probs=44.6

Q ss_pred             ccccccccCcccCCCCCcccCCCCCCCCCCCCCCCCCCCccccccccccccccccCCCCCCCCCCCCccCCCcccccccc
Q psy3120         166 EQCPLFLQHKCTQHRPFTCFHWHFMNQRRRRPVRKRDGSFNYSPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERRYHL  245 (711)
Q Consensus       166 k~C~~f~qg~C~~g~p~~C~FAH~~ed~RR~P~~r~dGt~nYst~~lCpkf~e~tG~Cp~GD~C~FAHs~~G~~E~~yHP  245 (711)
                      ++|.++.  .|++-   +|+|.|...                 . .+|+.+    ..|.+ .+|.|+|-           
T Consensus        10 e~CKf~~--~Ctn~---~C~f~Hp~~-----------------~-~~Cr~g----~~C~~-~~C~f~HP-----------   50 (80)
T 2lhn_A           10 EQCKFGT--HCTNK---RCKYRHARS-----------------H-IMCREG----ANCTR-IDCLFGHP-----------   50 (80)
Confidence            5685543  68883   699999531                 1 378755    57998 77999993           


Q ss_pred             cccccccccccccccccccccccccCCCCCCC
Q psy3120         246 RYYKTCMCVHDTDARGLCVKNGAHCAFAHGNP  277 (711)
Q Consensus       246 ~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~  277 (711)
                         -.+.|+++.    .|. + ..|.|.|-..
T Consensus        51 ---~~~~Crf~~----~C~-n-~~C~F~Hp~g   73 (80)
T 2lhn_A           51 ---INEDCRFGV----NCK-N-IYCLFRHPPG   73 (80)
Confidence               135698764    495 5 8999999543

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=80.71  E-value=0.35  Score=49.02  Aligned_cols=25  Identities=28%  Similarity=0.840  Sum_probs=21.5

Q ss_pred             ccccccccccCCCCCCCCCCCCccCCC
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHRTAG  237 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs~~G  237 (711)
                      ..|..|  ..|.|++|++|+|.|..+.
T Consensus        71 ~~C~ff--akG~C~~G~~C~y~H~lPt   95 (240)
T 3u1l_A           71 FFCLFF--AKGMCCLGPKCEYLHHIPD   95 (240)
T ss_dssp             SBCHHH--HTTCCSCGGGCSSBBSCCC
T ss_pred             eEcCcc--ccCCCCCCCCCCccCCCCC
Confidence            489988  4699999999999998653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	711
d1rgoa1	36	g.66.1.1 (A:151-186) Butyrate response factor 2 (T	6e-06
d1rgoa1	36	g.66.1.1 (A:151-186) Butyrate response factor 2 (T	9e-05
d1rgoa2	34	g.66.1.1 (A:187-220) Butyrate response factor 2 (T	7e-06
d1m9oa_	40	g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475	8e-06
d1m9oa_	40	g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475	1e-05
d3dhwa1	203	f.58.1.1 (A:6-208) D-methionine transport system p	0.002
d2vv5a3	86	f.34.1.1 (A:27-112) Mechanosensitive channel prote	0.003
d1iwga8	222	f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux t	0.003
d1iwga8	222	f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux t	0.004
d1oede_	260	f.36.1.1 (E:) Acetylcholine receptor protein, gamm	0.004

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 36

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.2 bits (97), Expect = 6e-06
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 410 YKSTKCNDVQQAGYCPRGVFCAFAHVDTEM 439
           YK+  C   +++G C  G  C FAH   E+
Sbjct: 4   YKTELCRPFEESGTCKYGEKCQFAHGFHEL 33

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 36

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (89), Expect = 9e-05
 Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 2/34 (5%)

Query: 248 YKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP 281
           YKT +C    +  G C K G  C FAHG  +LR 
Sbjct: 4   YKTELCRP-FEESGTC-KYGEKCQFAHGFHELRS 35

>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]} Length = 34

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (96), Expect = 7e-06
 Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 1/33 (3%)

Query: 406 HPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE 438
           HP+ YK+  C      G+CP G  C F H   E
Sbjct: 3   HPK-YKTELCRTFHTIGFCPYGPRCHFIHNADE 34

