Psyllid ID: psy6333

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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-
Protein Sequence
MSMYSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHccccccccccccccEEEEHHHHHHHHHHHHHHHHcccccccccccccccccccEEEEcHHHHHHHHHHHHHHHHHcccHHHHHHccHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEcccccccccccccccEEEEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHccHHHHHHHHHHcHHHEEHHEEHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEccccHHHHHHHHHHHHHEEEEcccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MSMYSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTlntipslqhkdkagnpidnpkLAIVEAVCITWFSVEYLLRLgaspekwkffkgglnvidLLAIMPYYISLFLLesnstsneqEVQTRTDQFQDVRRVVQVFRIMRILRILKLARhstglqslgFTLRNSYKELGLLMLFLAMGVLIFSSLAYfaekdehdtkfvsipeTFWWAGITMTtvgygdicpttplgkmigsnqMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR
Flexible Loop (DISEMBL)
MSMYSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQtrtdqfqdvrrVVQVFRIMRILRILKlarhstglqslgFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPttplgkmigsnqmRREKALKRREAMErakregsivsfhhVNLRdafaksmdlidvivdteilirekrerkrrkkkkkrkrkrkkrkekekkkkkrkkkkrkkkrkkkkrkkkkrkkeekkkkkkkkkkkekrkkr
Low Complexity Region (SEG)
MSMYSHIDIRTFAAtlsnvsttsvsllplFQiiaiisimfiVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTdqfqdvrrvvqvfrIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQmrrekalkrreamerakreGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIrekrerkrrkkkkkrkrkrkkrkekekkkkkrkkkkrkkkrkkkkrkkkkrkkeekkkkkkkkkkkekrkkr
Disordered region (IsUnstruct)
****SHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLE***************QFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM**************************IVSFHHVNLRDAFAKSMDLIDVIVDTEILI************************************************************************
Disordered Region (DISOPRED)
********IRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNS***********DQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLI**********************************************************************************
Disordered Region (DISEMBL)
MSMYSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNS************QFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRE*******************************************************************
Disordered Region (DISPRO)
***YSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNS*******QTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEI**************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSMYSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
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	371	2.2.26 [Sep-21-2011]
P17970	985	Potassium voltage-gated c	yes	N/A	0.687	0.258	0.755	1e-128
Q95L11	911	Potassium voltage-gated c	yes	N/A	0.676	0.275	0.647	1e-104
Q4ZHA6	911	Potassium voltage-gated c	yes	N/A	0.676	0.275	0.643	1e-103
A6H8H5	907	Potassium voltage-gated c	yes	N/A	0.676	0.276	0.643	1e-102
Q63099	907	Potassium voltage-gated c	yes	N/A	0.676	0.276	0.643	1e-102
Q9MZ19	858	Potassium voltage-gated c	no	N/A	0.830	0.358	0.554	1e-102
P15387	857	Potassium voltage-gated c	no	N/A	0.830	0.359	0.552	1e-102
Q14721	858	Potassium voltage-gated c	yes	N/A	0.827	0.357	0.553	1e-102
Q03717	857	Potassium voltage-gated c	no	N/A	0.827	0.358	0.553	1e-102
O18868	858	Potassium voltage-gated c	no	N/A	0.827	0.357	0.547	1e-102

>sp|P17970|KCNAB_DROME Potassium voltage-gated channel protein Shab OS=Drosophila melanogaster GN=Shab PE=1 SV=2

 Score =  459 bits (1180), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 219/290 (75%), Positives = 243/290 (83%), Gaps = 35/290 (12%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 436 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFS 494

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 495 ASPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 546

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILR+LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 547 IMRILRVLKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 606

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPE FWWAGITMTTVGYGDICPTT LGK+IG+                         
Sbjct: 607 FVSIPEAFWWAGITMTTVGYGDICPTTALGKVIGTVCCICGVLVVALPIPIIVNNFAEFY 666

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT
Sbjct: 667 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT 716

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Assuming opened or closed conformations in response to the voltage difference across the membrane, the protein forms a potassium-selective channel through which potassium ions may pass in accordance with their electrochemical gradient.
Drosophila melanogaster (taxid: 7227)

>sp|Q95L11|KCNB2_RABIT Potassium voltage-gated channel subfamily B member 2 OS=Oryctolagus cuniculus GN=KCNB2 PE=2 SV=1

 Score =  377 bits (969), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 187/289 (64%), Positives = 219/289 (75%), Gaps = 38/289 (13%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AI+SI+FIVLST+AL+LNT+P LQ  D+ G P DNPKLA VEAVCI WF++EYLLR  
Sbjct: 194 ILAIVSILFIVLSTIALSLNTLPELQETDEFGQPSDNPKLAHVEAVCIAWFTMEYLLRFL 253

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP KWKFFKG LNVIDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 254 SSPNKWKFFKGPLNVIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 304

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TK
Sbjct: 305 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATK 364

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 365 FTSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 424

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
             Q R+EKA+KRREA+ERAKR GSIVS   +NL+DAFA+SM+LIDV V+
Sbjct: 425 KEQKRQEKAIKRREALERAKRNGSIVS---MNLKDAFARSMELIDVAVE 470

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Oryctolagus cuniculus (taxid: 9986)

>sp|Q4ZHA6|KCNB2_BOVIN Potassium voltage-gated channel subfamily B member 2 OS=Bos taurus GN=KCNB2 PE=2 SV=1

 Score =  375 bits (964), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 186/289 (64%), Positives = 219/289 (75%), Gaps = 38/289 (13%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AI+SI+FIVLST+AL+LNT+P LQ  D+ G P DNP+LA VEAVCI WF++EYLLR  
Sbjct: 194 ILAIVSILFIVLSTIALSLNTLPELQEMDEFGQPNDNPQLAHVEAVCIAWFTMEYLLRFL 253

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP KWKFFKG LNVIDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 254 SSPNKWKFFKGPLNVIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 304

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TK
Sbjct: 305 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATK 364

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 365 FTSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 424

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
             Q R+EKA+KRREA+ERAKR GSIVS   +NL+DAFA+SM+LIDV V+
Sbjct: 425 KEQKRQEKAIKRREALERAKRNGSIVS---MNLKDAFARSMELIDVAVE 470

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Bos taurus (taxid: 9913)

>sp|A6H8H5|KCNB2_MOUSE Potassium voltage-gated channel subfamily B member 2 OS=Mus musculus GN=Kcnb2 PE=2 SV=2

 Score =  373 bits (958), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 186/289 (64%), Positives = 218/289 (75%), Gaps = 38/289 (13%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AI+SI+FIVLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  
Sbjct: 194 ILAIVSILFIVLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFL 253

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP KWKFFKG LNVIDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 254 SSPNKWKFFKGPLNVIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 304

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TK
Sbjct: 305 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATK 364

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 365 FTSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 424

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
             Q R+EKA+KRREA+ERAKR GSIVS   +NL+DAFA+SM+LIDV V+
Sbjct: 425 KEQKRQEKAIKRREALERAKRNGSIVS---MNLKDAFARSMELIDVAVE 470

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Mus musculus (taxid: 10090)

>sp|Q63099|KCNB2_RAT Potassium voltage-gated channel subfamily B member 2 OS=Rattus norvegicus GN=Kcnb2 PE=2 SV=2

 Score =  372 bits (956), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 186/289 (64%), Positives = 218/289 (75%), Gaps = 38/289 (13%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AI+SI+FIVLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  
Sbjct: 194 ILAIVSILFIVLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFL 253

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP KWKFFKG LNVIDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 254 SSPNKWKFFKGPLNVIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 304

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TK
Sbjct: 305 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATK 364

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 365 FTSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 424

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
             Q R+EKA+KRREA+ERAKR GSIVS   +NL+DAFA+SM+LIDV V+
Sbjct: 425 KEQKRQEKAIKRREALERAKRNGSIVS---MNLKDAFARSMELIDVAVE 470

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Rattus norvegicus (taxid: 10116)

>sp|Q9MZ19|KCNB1_RABIT Potassium voltage-gated channel subfamily B member 1 OS=Oryctolagus cuniculus GN=KCNB1 PE=2 SV=1

 Score =  372 bits (954), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 192/346 (55%), Positives = 239/346 (69%), Gaps = 38/346 (10%)

Query: 31  QIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRL 90
           +I+AIISIMFIVLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR 
Sbjct: 189 KILAIISIMFIVLSTIALSLNTLPELQSLDEFGQTTDNPQLAHVEAVCIAWFTMEYLLRF 248

Query: 91  GASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVF 150
            +SP+KWKFFKG LN IDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+F
Sbjct: 249 LSSPKKWKFFKGPLNAIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIF 299

Query: 151 RIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDT 210
           RIMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DT
Sbjct: 300 RIMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDT 359

Query: 211 KFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------ 246
           KF SIP +FWWA ITMTTVGYGDI P T LGK++G                         
Sbjct: 360 KFKSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEF 419

Query: 247 --NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRE 304
              Q R+EKA+KRREA+ERAKR GSIVS   +N++DAFA+S++++D++V+       K+E
Sbjct: 420 YKEQKRQEKAIKRREALERAKRNGSIVS---MNMKDAFARSVEMMDIVVEKNGENLAKKE 476

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           + +       K K  KR   E    K  + K +   +K +     +
Sbjct: 477 KVQDNHLSPNKWKWTKRTLSETSSSKSFETKEQGSPEKARSSSSPQ 522

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Oryctolagus cuniculus (taxid: 9986)

>sp|P15387|KCNB1_RAT Potassium voltage-gated channel subfamily B member 1 OS=Rattus norvegicus GN=Kcnb1 PE=1 SV=3

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 191/346 (55%), Positives = 239/346 (69%), Gaps = 38/346 (10%)