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Length = 40

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.9 bits (96), Expect = 8e-06
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 410 YKSTKCNDVQQAGYCPRGVFCAFAHVDTEM 439
           YK+  C    ++G C  G  C FAH   E+
Sbjct: 7   YKTELCRTYSESGRCRYGAKCQFAHGLGEL 36

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]} Length = 40

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.5 bits (95), Expect = 1e-05
 Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 2/35 (5%)

Query: 248 YKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPP 282
           YKT +C   +   G C + GA C FAHG  +LR  
Sbjct: 7   YKTELCRTYS-ESGRC-RYGAKCQFAHGLGELRQA 39

>d3dhwa1 f.58.1.1 (A:6-208) D-methionine transport system permease protein MetI {Escherichia coli [TaxId: 562]} Length = 203

class: Membrane and cell surface proteins and peptides
fold: MetI-like
superfamily: MetI-like
family: MetI-like
domain: D-methionine transport system permease protein MetI
species: Escherichia coli [TaxId: 562]

 Score = 37.8 bits (87), Expect = 0.002
 Identities = 8/76 (10%), Positives = 32/76 (42%)

Query: 79  IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 138
           I+  +++   +  ++    I +I ++    +   +    +  I      I     ++  +
Sbjct: 128 IVRKVLLPEALPGLVNAATITLITLVGYSAMGGAVGAGGLGQIGYQYGYIGYNATVMNTV 187

Query: 139 IIIIIIIIIIIDLIFD 154
           +++++I++ +I    D
Sbjct: 188 LVLLVILVYLIQFAGD 203

>d2vv5a3 f.34.1.1 (A:27-112) Mechanosensitive channel protein MscS (YggB), transmembrane region {Escherichia coli [TaxId: 562]} Length = 86

class: Membrane and cell surface proteins and peptides
fold: Mechanosensitive channel protein MscS (YggB), transmembrane region
superfamily: Mechanosensitive channel protein MscS (YggB), transmembrane region
family: Mechanosensitive channel protein MscS (YggB), transmembrane region
domain: Mechanosensitive channel protein MscS (YggB), transmembrane region
species: Escherichia coli [TaxId: 562]

 Score = 35.0 bits (81), Expect = 0.003
 Identities = 14/74 (18%), Positives = 34/74 (45%)

Query: 76  YIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII 135
           Y + I+  + III+ +II  +I   +  ++I   I   +   +  ++   II   +I  +
Sbjct: 1   YAVNIVAALAIIIVGLIIARMISNAVNRLMISRKIDATVADFLSALVRYGIIAFTLIAAL 60

Query: 136 IIIIIIIIIIIIII 149
             + +    +I ++
Sbjct: 61  GRVGVQTASVIAVL 74

>d1iwga8 f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux transporter AcrB transmembrane domain {Escherichia coli [TaxId: 562]} Length = 222

class: Membrane and cell surface proteins and peptides
fold: Multidrug efflux transporter AcrB transmembrane domain
superfamily: Multidrug efflux transporter AcrB transmembrane domain
family: Multidrug efflux transporter AcrB transmembrane domain
domain: Multidrug efflux transporter AcrB transmembrane domain
species: Escherichia coli [TaxId: 562]

 Score = 37.4 bits (86), Expect = 0.003
 Identities = 16/154 (10%), Positives = 49/154 (31%), Gaps = 8/154 (5%)

Query: 42  QSQLRGDLEKVDKILYLQTA-TKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIIIIIIIII 100
              + G L    + L L       M   FVR  S ++         +  I +I++ + + 
Sbjct: 16  TDSVGGILRSTGRYLVLYLIIVVGMAYLFVRLPSSFLPDSGNQAPSLYAISLIVVFLCLA 75

Query: 101 II-------IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIF 153
            +         +++++ + +I  ++      +   +   + ++  I +     I+I    
Sbjct: 76  ALYESWSIPFSVMLVVPLGVIGALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFA 135

Query: 154 DFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHW 187
                   +  +E     ++ +       +    
Sbjct: 136 KDLMDKEGKGLIEATLDAVRMRLRPILMTSLAFI 169