Query: 31  QIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRL 90
           +I+AIISIMFIVLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR 
Sbjct: 189 KILAIISIMFIVLSTIALSLNTLPELQSLDEFGQSTDNPQLAHVEAVCIAWFTMEYLLRF 248

Query: 91  GASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVF 150
            +SP+KWKFFKG LN IDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+F
Sbjct: 249 LSSPKKWKFFKGPLNAIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIF 299

Query: 151 RIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDT 210
           RIMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DT
Sbjct: 300 RIMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDT 359

Query: 211 KFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------ 246
           KF SIP +FWWA ITMTTVGYGDI P T LGK++G                         
Sbjct: 360 KFKSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEF 419

Query: 247 --NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRE 304
              Q R+EKA+KRREA+ERAKR GSIVS   +N++DAFA+S++++D++V+       K++
Sbjct: 420 YKEQKRQEKAIKRREALERAKRNGSIVS---MNMKDAFARSIEMMDIVVEKNGESIAKKD 476

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           + +       K K  KR   E    K  + K +   +K +     +
Sbjct: 477 KVQDNHLSPNKWKWTKRALSETSSSKSFETKEQGSPEKARSSSSPQ 522

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Rattus norvegicus (taxid: 10116)

>sp|Q14721|KCNB1_HUMAN Potassium voltage-gated channel subfamily B member 1 OS=Homo sapiens GN=KCNB1 PE=1 SV=2

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 191/345 (55%), Positives = 238/345 (68%), Gaps = 38/345 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AIISIMFIVLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR  
Sbjct: 190 ILAIISIMFIVLSTIALSLNTLPELQSLDEFGQSTDNPQLAHVEAVCIAWFTMEYLLRFL 249

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP+KWKFFKG LN IDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 250 SSPKKWKFFKGPLNAIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 300

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DTK
Sbjct: 301 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDTK 360

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 361 FKSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 420

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
             Q R+EKA+KRREA+ERAKR GSIVS   +N++DAFA+S++++D++V+       K+++
Sbjct: 421 KEQKRQEKAIKRREALERAKRNGSIVS---MNMKDAFARSIEMMDIVVEKNGENMGKKDK 477

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
            +       K K  KR   E    K  + K +   +K +     +
Sbjct: 478 VQDNHLSPNKWKWTKRTLSETSSSKSFETKEQGSPEKARSSSSPQ 522

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Homo sapiens (taxid: 9606)

>sp|Q03717|KCNB1_MOUSE Potassium voltage-gated channel subfamily B member 1 OS=Mus musculus GN=Kcnb1 PE=1 SV=2

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 191/345 (55%), Positives = 238/345 (68%), Gaps = 38/345 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AIISIMFIVLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR  
Sbjct: 190 ILAIISIMFIVLSTIALSLNTLPELQSLDEFGQSTDNPQLAHVEAVCIAWFTMEYLLRFL 249

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP+KWKFFKG LN IDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 250 SSPKKWKFFKGPLNAIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 300

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DTK
Sbjct: 301 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDTK 360

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 361 FKSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 420

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
             Q R+EKA+KRREA+ERAKR GSIVS   +N++DAFA+S++++D++V+       K+++
Sbjct: 421 KEQKRQEKAIKRREALERAKRNGSIVS---MNMKDAFARSIEMMDIVVEKNGEGVAKKDK 477

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
            +       K K  KR   E    K  + K +   +K +     +
Sbjct: 478 VQDNHLSPNKWKWTKRALSETSSSKSFETKEQGSPEKARSSSSPQ 522

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Mus musculus (taxid: 10090)

>sp|O18868|KCNB1_PIG Potassium voltage-gated channel subfamily B member 1 OS=Sus scrofa GN=KCNB1 PE=2 SV=1

 Score =  371 bits (952), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/345 (54%), Positives = 238/345 (68%), Gaps = 38/345 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           I+AIISIMFIVLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR  
Sbjct: 190 ILAIISIMFIVLSTIALSLNTLPELQSLDEFGQTTDNPQLAHVEAVCIAWFTMEYLLRFL 249

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP+KWKFFKG LN IDLLAI+PYY+++FL ESN +           QFQ+VRRVVQ+FR
Sbjct: 250 SSPKKWKFFKGPLNAIDLLAILPYYVTIFLTESNKS---------VLQFQNVRRVVQIFR 300

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DTK
Sbjct: 301 IMRILRILKLARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDTK 360

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F SIP +FWWA ITMTTVGYGDI P T LGK++G                          
Sbjct: 361 FKSIPASFWWATITMTTVGYGDIYPKTLLGKIVGGLCCIAGVLVIALPIPIIVNNFSEFY 420

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
             Q R+EKA+KRREA+ERAKR GSIVS   +N++DAF +S++++D++V+  +    ++++
Sbjct: 421 KEQKRQEKAIKRREALERAKRNGSIVS---MNMKDAFPRSIEMMDIVVEKNVENMGQKDK 477

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
            +       K K  KR   E    K  + K +   +K +     +
Sbjct: 478 VQDNHLSPNKWKWTKRTLSETSSSKSFETKEQGSPEKARSSSSPQ 522

Mediates the voltage-dependent potassium ion permeability of excitable membranes. Channels open or close in response to the voltage difference across the membrane, letting potassium ions pass in accordance with their electrochemical gradient.

Sus scrofa (taxid: 9823)

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	371
340719848	905	PREDICTED: potassium voltage-gated chann	0.708	0.290	0.747	1e-127
195377926	1099	GJ13599 [Drosophila virilis] gi|19415489	0.687	0.232	0.762	1e-127
345495309	1041	PREDICTED: hypothetical protein LOC10012	0.690	0.245	0.765	1e-127
386770435	1010	shaker cognate b, isoform L [Drosophila	0.811	0.298	0.668	1e-127
350416884	616	PREDICTED: potassium voltage-gated chann	0.690	0.415	0.762	1e-127
386770433	972	shaker cognate b, isoform J [Drosophila	0.814	0.310	0.666	1e-126
357605995	818	hypothetical protein KGM_14717 [Danaus p	0.708	0.321	0.737	1e-126
17380406	985	RecName: Full=Potassium voltage-gated ch	0.687	0.258	0.755	1e-126
110767819	742	PREDICTED: potassium voltage-gated chann	0.708	0.354	0.747	1e-126
158459	924	Shab11 protein [Drosophila melanogaster]	0.687	0.275	0.751	1e-126

>gi|340719848|ref|XP_003398357.1| PREDICTED: potassium voltage-gated channel protein Shab-like [Bombus terrestris]

 Score =  461 bits (1186), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 225/301 (74%), Positives = 250/301 (83%), Gaps = 38/301 (12%)

Query: 21  TTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCIT 80
           TTS++     ++IA+ISI+FIVLST+ALTLNTIPS+Q  D+ GN  DNP+LAIVEAVCIT
Sbjct: 310 TTSIAA----RVIAVISILFIVLSTIALTLNTIPSMQVNDEKGNFQDNPQLAIVEAVCIT 365

Query: 81  WFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQF 140
           WF++EY+LR  ASP+KWKFFKGGLNVIDLLAI+PY++SLFL+E+N  +        TDQF
Sbjct: 366 WFTLEYMLRFSASPDKWKFFKGGLNVIDLLAILPYFVSLFLVETNKNA--------TDQF 417

Query: 141 QDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 200
           QDVRRVVQ+FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA
Sbjct: 418 QDVRRVVQIFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 477

Query: 201 YFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS-------------- 246
           YFAEKDE  TKF+SIPETFWWAGITMTTVGYGDI PTTPLGK+IGS              
Sbjct: 478 YFAEKDEAGTKFISIPETFWWAGITMTTVGYGDIYPTTPLGKVIGSVCCICGVLVIALPI 537

Query: 247 ------------NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
                       NQMRREKALKRREA+ERAKREGSIVSFHH+NLRDAFAKSMDLIDVIVD
Sbjct: 538 PIIVNNFAEFYKNQMRREKALKRREALERAKREGSIVSFHHINLRDAFAKSMDLIDVIVD 597

Query: 295 T 295
           T
Sbjct: 598 T 598

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195377926|ref|XP_002047738.1| GJ13599 [Drosophila virilis] gi|194154896|gb|EDW70080.1| GJ13599 [Drosophila virilis]

 Score =  461 bits (1186), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 221/290 (76%), Positives = 245/290 (84%), Gaps = 35/290 (12%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G+P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 509 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GSPQDNPQLAMVEAVCITWFTLEYILRFS 567

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 568 ASPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 619

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 620 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 679

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPETFWWAGITMTTVGYGDI PTTPLGK+IG+                         
Sbjct: 680 FVSIPETFWWAGITMTTVGYGDIYPTTPLGKVIGTVCCICGVLVIALPIPIIVNNFAEFY 739

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT
Sbjct: 740 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT 789

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345495309|ref|XP_001606895.2| PREDICTED: hypothetical protein LOC100123278 [Nasonia vitripennis]

 Score =  460 bits (1183), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 222/290 (76%), Positives = 243/290 (83%), Gaps = 34/290 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNTIPS+Q  DK GN  DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 294 VIAVISILFIVLSTIALTLNTIPSMQGSDKDGNIQDNPQLAMVEAVCITWFTLEYVLRFS 353

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLNVIDLLAIMPYY+SLFL+E+N  +        TDQFQDVRRVVQ+FR
Sbjct: 354 ASPDKWKFFKGGLNVIDLLAIMPYYVSLFLVETNKNA--------TDQFQDVRRVVQIFR 405

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEK+E  TK
Sbjct: 406 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKEEPGTK 465

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F+SIPETFWWAGITMTTVGYGDI PTT LGK+IGS                         
Sbjct: 466 FISIPETFWWAGITMTTVGYGDIYPTTALGKVIGSVCCICGVLVIALPIPIIVNNFAEFY 525