>d1iwga8 f.35.1.1 (A:513-566,A:869-1036) Multidrug efflux transporter AcrB transmembrane domain {Escherichia coli [TaxId: 562]} Length = 222

class: Membrane and cell surface proteins and peptides
fold: Multidrug efflux transporter AcrB transmembrane domain
superfamily: Multidrug efflux transporter AcrB transmembrane domain
family: Multidrug efflux transporter AcrB transmembrane domain
domain: Multidrug efflux transporter AcrB transmembrane domain
species: Escherichia coli [TaxId: 562]

 Score = 37.0 bits (85), Expect = 0.004
 Identities = 14/140 (10%), Positives = 48/140 (34%), Gaps = 9/140 (6%)

Query: 55  ILYLQTATKCMVCEFVRKRSKYIIIIIIIIIIIIIIIIII----IIIIIIIIIIIIIIII 110
            L+++  +      F+         +  I +I++ + +        I   +++++ + +I
Sbjct: 42  YLFVRLPSS-----FLPDSGNQAPSLYAISLIVVFLCLAALYESWSIPFSVMLVVPLGVI 96

Query: 111 IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPL 170
             ++      +   +   + ++  I +     I+I+     + D     L E  ++   +
Sbjct: 97  GALLAATFRGLTNDVYFQVGLLTTIGLSAKNAILIVEFAKDLMDKEGKGLIEATLDAVRM 156

Query: 171 FLQHKCTQHRPFTCFHWHFM 190
            L+        F       +
Sbjct: 157 RLRPILMTSLAFILGVMPLV 176

>d1oede_ f.36.1.1 (E:) Acetylcholine receptor protein, gamma chain {Marbled electric ray (Torpedo marmorata) [TaxId: 7788]} Length = 260

class: Membrane and cell surface proteins and peptides
fold: Neurotransmitter-gated ion-channel transmembrane pore
superfamily: Neurotransmitter-gated ion-channel transmembrane pore
family: Neurotransmitter-gated ion-channel transmembrane pore
domain: Acetylcholine receptor protein, gamma chain
species: Marbled electric ray (Torpedo marmorata) [TaxId: 7788]

 Score = 37.5 bits (86), Expect = 0.004
 Identities = 26/177 (14%), Positives = 63/177 (35%), Gaps = 14/177 (7%)

Query: 76  YIIIIIIIIIIIIIIIIIIIII--------IIIIIIIIIIIIIIIIIIIIIIIIIIIIII 127
           YII II   ++I  +++++  +          + I +++   I + +I   +    + + 
Sbjct: 4   YIINIIAPCVLISSLVVLVYFLPAQAGGQKCTLSISVLLAQTIFLFLIAQKVPETSLNVP 63

Query: 128 IIIIIIIIIIIIIIIIIIIIIIDLIFDFTFMYLKEFRVEQCPLFLQHKCTQHRPFTCFHW 187
           +I   +I ++ + ++I++  +I L              +   LFL         +     
Sbjct: 64  LIGKYLIFVMFVSMLIVMNCVIVLNVSLRTPNTHSLSEKIKHLFLGF----LPKYLGMQL 119

Query: 188 HFMNQRRRRPVRKRDGSFNY--SPDTYCTKYDETTGLCPDGDECPFLHRTAGDTERR 242
               +   +P  +R  SF      + Y  K   +  +  +  +   L R    T   
Sbjct: 120 EPSEETPEKPQPRRRSSFGIMIKAEEYILKKPRSELMFEEQKDRHGLKRVNKMTSDI 176

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	711
d1m9oa_	40	Tristetraproline (ttp, tis11, nup475) {Mouse (Mus	99.07
d1rgoa1	36	Butyrate response factor 2 (Tis11D) {Human (Homo s	98.98
d1rgoa2	34	Butyrate response factor 2 (Tis11D) {Human (Homo s	98.94
d1m9oa_	40	Tristetraproline (ttp, tis11, nup475) {Mouse (Mus	98.89
d1rgoa1	36	Butyrate response factor 2 (Tis11D) {Human (Homo s	98.79
d1rgoa2	34	Butyrate response factor 2 (Tis11D) {Human (Homo s	98.66
d2cqea2	29	Zinc finger CCCH domain-containing protein C19orf7	95.79
d2cqea2	29	Zinc finger CCCH domain-containing protein C19orf7	95.49
d2cqea1	56	Zinc finger CCCH domain-containing protein C19orf7	84.6