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA+ERAKREGSIVSFHH+NLRDAFAKSMDLIDVIVDT
Sbjct: 526 KNQMRREKALKRREALERAKREGSIVSFHHINLRDAFAKSMDLIDVIVDT 575

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|386770435|ref|NP_001246585.1| shaker cognate b, isoform L [Drosophila melanogaster] gi|383291708|gb|AFH04256.1| shaker cognate b, isoform L [Drosophila melanogaster]

 Score =  459 bits (1181), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 228/341 (66%), Positives = 255/341 (74%), Gaps = 40/341 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 466 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFS 524

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 525 ASPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 576

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 577 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 636

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPETFWWAGITMTTVGYGDI PTT LGK+IG+                         
Sbjct: 637 FVSIPETFWWAGITMTTVGYGDIYPTTALGKVIGTVCCICGVLVIALPIPIIVNNFAEFY 696

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT     EKRE 
Sbjct: 697 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT-----EKRES 751

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRK 346
             R  K   +     R+        +      +      R 
Sbjct: 752 HTRSLKNWHRLTHALRRSPTGHNLSQTDGNSTEGESTSGRN 792

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350416884|ref|XP_003491151.1| PREDICTED: potassium voltage-gated channel protein Shab-like, partial [Bombus impatiens]

 Score =  459 bits (1181), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 221/290 (76%), Positives = 244/290 (84%), Gaps = 34/290 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNTIPS+Q  D+ GN  DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 1   VIAVISILFIVLSTIALTLNTIPSMQVNDEKGNFQDNPQLAMVEAVCITWFTLEYMLRFS 60

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLNVIDLLAI+PYY+SLFL+E+N  +        TDQFQDVRRVVQ+FR
Sbjct: 61  ASPDKWKFFKGGLNVIDLLAILPYYVSLFLVETNKNA--------TDQFQDVRRVVQIFR 112

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEK+E  TK
Sbjct: 113 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKEEPGTK 172

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           F+SIPETFWWAGITMTTVGYGDI PTTPLGK+IGS                         
Sbjct: 173 FISIPETFWWAGITMTTVGYGDIYPTTPLGKVIGSVCCICGVLVIALPIPIIVNNFAEFY 232

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA+ERAKREGSIVSFHH+NLRDAFAKSMDLIDVIVDT
Sbjct: 233 KNQMRREKALKRREALERAKREGSIVSFHHINLRDAFAKSMDLIDVIVDT 282

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|386770433|ref|NP_001246584.1| shaker cognate b, isoform J [Drosophila melanogaster] gi|383291707|gb|AFH04255.1| shaker cognate b, isoform J [Drosophila melanogaster]

 Score =  459 bits (1181), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 228/342 (66%), Positives = 255/342 (74%), Gaps = 40/342 (11%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 466 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFS 524

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 525 ASPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 576

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 577 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 636

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPETFWWAGITMTTVGYGDI PTT LGK+IG+                         
Sbjct: 637 FVSIPETFWWAGITMTTVGYGDIYPTTALGKVIGTVCCICGVLVIALPIPIIVNNFAEFY 696

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT     EKRE 
Sbjct: 697 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT-----EKRES 751

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK 347
             R  K   +     R+        +      +      R  
Sbjct: 752 HTRSLKNWHRLTHALRRSPTGHNLSQTDGNSTEGESTSGRNP 793

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357605995|gb|EHJ64864.1| hypothetical protein KGM_14717 [Danaus plexippus]

 Score =  459 bits (1180), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 222/301 (73%), Positives = 249/301 (82%), Gaps = 38/301 (12%)

Query: 21  TTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCIT 80
           TTS++     ++IA+ISI+FIVLST+ LTLNTIP +Q  D+ G P+DNP+LA+VEAVCIT
Sbjct: 171 TTSIAA----RVIAVISILFIVLSTIGLTLNTIPQMQMYDEKGTPMDNPQLAMVEAVCIT 226

Query: 81  WFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQF 140
           WF++EY+LR  ASP+KWKFFKGGLNVIDLLAI+PY++SLFLLE+N  +        TDQF
Sbjct: 227 WFTLEYVLRFSASPDKWKFFKGGLNVIDLLAILPYFVSLFLLETNKNA--------TDQF 278

Query: 141 QDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 200
           QDVRRVVQ+FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA
Sbjct: 279 QDVRRVVQIFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 338

Query: 201 YFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS-------------- 246
           YFAEK+E  TKF+SIPETFWWAGITMTTVGYGDI PTTPLGK+IGS              
Sbjct: 339 YFAEKEEPGTKFISIPETFWWAGITMTTVGYGDIYPTTPLGKVIGSVCCICGVLVIALPI 398

Query: 247 ------------NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
                       NQMRREKALKRREA+ERAKREGSIVSFHH+NLRDAFAKSMDLIDVIVD
Sbjct: 399 PIIVNNFAEFYKNQMRREKALKRREALERAKREGSIVSFHHINLRDAFAKSMDLIDVIVD 458

Query: 295 T 295
           T
Sbjct: 459 T 459

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17380406|sp|P17970.2|KCNAB_DROME RecName: Full=Potassium voltage-gated channel protein Shab

 Score =  459 bits (1180), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 219/290 (75%), Positives = 243/290 (83%), Gaps = 35/290 (12%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 436 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFS 494

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           ASP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 495 ASPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 546

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILR+LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 547 IMRILRVLKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 606

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPE FWWAGITMTTVGYGDICPTT LGK+IG+                         
Sbjct: 607 FVSIPEAFWWAGITMTTVGYGDICPTTALGKVIGTVCCICGVLVVALPIPIIVNNFAEFY 666

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT
Sbjct: 667 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT 716

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110767819|ref|XP_393546.3| PREDICTED: potassium voltage-gated channel protein Shab-like [Apis mellifera]

 Score =  458 bits (1179), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 225/301 (74%), Positives = 250/301 (83%), Gaps = 38/301 (12%)

Query: 21  TTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCIT 80
           TTS++     ++IA+ISI+FIVLST+ALTLNTIPS+Q  D+ GN  DNP+LA+VEAVCIT
Sbjct: 348 TTSIAA----RVIAVISILFIVLSTIALTLNTIPSMQVNDEKGNFQDNPQLAMVEAVCIT 403

Query: 81  WFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQF 140
           WF++EYLLR  ASP+KWKFFKGGLNVIDLLAI+PYY+SLFL+E+N  +        TDQF
Sbjct: 404 WFTLEYLLRFSASPDKWKFFKGGLNVIDLLAILPYYVSLFLVETNKNA--------TDQF 455

Query: 141 QDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 200
           QDVRRVVQ+FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA
Sbjct: 456 QDVRRVVQIFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLA 515

Query: 201 YFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS-------------- 246
           YFAEK+E  TKF+SIPETFWWAGITMTTVGYGDI PTTPLGK+IGS              
Sbjct: 516 YFAEKEEPGTKFISIPETFWWAGITMTTVGYGDIYPTTPLGKVIGSVCCICGVLVIALPI 575

Query: 247 ------------NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVD 294
                       NQMRREKALKRREA+ERAKREGSIVSFHH+NLRDAFAKSMDLIDVIVD
Sbjct: 576 PIIVNNFAEFYKNQMRREKALKRREALERAKREGSIVSFHHINLRDAFAKSMDLIDVIVD 635

Query: 295 T 295
           T
Sbjct: 636 T 636

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158459|gb|AAA28896.1| Shab11 protein [Drosophila melanogaster]

 Score =  458 bits (1179), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 218/290 (75%), Positives = 243/290 (83%), Gaps = 35/290 (12%)

Query: 32  IIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLG 91
           +IA+ISI+FIVLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  
Sbjct: 436 VIAVISILFIVLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFS 494

Query: 92  ASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR 151
           +SP+KWKFFKGGLN+IDLLAI+PY++SLFLLE+N  +        TDQFQDVRRVVQVFR
Sbjct: 495 SSPDKWKFFKGGLNIIDLLAILPYFVSLFLLETNKNA--------TDQFQDVRRVVQVFR 546

Query: 152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTK 211
           IMRILR+LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTK
Sbjct: 547 IMRILRVLKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTK 606

Query: 212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS------------------------- 246
           FVSIPE FWWAGITMTTVGYGDICPTT LGK+IG+                         
Sbjct: 607 FVSIPEAFWWAGITMTTVGYGDICPTTALGKVIGTVCCICGVLVVALPIPIIVNNFAEFY 666

Query: 247 -NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
            NQMRREKALKRREA++RAKREGSIVSFHH+NL+DAFAKSMDLIDVIVDT
Sbjct: 667 KNQMRREKALKRREALDRAKREGSIVSFHHINLKDAFAKSMDLIDVIVDT 716

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	371
FB|FBgn0262593	985	Shab "Shaker cognate b" [Droso	0.528	0.198	0.751	2.1e-90
UNIPROTKB|G3X8A0	911	KCNB2 "Potassium voltage-gated	0.525	0.214	0.666	1.4e-72
UNIPROTKB|Q4ZHA6	911	KCNB2 "Potassium voltage-gated	0.525	0.214	0.666	1.4e-72
UNIPROTKB|F1RWI2	773	KCNB2 "Uncharacterized protein	0.525	0.252	0.666	1.4e-72
MGI|MGI:99632	907	Kcnb2 "potassium voltage gated	0.525	0.214	0.666	2.9e-72
RGD|621349	907	Kcnb2 "potassium voltage gated	0.525	0.214	0.666	2.9e-72
UNIPROTKB|F1LVV2	720	Kcnb2 "Potassium voltage-gated	0.525	0.270	0.666	2.9e-72
UNIPROTKB|Q63099	907	Kcnb2 "Potassium voltage-gated	0.525	0.214	0.666	2.9e-72
UNIPROTKB|E1BYX3	855	KCNB1 "Uncharacterized protein	0.525	0.228	0.661	2e-71
UNIPROTKB|E2QY00	858	KCNB1 "Uncharacterized protein	0.525	0.227	0.661	3.3e-71

FB|FBgn0262593 Shab "Shaker cognate b" [Drosophila melanogaster (taxid:7227)]

 Score = 785 (281.4 bits), Expect = 2.1e-90, Sum P(2) = 2.1e-90
 Identities = 154/205 (75%), Positives = 172/205 (83%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+ALTLNT+P LQH D  G P DNP+LA+VEAVCITWF++EY+LR  ASP+KWKFFK
Sbjct:   446 VLSTIALTLNTLPQLQHIDN-GTPQDNPQLAMVEAVCITWFTLEYILRFSASPDKWKFFK 504

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             GGLN+IDLLAI+PY++SLFLLE+N  + +Q    R               IMRILR+LKL
Sbjct:   505 GGLNIIDLLAILPYFVSLFLLETNKNATDQFQDVRRVVQVFR--------IMRILRVLKL 556

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE DTKFVSIPE FWW
Sbjct:   557 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEKDTKFVSIPEAFWW 616

Query:   222 AGITMTTVGYGDICPTTPLGKMIGS 246
             AGITMTTVGYGDICPTT LGK+IG+
Sbjct:   617 AGITMTTVGYGDICPTTALGKVIGT 641

GO:0005886 "plasma membrane" evidence=ISS

GO:0006813 "potassium ion transport" evidence=IEA;NAS;TAS

GO:0016021 "integral to membrane" evidence=NAS

GO:0005249 "voltage-gated potassium channel activity" evidence=NAS;TAS

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA;TAS

GO:0007268 "synaptic transmission" evidence=IMP

GO:0055085 "transmembrane transport" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA;IDA

GO:0008345 "larval locomotory behavior" evidence=IMP

GO:0001508 "regulation of action potential" evidence=IMP

GO:0060025 "regulation of synaptic activity" evidence=IMP

GO:0008016 "regulation of heart contraction" evidence=IMP

GO:0048812 "neuron projection morphogenesis" evidence=IMP

UNIPROTKB|G3X8A0 KCNB2 "Potassium voltage-gated channel subfamily B member 2" [Bos taurus (taxid:9913)]

 Score = 674 (242.3 bits), Expect = 1.4e-72, Sum P(2) = 1.4e-72
 Identities = 136/204 (66%), Positives = 158/204 (77%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DNP+LA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:   204 VLSTIALSLNTLPELQEMDEFGQPNDNPQLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 263

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   264 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 314

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   315 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 374

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   375 ATITMTTVGYGDIYPKTLLGKIVG 398

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

UNIPROTKB|Q4ZHA6 KCNB2 "Potassium voltage-gated channel subfamily B member 2" [Bos taurus (taxid:9913)]

 Score = 674 (242.3 bits), Expect = 1.4e-72, Sum P(2) = 1.4e-72
 Identities = 136/204 (66%), Positives = 158/204 (77%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DNP+LA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:   204 VLSTIALSLNTLPELQEMDEFGQPNDNPQLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 263

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   264 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 314

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   315 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 374

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   375 ATITMTTVGYGDIYPKTLLGKIVG 398

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0005249 "voltage-gated potassium channel activity" evidence=IEA

UNIPROTKB|F1RWI2 KCNB2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 674 (242.3 bits), Expect = 1.4e-72, Sum P(2) = 1.4e-72
 Identities = 136/204 (66%), Positives = 158/204 (77%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DNP+LA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:    65 VLSTIALSLNTLPELQEMDEFGQPNDNPQLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 124

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   125 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 175

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   176 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 235

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   236 ATITMTTVGYGDIYPKTLLGKIVG 259

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0005249 "voltage-gated potassium channel activity" evidence=IEA

MGI|MGI:99632 Kcnb2 "potassium voltage gated channel, Shab-related subfamily, member 2" [Mus musculus (taxid:10090)]

 Score = 671 (241.3 bits), Expect = 2.9e-72, Sum P(2) = 2.9e-72
 Identities = 136/204 (66%), Positives = 157/204 (76%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:   204 VLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 263

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   264 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 314

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   315 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 374

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   375 ATITMTTVGYGDIYPKTLLGKIVG 398

GO:0005216 "ion channel activity" evidence=IEA

GO:0005244 "voltage-gated ion channel activity" evidence=IEA

GO:0005249 "voltage-gated potassium channel activity" evidence=IEA

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA

GO:0005267 "potassium channel activity" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0006813 "potassium ion transport" evidence=IEA

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0034765 "regulation of ion transmembrane transport" evidence=IEA

GO:0043025 "neuronal cell body" evidence=ISO

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0055085 "transmembrane transport" evidence=IEA

GO:0071805 "potassium ion transmembrane transport" evidence=IEA

RGD|621349 Kcnb2 "potassium voltage gated channel, Shab-related subfamily, member 2" [Rattus norvegicus (taxid:10116)]

 Score = 671 (241.3 bits), Expect = 2.9e-72, Sum P(2) = 2.9e-72
 Identities = 136/204 (66%), Positives = 157/204 (76%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:   204 VLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 263

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   264 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 314

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   315 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 374

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   375 ATITMTTVGYGDIYPKTLLGKIVG 398

GO:0005249 "voltage-gated potassium channel activity" evidence=IEA

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0043025 "neuronal cell body" evidence=IDA

GO:0051260 "protein homooligomerization" evidence=IEA

UNIPROTKB|F1LVV2 Kcnb2 "Potassium voltage-gated channel subfamily B member 2" [Rattus norvegicus (taxid:10116)]

 Score = 671 (241.3 bits), Expect = 2.9e-72, Sum P(2) = 2.9e-72
 Identities = 136/204 (66%), Positives = 157/204 (76%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:    17 VLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 76

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:    77 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 127

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   128 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 187

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   188 ATITMTTVGYGDIYPKTLLGKIVG 211

GO:0005249 "voltage-gated potassium channel activity" evidence=IEA

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

UNIPROTKB|Q63099 Kcnb2 "Potassium voltage-gated channel subfamily B member 2" [Rattus norvegicus (taxid:10116)]

 Score = 671 (241.3 bits), Expect = 2.9e-72, Sum P(2) = 2.9e-72
 Identities = 136/204 (66%), Positives = 157/204 (76%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G P DN KLA VEAVCI WF++EYLLR  +SP KWKFFK
Sbjct:   204 VLSTIALSLNTLPELQENDEFGQPSDNRKLAHVEAVCIAWFTMEYLLRFLSSPNKWKFFK 263

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LNVIDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   264 GPLNVIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 314

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE  TKF SIP +FWW
Sbjct:   315 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDATKFTSIPASFWW 374

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   375 ATITMTTVGYGDIYPKTLLGKIVG 398

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

UNIPROTKB|E1BYX3 KCNB1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 669 (240.6 bits), Expect = 2.0e-71, Sum P(2) = 2.0e-71
 Identities = 135/204 (66%), Positives = 158/204 (77%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR  +SP+KWKFFK
Sbjct:   200 VLSTIALSLNTLPELQGMDEFGQTTDNPQLAHVEAVCIAWFTMEYLLRFLSSPKKWKFFK 259

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LN IDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   260 GPLNAIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 310

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DTKF SIP +FWW
Sbjct:   311 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDTKFKSIPASFWW 370

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   371 ATITMTTVGYGDIYPKTLLGKIVG 394

GO:0008076 "voltage-gated potassium channel complex" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA

UNIPROTKB|E2QY00 KCNB1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 669 (240.6 bits), Expect = 3.3e-71, Sum P(2) = 3.3e-71
 Identities = 135/204 (66%), Positives = 158/204 (77%)

Query:    42 VLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFK 101
             VLST+AL+LNT+P LQ  D+ G   DNP+LA VEAVCI WF++EYLLR  +SP+KWKFFK
Sbjct:   200 VLSTIALSLNTLPELQSLDEFGQTTDNPQLAHVEAVCIAWFTMEYLLRFLSSPKKWKFFK 259

Query:   102 GGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTXXXXXXXXXXXXXXIMRILRILKL 161
             G LN IDLLAI+PYY+++FL ESN +  + +   R               IMRILRILKL
Sbjct:   260 GPLNAIDLLAILPYYVTIFLTESNKSVLQFQNVRRVVQIFR---------IMRILRILKL 310

Query:   162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
             ARHSTGLQSLGFTLR SY ELGLL+LFLAMG++IFSSL +FAEKDE DTKF SIP +FWW
Sbjct:   311 ARHSTGLQSLGFTLRRSYNELGLLILFLAMGIMIFSSLVFFAEKDEDDTKFKSIPASFWW 370

Query:   222 AGITMTTVGYGDICPTTPLGKMIG 245
             A ITMTTVGYGDI P T LGK++G
Sbjct:   371 ATITMTTVGYGDIYPKTLLGKIVG 394