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.07  E-value=2.1e-11  Score=91.29  Aligned_cols=36  Identities=33%  Similarity=0.615  Sum_probs=33.9

Q ss_pred             cccccccccccCccccCCCCCCCCCCCCcchhhhcc
Q psy3120         407 PEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMANA  442 (711)
Q Consensus       407 P~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~~  442 (711)
                      +..|||++|.+|.+.|.|++|+.|.|||+++|||.+
T Consensus         4 ~~~yKT~lC~~~~~~g~C~~G~~C~FAHg~~ELr~~   39 (40)
T d1m9oa_           4 SSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQA   39 (40)
T ss_dssp             SSCCCSCCCSGGGGTSCCTTTTTCSSCSSSCCGGGT
T ss_pred             CCccccccChhhhcCCcCCCCCCCCCCCCHHHhcCC
Confidence            567999999999999999999999999999999985

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=2.3e-11  Score=89.16  Aligned_cols=34  Identities=32%  Similarity=0.628  Sum_probs=32.0

Q ss_pred             ccccccccccCccccCCCCCCCCCCCCcchhhhc
Q psy3120         408 EIYKSTKCNDVQQAGYCPRGVFCAFAHVDTEMAN  441 (711)
Q Consensus       408 ~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaELR~  441 (711)
                      ..|||++|++|...|.|++|++|.|||+++|||.
T Consensus         2 ~kyKT~lC~~~~~~g~C~~G~~C~FAHg~~ELr~   35 (36)
T d1rgoa1           2 TRYKTELCRPFEESGTCKYGEKCQFAHGFHELRS   35 (36)
T ss_dssp             TTTTSSBCHHHHHHSCCTTGGGCSSBSSGGGCCC
T ss_pred             CCcchhhCcchhcCCcCCCCCcCCCcCCHHHccC
Confidence            3699999999998899999999999999999986

>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=3.2e-11  Score=87.43  Aligned_cols=32  Identities=41%  Similarity=0.958  Sum_probs=30.1

Q ss_pred             ccccccccccccCccccCCCCCCCCCCCCcchh
Q psy3120         406 HPEIYKSTKCNDVQQAGYCPRGVFCAFAHVDTE  438 (711)
Q Consensus       406 HP~~YKTklC~~fq~tG~Cp~G~~C~FAHgeaE  438 (711)
                      ||. |||++|++|...|.||+|++|.|||+++|
T Consensus         3 hpk-yKT~lC~~f~~~g~C~yG~~C~FaHg~~E   34 (34)
T d1rgoa2           3 HPK-YKTELCRTFHTIGFCPYGPRCHFIHNADE   34 (34)
T ss_dssp             CTT-TTCSBCHHHHHHSCCTTGGGCSSBCCSCC
T ss_pred             CCC-ccchhccccCCCCcCCCCCcccCcCCCCC
Confidence            676 99999999999999999999999999986

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.89  E-value=2.4e-10  Score=85.40  Aligned_cols=37  Identities=41%  Similarity=0.735  Sum_probs=33.2

Q ss_pred             cccccccccccccccccccccccccccCCCCCCCCCCCC
Q psy3120         244 HLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRPP  282 (711)
Q Consensus       244 HP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~P  282 (711)
                      .+..|||++|++|.. .|.|+ +|+.|.|||+++|||.|
T Consensus         3 ~~~~yKT~lC~~~~~-~g~C~-~G~~C~FAHg~~ELr~~   39 (40)
T d1m9oa_           3 TSSRYKTELCRTYSE-SGRCR-YGAKCQFAHGLGELRQA   39 (40)
T ss_dssp             CSSCCCSCCCSGGGG-TSCCT-TTTTCSSCSSSCCGGGT
T ss_pred             CCCccccccChhhhc-CCcCC-CCCCCCCCCCHHHhcCC
Confidence            356899999999975 59997 99999999999999986

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.79  E-value=3.7e-10  Score=82.69  Aligned_cols=34  Identities=41%  Similarity=0.778  Sum_probs=30.9

Q ss_pred             cccccccccccccccccccccccccCCCCCCCCCCC
Q psy3120         246 RYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPDLRP  281 (711)
Q Consensus       246 ~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~ELR~  281 (711)
                      ..|||++|++|.. .|.|+ +|+.|.||||++|||.
T Consensus         2 ~kyKT~lC~~~~~-~g~C~-~G~~C~FAHg~~ELr~   35 (36)
T d1rgoa1           2 TRYKTELCRPFEE-SGTCK-YGEKCQFAHGFHELRS   35 (36)
T ss_dssp             TTTTSSBCHHHHH-HSCCT-TGGGCSSBSSGGGCCC
T ss_pred             CCcchhhCcchhc-CCcCC-CCCcCCCcCCHHHccC
Confidence            4799999999975 59997 9999999999999995

>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=2.1e-09  Score=77.82  Aligned_cols=32  Identities=34%  Similarity=0.691  Sum_probs=28.7

Q ss_pred             cccccccccccccccccccccccccccCCCCCCCC
Q psy3120         244 HLRYYKTCMCVHDTDARGLCVKNGAHCAFAHGNPD  278 (711)
Q Consensus       244 HP~~YKTklCk~~~~~kG~C~K~G~~C~FAHg~~E  278 (711)
                      || .|||++|++|.. .|.|+ ||+.|.||||++|
T Consensus         3 hp-kyKT~lC~~f~~-~g~C~-yG~~C~FaHg~~E   34 (34)
T d1rgoa2           3 HP-KYKTELCRTFHT-IGFCP-YGPRCHFIHNADE   34 (34)
T ss_dssp             CT-TTTCSBCHHHHH-HSCCT-TGGGCSSBCCSCC
T ss_pred             CC-CccchhccccCC-CCcCC-CCCcccCcCCCCC
Confidence            56 599999999975 69998 9999999999986

>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.79  E-value=0.0024  Score=43.85  Aligned_cols=24  Identities=33%  Similarity=0.699  Sum_probs=21.8

Q ss_pred             cccccCCC-CCCCCCCCCCCCCCCC
Q psy3120         333 KTEQCKRP-PRLCRQGYACPQFHNS  356 (711)
Q Consensus       333 KTklC~~~-~G~C~~G~~CpFAHn~  356 (711)
                      |.++|+++ .|.|..|+.|+|.|++
T Consensus         5 kkelCKfYvqGyCtrgenC~ymH~e   29 (29)
T d2cqea2           5 KRELCKFYITGFCARAENCPYMHGD   29 (29)
T ss_dssp             CCSBCTTTTTTCCSCSTTCSSBSSS
T ss_pred             hhhhhhhheeeeecCCcCcccccCC
Confidence            67899998 6999999999999984

>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0032  Score=43.18  Aligned_cols=22  Identities=36%  Similarity=1.121  Sum_probs=20.1

Q ss_pred             ccccccccccCCCCCCCCCCCCcc
Q psy3120         211 TYCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       211 ~lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      .+|++|  .+|.|.+|++|+|.|+
T Consensus         7 elCKfY--vqGyCtrgenC~ymH~   28 (29)
T d2cqea2           7 ELCKFY--ITGFCARAENCPYMHG   28 (29)
T ss_dssp             SBCTTT--TTTCCSCSTTCSSBSS
T ss_pred             hhhhhh--eeeeecCCcCcccccC
Confidence            699988  6899999999999995

>d2cqea1 g.66.1.1 (A:458-513) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.60  E-value=0.14  Score=39.89  Aligned_cols=22  Identities=50%  Similarity=1.029  Sum_probs=19.1

Q ss_pred             cccccccccCCCCCCCCCCCCcc
Q psy3120         212 YCTKYDETTGLCPDGDECPFLHR  234 (711)
Q Consensus       212 lCpkf~e~tG~Cp~GD~C~FAHs  234 (711)
                      +|+.|. .+..|-.||+|.|+|.
T Consensus         2 PCK~yH-tg~kCy~gd~C~FSH~   23 (56)
T d2cqea1           2 PCKLYH-TTGNCINGDDCMFSHD   23 (56)
T ss_dssp             BCSHHH-HTSCCSSCTTCSSBCC
T ss_pred             Ccceee-cCCcccCCCcccccCC
Confidence            688785 6779999999999995