GO:0005251 "delayed rectifier potassium channel activity" evidence=IBA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0008076 "voltage-gated potassium channel complex" 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)
Q63099	KCNB2_RAT	No assigned EC number	0.6435	0.6765	0.2767	yes	N/A
Q95L11	KCNB2_RABIT	No assigned EC number	0.6470	0.6765	0.2755	yes	N/A
Q14721	KCNB1_HUMAN	No assigned EC number	0.5536	0.8274	0.3578	yes	N/A
A6H8H5	KCNB2_MOUSE	No assigned EC number	0.6435	0.6765	0.2767	yes	N/A
Q4ZHA6	KCNB2_BOVIN	No assigned EC number	0.6435	0.6765	0.2755	yes	N/A
P17970	KCNAB_DROME	No assigned EC number	0.7551	0.6873	0.2588	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	371
pfam00520	194	pfam00520, Ion_trans, Ion transport protein	6e-33
pfam07885	74	pfam07885, Ion_trans_2, Ion channel	9e-12
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	6e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	9e-10
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	3e-09
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	8e-09
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	9e-09
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-08
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	6e-08
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	7e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	7e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-08
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	8e-08
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-08
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	9e-08
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	1e-07
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	1e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-07
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	2e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-07
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	3e-07
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	4e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-07
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	4e-07
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-07
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	5e-07
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-07
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	6e-07
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	7e-07
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	7e-07
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	7e-07
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	7e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	9e-07
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	9e-07
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	1e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	1e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	1e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	1e-06
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	1e-06
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	1e-06
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	1e-06
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	2e-06
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	2e-06
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	2e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-06
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	3e-06
TIGR02794	346	TIGR02794, tolA_full, TolA protein	4e-06
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	4e-06
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	4e-06
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	4e-06
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	5e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-06
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-06
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-06
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	5e-06
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	5e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-06
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	6e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-06
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	7e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	8e-06
TIGR02794	346	TIGR02794, tolA_full, TolA protein	8e-06
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	8e-06
pfam11208	132	pfam11208, DUF2992, Protein of unknown function (D	9e-06
smart00435	391	smart00435, TOPEUc, DNA Topoisomerase I (eukaryota	9e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-05
pfam09428	130	pfam09428, DUF2011, Fungal protein of unknown func	1e-05
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	1e-05
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	1e-05
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	1e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	1e-05
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	1e-05
pfam09756	189	pfam09756, DDRGK, DDRGK domain	1e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-05
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	2e-05
pfam04935	206	pfam04935, SURF6, Surfeit locus protein 6	2e-05
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	2e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	2e-05
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	2e-05
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	2e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-05
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	3e-05
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	3e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-05
PRK14552	414	PRK14552, PRK14552, C/D box methylation guide ribo	4e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	4e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	4e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	4e-05
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	4e-05
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	4e-05
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	4e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	5e-05
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	5e-05
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	5e-05
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	5e-05
pfam09756	189	pfam09756, DDRGK, DDRGK domain	5e-05
TIGR02794	346	TIGR02794, tolA_full, TolA protein	6e-05
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	6e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	7e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-05
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	7e-05
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	7e-05
COG5163	591	COG5163, NOP7, Protein required for biogenesis of	7e-05
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	8e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	8e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	9e-05
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	9e-05
PRK00247	429	PRK00247, PRK00247, putative inner membrane protei	9e-05
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	9e-05
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	1e-04
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	1e-04
pfam09756	189	pfam09756, DDRGK, DDRGK domain	1e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	1e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	1e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	1e-04
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	1e-04
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	1e-04
COG5192	1077	COG5192, BMS1, GTP-binding protein required for 40	1e-04
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	1e-04
pfam08016	423	pfam08016, PKD_channel, Polycystin cation channel	1e-04
PRK05244	177	PRK05244, PRK05244, Der GTPase activator; Provisio	1e-04
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	1e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	1e-04
pfam03998	239	pfam03998, Utp11, Utp11 protein	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
PRK11642	813	PRK11642, PRK11642, exoribonuclease R; Provisional	2e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-04
pfam06658	142	pfam06658, DUF1168, Protein of unknown function (D	2e-04
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	2e-04
pfam09756	189	pfam09756, DDRGK, DDRGK domain	2e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	2e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	2e-04
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	2e-04
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	2e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	2e-04
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	2e-04
pfam14303	147	pfam14303, NAM-associated, No apical meristem-asso	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	3e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	3e-04
PRK11778	330	PRK11778, PRK11778, putative inner membrane peptid	3e-04
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	3e-04
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	3e-04
COG3064	387	COG3064, TolA, Membrane protein involved in colici	3e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	4e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	4e-04
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	4e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	4e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	4e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	4e-04
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	4e-04
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	4e-04
pfam06375	561	pfam06375, BLVR, Bovine leukaemia virus receptor (	4e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	4e-04
pfam03839	217	pfam03839, Sec62, Translocation protein Sec62	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	5e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	5e-04
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	5e-04
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	5e-04
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	5e-04
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	5e-04
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	5e-04
COG0810	244	COG0810, TonB, Periplasmic protein TonB, links inn	5e-04
PRK10537	393	PRK10537, PRK10537, voltage-gated potassium channe	5e-04
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	5e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	6e-04
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	6e-04
pfam09073	424	pfam09073, BUD22, BUD22	6e-04
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	6e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	7e-04
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	7e-04
pfam03839	217	pfam03839, Sec62, Translocation protein Sec62	7e-04
TIGR01310	235	TIGR01310, L7, 60S ribosomal protein L7, eukaryoti	7e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	8e-04
PRK00247	429	PRK00247, PRK00247, putative inner membrane protei	8e-04
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	8e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	8e-04
PRK04950	213	PRK04950, PRK04950, ProP expression regulator; Pro	9e-04
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	9e-04
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	9e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	0.001
PTZ00372	413	PTZ00372, PTZ00372, endonuclease 4-like protein; P	0.001
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.001
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.001
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.001
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.001
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	0.001
PTZ00108	1388	PTZ00108, PTZ00108, DNA topoisomerase 2-like prote	0.001
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.001
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	0.001
pfam06102	168	pfam06102, DUF947, Domain of unknown function (DUF	0.001
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	0.001
pfam03998	239	pfam03998, Utp11, Utp11 protein	0.001
pfam04641	254	pfam04641, Rtf2, Replication termination factor 2	0.001
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	0.001
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	0.001
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.001
pfam08701	80	pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase	0.001
cd09270	211	cd09270, RNase_H2-B, Ribonuclease H2-B is a subuni	0.001
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	0.001
PTZ00217	393	PTZ00217, PTZ00217, flap endonuclease-1; Provision	0.001
pfam06217	301	pfam06217, GAGA_bind, GAGA binding protein-like fa	0.001
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	0.001
pfam08648	158	pfam08648, DUF1777, Protein of unknown function (D	0.001
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	0.001
PRK06319	860	PRK06319, PRK06319, DNA topoisomerase I/SWI domain	0.001
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.001
COG0488	530	COG0488, Uup, ATPase components of ABC transporter	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	0.002
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	0.002
pfam10278	178	pfam10278, Med19, Mediator of RNA pol II transcrip	0.002
pfam09756	189	pfam09756, DDRGK, DDRGK domain	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.002
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.002
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.002
PTZ00069	300	PTZ00069, PTZ00069, 60S ribosomal protein L5; Prov	0.002
COG5192	1077	COG5192, BMS1, GTP-binding protein required for 40	0.002
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	0.002
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.002
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	0.002
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	0.002
TIGR01310	235	TIGR01310, L7, 60S ribosomal protein L7, eukaryoti	0.002
pfam09468	287	pfam09468, RNase_H2-Ydr279, Ydr279p protein family	0.002
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.002
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
PRK07219	822	PRK07219, PRK07219, DNA topoisomerase I; Validated	0.002
pfam03343	603	pfam03343, SART-1, SART-1 family	0.002
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	0.002
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	0.002
pfam11947	149	pfam11947, DUF3464, Protein of unknown function (D	0.002
COG5116	926	COG5116, RPN2, 26S proteasome regulatory complex c	0.002
pfam08079	71	pfam08079, Ribosomal_L30_N, Ribosomal L30 N-termin	0.002
PRK13808	333	PRK13808, PRK13808, adenylate kinase; Provisional	0.003
COG1498	395	COG1498, SIK1, Protein implicated in ribosomal bio	0.003
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.003
PTZ00399	651	PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Pro	0.003
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.003
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.003
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.003
PLN02381	1066	PLN02381, PLN02381, valyl-tRNA synthetase	0.003
PTZ00074	135	PTZ00074, PTZ00074, 60S ribosomal protein L34; Pro	0.003
pfam09073	424	pfam09073, BUD22, BUD22	0.003
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.003
pfam06217	301	pfam06217, GAGA_bind, GAGA binding protein-like fa	0.003
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.003
pfam03343	603	pfam03343, SART-1, SART-1 family	0.003
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	0.003
COG5116	926	COG5116, RPN2, 26S proteasome regulatory complex c	0.003
pfam13166	713	pfam13166, AAA_13, AAA domain	0.003
PRK14900	1052	PRK14900, valS, valyl-tRNA synthetase; Provisional	0.003
pfam03064	238	pfam03064, U79_P34, HSV U79 / HCMV P34	0.003
PLN03237	1465	PLN03237, PLN03237, DNA topoisomerase 2; Provision	0.003
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.003
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	0.004
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.004
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	0.004
pfam12569	516	pfam12569, NARP1, NMDA receptor-regulated protein	0.004
PRK12280	158	PRK12280, rplW, 50S ribosomal protein L23; Reviewe	0.004
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.004
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.004
PRK07561	859	PRK07561, PRK07561, DNA topoisomerase I subunit om	0.004
PRK00247	429	PRK00247, PRK00247, putative inner membrane protei	0.004
pfam08496	154	pfam08496, Peptidase_S49_N, Peptidase family S49 N	0.004
pfam13904	261	pfam13904, DUF4207, Domain of unknown function (DU	0.004
PRK11778	330	PRK11778, PRK11778, putative inner membrane peptid	0.004
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.004
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.004
TIGR01310	235	TIGR01310, L7, 60S ribosomal protein L7, eukaryoti	0.004
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.004
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.004
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.004
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.004
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	0.004
pfam10186	307	pfam10186, Atg14, UV radiation resistance protein	0.004
COG0513	513	COG0513, SrmB, Superfamily II DNA and RNA helicase	0.004

>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein

 Score =  121 bits (305), Expect = 6e-33
 Identities = 57/189 (30%), Positives = 87/189 (46%), Gaps = 30/189 (15%)

Query: 73  IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 132
           I++ V    F++E LL+  A   K K+F+   N++D L ++P  +SL L      S    
Sbjct: 1   ILDYVFTVIFTLEMLLKFIALGFKRKYFRSPWNILDFLVVLPSLVSLILFLLGEDSG--- 57

Query: 133 VQTRTDQFQDVRRVVQVFRIMRILRILKLAR-HSTGLQSLGFTLRNSYKELGLLMLFLAM 191
                     + RV+++ R++R+LR+L+      T LQSLG +L+ S   L LL+L L  
Sbjct: 58  ----------LLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLK-SLLNLLLLLLLLLF 106

Query: 192 GVLIFSSLAYFAEKDEHDTK----------FVSIPETFWWAGITMTTVGYGDI-----CP 236
              I     +  E D+   K          F S  E   W   T+TT G+GD+      P
Sbjct: 107 IFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMYDTLVP 166

Query: 237 TTPLGKMIG 245
            T LGK+  
Sbjct: 167 GTVLGKIFF 175

This family contains Sodium, Potassium, Calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not the Pfam family due to it lacking the first four helices. Length = 194

>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel

 Score = 59.9 bits (146), Expect = 9e-12
 Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 3/57 (5%)

Query: 188 FLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMI 244
            L + VLIF ++ Y  E++          +  +++ +T+TT+GYGDI P T  G++ 
Sbjct: 1   ILLLLVLIFGTVYYSLEEEGWGW---DFLDALYFSFVTLTTIGYGDIVPLTDAGRLF 54

This family includes the two membrane helix type ion channels found in bacteria. Length = 74

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 60.0 bits (146), Expect = 6e-10
 Identities = 22/54 (40%), Positives = 30/54 (55%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
           +   E+K  K  KK   KR ++KEKEK+K K KK+ R  K   K+RK     +E
Sbjct: 381 KAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGTSEE 434

Length = 434

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 59.5 bits (145), Expect = 9e-10
 Identities = 37/140 (26%), Positives = 77/140 (55%), Gaps = 10/140 (7%)

Query: 240 LGKMIGSNQMRREKALKRREA--MERAKREGSIVSF------HHVNLRDAFAKSMDLIDV 291
           L K     + R   A K  E     + K    ++ F      H+  L    A  ++L + 
Sbjct: 338 LSKTKEKRETRDSIAKKIAEKLHTSKRKVRREVLPFLSIIFKHNPELAARLAAFLELTEE 397

Query: 292 IVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRK 351
            +  E L   K+  K+ KK  ++  K+++ ++KEKKKK    KK++++ +++K KK++ K
Sbjct: 398 EI--EFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEK 455

Query: 352 KEEKKKKKKKKKKKEKRKKR 371
           +EE+++ +++K+++E++KK+
Sbjct: 456 EEEEEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 55.9 bits (135), Expect = 3e-09
 Identities = 26/65 (40%), Positives = 42/65 (64%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
                   K+   +  K  + +E+EKK+KK+KK+ +K+K++KK +K+K  + +  KKKKK
Sbjct: 129 GSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKK 188

Query: 361 KKKKK 365
           KKKKK
Sbjct: 189 KKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 54.7 bits (132), Expect = 8e-09
 Identities = 28/66 (42%), Positives = 45/66 (68%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
               E +  +K+   K +++   E+E+KK+K+KKK+ KK++K+KK KK+K  + +  KKK
Sbjct: 127 ELGSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKK 186

Query: 360 KKKKKK 365
           KKKKKK
Sbjct: 187 KKKKKK 192

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 56.4 bits (136), Expect = 9e-09
 Identities = 25/71 (35%), Positives = 52/71 (73%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            K E  + ++K+K + K +K+K+KEK K++ K +K K++ K+K+  K+K K++EKK ++ 
Sbjct: 98  PKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEP 157

Query: 361 KKKKKEKRKKR 371
           + +++EK+++R
Sbjct: 158 RDREEEKKRER 168

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 56.4 bits (136), Expect = 1e-08
 Identities = 23/72 (31%), Positives = 51/72 (70%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
              +E ++ K++ K ++K+KK K KE+ K ++ K++ K+KR  K+++K+K KK E+ + +
Sbjct: 101 ESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDR 160

Query: 360 KKKKKKEKRKKR 371
           +++KK+E+ + +
Sbjct: 161 EEEKKRERVRAK 172

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 55.3 bits (133), Expect = 2e-08
 Identities = 25/72 (34%), Positives = 47/72 (65%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           + K  ++ + +  K + K K++ ++EKKKKK K K+  K RK K+  K+KR  +EK+K+K
Sbjct: 91  KTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEK 150

Query: 360 KKKKKKEKRKKR 371
           +KK ++ + ++ 
Sbjct: 151 EKKVEEPRDREE 162

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 56.3 bits (135), Expect = 2e-08
 Identities = 23/73 (31%), Positives = 39/73 (53%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++K E  ++  +  +        E E  ++K +  ++KK+  KKK    K+K EEKKK 
Sbjct: 1334 AKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKA 1393

Query: 359  KKKKKKKEKRKKR 371
             + KKK E+ KK+
Sbjct: 1394 DEAKKKAEEDKKK 1406

Length = 2084

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 54.9 bits (133), Expect = 3e-08
 Identities = 20/53 (37%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 318 RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           R K K   +KK  +  KK   KR +KK K+K++ K   KK+ +  K   KR+K
Sbjct: 377 RPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPK--VKKRHRDTKNIGKRRK 427

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 54.5 bits (131), Expect = 4e-08
 Identities = 24/72 (33%), Positives = 49/72 (68%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            E ++RK +++ K+++  ++K KEKEKK ++ + ++ +KKR++ + K + +K  +KK   
Sbjct: 126 EEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPN 185

Query: 360 KKKKKKEKRKKR 371
           KKK+  E+ K+R
Sbjct: 186 KKKEPPEEEKQR 197

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 55.1 bits (132), Expect = 4e-08
 Identities = 19/75 (25%), Positives = 37/75 (49%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
            +   ++  E K++    K+K +  K+  +  K +        +  ++K    +K+K+E K
Sbjct: 1318 DEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAK 1377

Query: 356  KKKKKKKKKKEKRKK 370
            KK    KKK E++KK
Sbjct: 1378 KKADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 54.5 bits (131), Expect = 5e-08
 Identities = 24/71 (33%), Positives = 46/71 (64%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EKR  K ++K+K++K +  + +E+EKK+++ + K R KK  KKK   KK++  E++K+++
Sbjct: 139 EKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQ 198

Query: 361 KKKKKEKRKKR 371
             ++  K K  
Sbjct: 199 AAREAVKGKPE 209

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 54.1 bits (130), Expect = 5e-08
 Identities = 24/72 (33%), Positives = 52/72 (72%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +E+ + +++KKK+K K + K RK KE+ K+KR  K+++K+++KK  + + R++E+K+++ 
Sbjct: 110 KEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERV 169

Query: 360 KKKKKKEKRKKR 371
           + K + +K  K+
Sbjct: 170 RAKSRPKKPPKK 181

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.8 bits (131), Expect = 5e-08
 Identities = 18/72 (25%), Positives = 42/72 (58%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++K +  ++K ++ +K     + E E    + +  + K +  +KK+++ K+K +  KKK 
Sbjct: 1328 KKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKA 1387

Query: 360  KKKKKKEKRKKR 371
            ++KKK ++ KK+
Sbjct: 1388 EEKKKADEAKKK 1399

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.8 bits (131), Expect = 5e-08
 Identities = 19/75 (25%), Positives = 40/75 (53%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
            +   ++  E K+  + KK+  + KK+ +  KKK +  KK  +  + + +    + +  E+
Sbjct: 1305 DEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEE 1364

Query: 356  KKKKKKKKKKEKRKK 370
            K +  +KKK+E +KK
Sbjct: 1365 KAEAAEKKKEEAKKK 1379

Length = 2084

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 53.7 bits (129), Expect = 6e-08
 Identities = 21/67 (31%), Positives = 42/67 (62%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           ++  K   K    + K  ++ K +  ++++K K++ K++K+KKK++ KEE K +K K++ 
Sbjct: 78  KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEA 137

Query: 365 KEKRKKR 371
           KEKR  +
Sbjct: 138 KEKRPPK 144

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 53.8 bits (130), Expect = 7e-08
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           + +   +KK  +  K+   K  EKK+K+++K K KK+ +  K   K+RK    
Sbjct: 379 KTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 53.7 bits (129), Expect = 7e-08
 Identities = 24/72 (33%), Positives = 47/72 (65%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +    + +  K+ K +  +++ KEKE+ K+++KKKK K K + K RK K+  KE++  K+
Sbjct: 86  KGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKE 145

Query: 360 KKKKKKEKRKKR 371
           K+K+K++K ++ 
Sbjct: 146 KEKEKEKKVEEP 157

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.4 bits (130), Expect = 7e-08
 Identities = 18/72 (25%), Positives = 38/72 (52%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++  E K++ ++ K+K    K+K +E KK     K   +    +    +++ +  +KKK+
Sbjct: 1315 KKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKE 1374

Query: 360  KKKKKKEKRKKR 371
            + KKK +  KK+
Sbjct: 1375 EAKKKADAAKKK 1386

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.0 bits (129), Expect = 7e-08
 Identities = 19/73 (26%), Positives = 37/73 (50%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++K E  ++  + K+K +  K+K    KKK  + KK  +  K +        +  ++K 
Sbjct: 1307 AKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKA 1366

Query: 359  KKKKKKKEKRKKR 371
            +  +KKKE+ KK+
Sbjct: 1367 EAAEKKKEEAKKK 1379

Length = 2084

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 51.6 bits (124), Expect = 8e-08
 Identities = 24/63 (38%), Positives = 43/63 (68%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           + +   K    K +++ + +++ KK+K+KKK  KK++K+KK KKE+  + K  KKKK+K+
Sbjct: 131 ESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKK 190

Query: 369 KKR 371
           KK+
Sbjct: 191 KKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 54.0 bits (129), Expect = 8e-08
 Identities = 24/76 (31%), Positives = 42/76 (55%), Gaps = 4/76 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK----KKKRKKKKRKKEEK 355
              +      +  +++    +K+KE+ KKK    KKK ++K+K    KKK ++ K+K +E 
Sbjct: 1351 EAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADEL 1410

Query: 356  KKKKKKKKKKEKRKKR 371
            KK    KKK ++ KK+
Sbjct: 1411 KKAAAAKKKADEAKKK 1426

Length = 2084

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 53.4 bits (128), Expect = 9e-08
 Identities = 25/73 (34%), Positives = 45/73 (61%), Gaps = 1/73 (1%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
            + K E K RK K++ K KR   KEKEK+K+K+ ++ R ++ +KK+ + + + + +K  K
Sbjct: 122 EKPKEEPKDRKPKEEAKEKRPP-KEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPK 180

Query: 359 KKKKKKKEKRKKR 371
           KK   KK++  + 
Sbjct: 181 KKPPNKKKEPPEE 193

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 52.6 bits (127), Expect = 1e-07
 Identities = 16/53 (30%), Positives = 28/53 (52%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K +   EKK  K  KK   K+ +KK+++K+K K +++ +  K   K+ K    
Sbjct: 379 KTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 52.6 bits (127), Expect = 1e-07
 Identities = 16/55 (29%), Positives = 27/55 (49%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R + K   ++K  +  +K   K+ +K++K+K K K KK+ R  K   K  K    
Sbjct: 377 RPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 52.6 bits (126), Expect = 1e-07
 Identities = 26/75 (34%), Positives = 45/75 (60%), Gaps = 5/75 (6%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKR-----KKKKRKKEEK 355
           EK   K    K K  ++ K    KE++K+K + K+ KKK+K+K +     +K K + +EK
Sbjct: 81  EKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEK 140

Query: 356 KKKKKKKKKKEKRKK 370
           +  K+K+K+KEK+ +
Sbjct: 141 RPPKEKEKEKEKKVE 155

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 53.6 bits (128), Expect = 1e-07
 Identities = 20/73 (27%), Positives = 39/73 (53%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++K E  ++K    +K+  + +K  E  K + +    + +  ++K +  ++KKEE KKK
Sbjct: 1320 AKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKK 1379

Query: 359  KKKKKKKEKRKKR 371
                KKK + KK+
Sbjct: 1380 ADAAKKKAEEKKK 1392

Length = 2084

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 52.3 bits (126), Expect = 2e-07
 Identities = 18/59 (30%), Positives = 31/59 (52%), Gaps = 1/59 (1%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK-RKKKRKKKKRKKKKRKKEEKK 356
           I E R + +   +KK  +  KK   K  +KK+++K+K + KKR +  +   KR+K    
Sbjct: 373 IDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGT 431

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 52.6 bits (126), Expect = 2e-07
 Identities = 22/71 (30%), Positives = 49/71 (69%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            K E+K++K+K K + K +K KE+ K+K+  K+K+++K++K ++ + ++ +K+ ++ + K
Sbjct: 113 VKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAK 172

Query: 361 KKKKKEKRKKR 371
            + KK  +KK 
Sbjct: 173 SRPKKPPKKKP 183

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 51.9 bits (125), Expect = 2e-07
 Identities = 21/46 (45%), Positives = 35/46 (76%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
            KR ++ K++  K  K+K +EKK +KRKKKK++KK+ KK++KK ++
Sbjct: 369 NKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 51.9 bits (125), Expect = 2e-07
 Identities = 19/50 (38%), Positives = 38/50 (76%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           K++  ++ ++ KEK  K  K+K++++K +++KKK+K+KK+ K+ KKK +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 51.5 bits (124), Expect = 3e-07
 Identities = 16/56 (28%), Positives = 31/56 (55%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           + K   +++  K  +K   K+ ++KEK+K+K K KKR +  K   +++K     E+
Sbjct: 379 KTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNIGKRRKPSGTSEE 434

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 51.8 bits (124), Expect = 3e-07
 Identities = 23/74 (31%), Positives = 47/74 (63%), Gaps = 2/74 (2%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKK--RKKKKRKKEEKKK 357
            + +E K++KK+K ++  + ++ ++E K+K+  K+K K+K KK +  R +++ KK E+ +
Sbjct: 111 EQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVR 170

Query: 358 KKKKKKKKEKRKKR 371
            K + KK  K+K  
Sbjct: 171 AKSRPKKPPKKKPP 184

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 51.1 bits (123), Expect = 4e-07
 Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 2/60 (3%)

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
           R K K   ++K  K  +K   K+  KK+K K+K K KKR +  +     K++K     +E
Sbjct: 377 RPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKNI--GKRRKPSGTSEE 434

Length = 434

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 51.4 bits (123), Expect = 4e-07
 Identities = 22/71 (30%), Positives = 46/71 (64%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
             +    + K  K  +    ++E+++K++ +++KK+KK++ K++ K +K K+E K+K+  
Sbjct: 84  GSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPP 143

Query: 361 KKKKKEKRKKR 371
           K+K+KEK KK 
Sbjct: 144 KEKEKEKEKKV 154

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 51.0 bits (122), Expect = 4e-07
 Identities = 22/71 (30%), Positives = 47/71 (66%), Gaps = 1/71 (1%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKK-KKRKKKKRKKEEKKKKKK 360
            +E K    K++ K K + ++EK+KKK+K K++ + +K K+  K K+  ++KE++K+KK 
Sbjct: 95  AKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKV 154

Query: 361 KKKKKEKRKKR 371
           ++ +  + +K+
Sbjct: 155 EEPRDREEEKK 165

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 50.7 bits (122), Expect = 4e-07
 Identities = 22/95 (23%), Positives = 54/95 (56%), Gaps = 7/95 (7%)

Query: 277 NLRDAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKR--KRKKRKEKEKKKKKRKKK 334
           +L       + L+D + + ++          RK  K R+   ++  +  +E+++++ ++K
Sbjct: 233 DLLPLLNLVLYLVDKLANLKL-----SPEVLRKVDKTREEEEEKILKAAEEERQEEAQEK 287

Query: 335 KRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
           K +KK+++++ K  K   EE++K ++K++KK+ RK
Sbjct: 288 KEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 51.0 bits (122), Expect = 5e-07
 Identities = 20/72 (27%), Positives = 48/72 (66%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           ++K++ K +++ K RK K + ++++  K+K+++K+K+ ++ + ++ +KK+ +   K + K
Sbjct: 117 KKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPK 176

Query: 360 KKKKKKEKRKKR 371
           K  KKK   KK+
Sbjct: 177 KPPKKKPPNKKK 188

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 51.3 bits (122), Expect = 5e-07
 Identities = 26/76 (34%), Positives = 44/76 (57%), Gaps = 3/76 (3%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK---KRKKEEK 355
             ++  E K++ ++ K+K    K+    KKK    KKK ++K+K  + KKK    +K +E 
Sbjct: 1390 KKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEA 1449

Query: 356  KKKKKKKKKKEKRKKR 371
            KKK ++ KK E+ KK+
Sbjct: 1450 KKKAEEAKKAEEAKKK 1465

Length = 2084

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 51.3 bits (123), Expect = 5e-07
 Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 6/74 (8%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKE------KKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
           REK ++    KK  ++R+  K+   E       +KK + K  +K  RK KK   K +K  
Sbjct: 739 REKAKKGDAGKKGGKRRQVGKKVNFEPDSAFRGEKKAKPKAAKKDARKAKKPSAKTQKIA 798

Query: 354 EKKKKKKKKKKKEK 367
              K K+  KKK  
Sbjct: 799 AATKAKRAAKKKVA 812

Length = 813

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 50.6 bits (121), Expect = 5e-07
 Identities = 24/85 (28%), Positives = 42/85 (49%), Gaps = 12/85 (14%)

Query: 299 IREKRERKRRKKKKK-----RKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK---KR 350
            +E  +R   +K  K      K+  +K+K+ E+ K K+  + + K   + ++K K   K+
Sbjct: 91  QKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKK 150

Query: 351 KKEEKKKKK----KKKKKKEKRKKR 371
           + EE+ K K     KKK  E +KK 
Sbjct: 151 QAEEEAKAKAAAEAKKKAAEAKKKA 175

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 51.3 bits (122), Expect = 6e-07
 Identities = 20/73 (27%), Positives = 37/73 (50%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
              +        + +  + K +  ++K+++ KK+    +KK  +KKK  + K+K EE KKK
Sbjct: 1347 AAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKK 1406

Query: 359  KKKKKKKEKRKKR 371
              + KK    KK+
Sbjct: 1407 ADELKKAAAAKKK 1419

Length = 2084

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 47.7 bits (114), Expect = 6e-07
 Identities = 20/60 (33%), Positives = 41/60 (68%)

Query: 312 KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           KK   K +K   +EK+KKK++K+  KK+R   + ++++ K+  +K+K+ +K +++K K+R
Sbjct: 65  KKHNAKVEKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 47.7 bits (114), Expect = 7e-07
 Identities = 20/60 (33%), Positives = 45/60 (75%)

Query: 293 VDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKK 352
           V+ E+L  +++++KR++  KKR+   + R+E+ K++ +++K+ RK + KK KR++K+++K
Sbjct: 71  VEKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 49.2 bits (118), Expect = 7e-07
 Identities = 16/70 (22%), Positives = 36/70 (51%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           E + + + ++ +++ +KR+   EKEK  ++ +K K K  RKK+K + +K + +       
Sbjct: 105 EAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDI 164

Query: 361 KKKKKEKRKK 370
            +    +  K
Sbjct: 165 SELTVGQAVK 174

Length = 213

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 48.5 bits (116), Expect = 7e-07
 Identities = 30/80 (37%), Positives = 44/80 (55%), Gaps = 5/80 (6%)

Query: 292 IVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK-KKKRKKKKR 350
           I D E        +K++K+  +   K KK  E+++K K +KKK +KKK K K K+  KK 
Sbjct: 52  IYDAE----YTEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKD 107

Query: 351 KKEEKKKKKKKKKKKEKRKK 370
            K EKK +K+ + K E   K
Sbjct: 108 DKSEKKDEKEAEDKLEDLTK 127

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 47.7 bits (114), Expect = 7e-07
 Identities = 28/65 (43%), Positives = 48/65 (73%)

Query: 298 LIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
           L+ EK +++   ++ ++KR+ KKRK++EK  KKR K+++KK++KKKK+K KK  K+E+K+
Sbjct: 54  LMDEKWKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKKGNKKEEKE 113

Query: 358 KKKKK 362
             K  
Sbjct: 114 GSKSS 118

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.9 bits (121), Expect = 8e-07
 Identities = 25/75 (33%), Positives = 47/75 (62%), Gaps = 3/75 (4%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK---KRKKEEKK 356
            ++K +  ++K ++K+K    K+K +E KK    KKK ++ +K ++ KKK    +K +E K
Sbjct: 1417 KKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAK 1476

Query: 357  KKKKKKKKKEKRKKR 371
            KK ++ KK ++ KK+
Sbjct: 1477 KKAEEAKKADEAKKK 1491

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.5 bits (120), Expect = 9e-07
 Identities = 17/73 (23%), Positives = 39/73 (53%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++  E K++ ++ K+  + KK+ E+ KKK    KKK ++ +K  +  K + +    + +
Sbjct: 1301 KKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAE 1360

Query: 359  KKKKKKKEKRKKR 371
              ++K +   KK+
Sbjct: 1361 AAEEKAEAAEKKK 1373

Length = 2084

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 50.0 bits (120), Expect = 9e-07
 Identities = 22/50 (44%), Positives = 38/50 (76%)

Query: 315 KRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           K +  KR E+ K+K  +  KK+++++K +KRKKKK++K++ KK+KKK +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 50.0 bits (120), Expect = 9e-07
 Identities = 21/50 (42%), Positives = 37/50 (74%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           KE+  K+ +  K+K  K  KKK+ +KK +K+++KKK+KKK KK++K+ ++
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 48.2 bits (115), Expect = 1e-06
 Identities = 22/70 (31%), Positives = 41/70 (58%), Gaps = 3/70 (4%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKR---KKKKRKKKKRKKEEKKKKKK 360
                  + +   K    K +++ + + ++KK KKK+   KK+K++KK +K++  + K  
Sbjct: 124 PPSELGSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGS 183

Query: 361 KKKKKEKRKK 370
           KKKKK+K+KK
Sbjct: 184 KKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 49.9 bits (119), Expect = 1e-06
 Identities = 21/71 (29%), Positives = 46/71 (64%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           ++++ ++  K +K ++  ++KR  KEK+K+K KK +  + R+++K++++ R K   KK  
Sbjct: 120 KKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPP 179

Query: 360 KKKKKKEKRKK 370
           KKK   +K++ 
Sbjct: 180 KKKPPNKKKEP 190

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 49.5 bits (118), Expect = 1e-06
 Identities = 19/71 (26%), Positives = 47/71 (66%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EK+++K + K++ + RK K+  ++++  K+++K+K KK  + + R+++K+++  + K + 
Sbjct: 116 EKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRP 175

Query: 361 KKKKKEKRKKR 371
           KK  K+K   +
Sbjct: 176 KKPPKKKPPNK 186

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.5 bits (120), Expect = 1e-06
 Identities = 30/76 (39%), Positives = 44/76 (57%), Gaps = 4/76 (5%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK----KRKKEE 354
             ++K E K++  + K+K +  K+K  E KK    KKK  + +KK + KKK    K+K EE
Sbjct: 1383 AKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEE 1442

Query: 355  KKKKKKKKKKKEKRKK 370
             KK  + KKK E+ KK
Sbjct: 1443 AKKADEAKKKAEEAKK 1458

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.5 bits (120), Expect = 1e-06
 Identities = 23/75 (30%), Positives = 42/75 (56%), Gaps = 4/75 (5%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK----KKKRKKKKRKKEEKK 356
            E+ ++     K + +    + +  E+K +  +KKK + K+K    KKK ++KK+  E KK
Sbjct: 1339 EEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEEKKKADEAKK 1398

Query: 357  KKKKKKKKKEKRKKR 371
            K ++ KKK ++ KK 
Sbjct: 1399 KAEEDKKKADELKKA 1413

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 50.1 bits (119), Expect = 1e-06
 Identities = 23/69 (33%), Positives = 40/69 (57%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E ++ +  KKK +  +K  + K+K ++ KK  + K+K +  KKK  + K+  E KKK  +
Sbjct: 1455 EAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADE 1514

Query: 361  KKKKKEKRK 369
             KK +E +K
Sbjct: 1515 AKKAEEAKK 1523

Length = 2084

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 20/50 (40%), Positives = 38/50 (76%)

Query: 321 RKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           ++E  K+ ++ K+K  K  +KK++ KK +++K++KK+KKK KK+K+K +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 21/50 (42%), Positives = 38/50 (76%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK 349
           +E+  ++  + K+K  +  KK++E++K +K++KKKKRKKK KK+K+K +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 17/69 (24%), Positives = 43/69 (62%), Gaps = 7/69 (10%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK-------KKKKK 362
             +  ++  K R+E+E+K  K  +++R+++ ++KK +KKK ++E K         +K ++
Sbjct: 254 SPEVLRKVDKTREEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEE 313

Query: 363 KKKEKRKKR 371
           K+++K+ ++
Sbjct: 314 KERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 49.7 bits (119), Expect = 1e-06
 Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 6/73 (8%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKE------KEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
           + K+    +K  K+R+  +K   E       EKK K +  KK  +K KK   K +K    
Sbjct: 741 KAKKGDAGKKGGKRRQVGKKVNFEPDSAFRGEKKAKPKAAKKDARKAKKPSAKTQKIAAA 800

Query: 354 EKKKKKKKKKKKE 366
            K K+  KKK  E
Sbjct: 801 TKAKRAAKKKVAE 813

Length = 813

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 47.3 bits (113), Expect = 1e-06
 Identities = 21/63 (33%), Positives = 42/63 (66%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           KK   +  K   R++++KKK+KR  KKR+   + ++ + K+R ++EK+ +K ++KK ++R
Sbjct: 65  KKHNAKVEKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

Query: 369 KKR 371
           +K 
Sbjct: 125 QKE 127

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 49.1 bits (117), Expect = 2e-06
 Identities = 23/70 (32%), Positives = 42/70 (60%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           KR  K   K    K K  K  + E  K++ K+K++ K+ KKKK++K K + +++K K++ 
Sbjct: 78  KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEA 137

Query: 362 KKKKEKRKKR 371
           K+K+  ++K 
Sbjct: 138 KEKRPPKEKE 147

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 2e-06
 Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 3/74 (4%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK---RKKEEK 355
             ++K E  ++  + K+K +  K+ ++ KKK +  KKK  + +K  + KKK    +K EE 
Sbjct: 1462 AKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEA 1521

Query: 356  KKKKKKKKKKEKRK 369
            KK  + KK +E +K
Sbjct: 1522 KKADEAKKAEEAKK 1535

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 2e-06
 Identities = 31/126 (24%), Positives = 65/126 (51%), Gaps = 2/126 (1%)

Query: 248  QMRREKALKRREAMERAK--REGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
            +M+ E+A K  EA  +A+  ++          L+   A+     + +   E   + K   
Sbjct: 1606 KMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAE 1665

Query: 306  KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            + +K ++ +K+  + +K +E +KK  +  K++ +  KK  + KK++ EEKKK ++ KK +
Sbjct: 1666 EAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAE 1725

Query: 366  EKRKKR 371
            E+ K +
Sbjct: 1726 EENKIK 1731

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 2e-06
 Identities = 27/70 (38%), Positives = 42/70 (60%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
             K++    KKK + K+K  + K+K ++ KK+  + +K    KKK  + K+K EEKKK  +
Sbjct: 1376 AKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADE 1435

Query: 361  KKKKKEKRKK 370
             KKK E+ KK
Sbjct: 1436 AKKKAEEAKK 1445

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 2e-06
 Identities = 22/74 (29%), Positives = 41/74 (55%), Gaps = 4/74 (5%)

Query: 302  KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK----KRKKEEKKK 357
            K+  +++K  + +K + KK+ ++ KKK +  KK  + K+K ++ KKK    K+K EE KK
Sbjct: 1284 KKAEEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKK 1343

Query: 358  KKKKKKKKEKRKKR 371
              +  K + +    
Sbjct: 1344 AAEAAKAEAEAAAD 1357

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 2e-06
 Identities = 24/70 (34%), Positives = 41/70 (58%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E ++    KKK +  +K ++ K+K ++ KK  + K+K +  KK  + KK+ +E KKK  +
Sbjct: 1442 EAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADE 1501

Query: 361  KKKKKEKRKK 370
             KK  E +KK
Sbjct: 1502 AKKAAEAKKK 1511

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 2e-06
 Identities = 26/76 (34%), Positives = 43/76 (56%), Gaps = 3/76 (3%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK---RKKKRKKKKRKKKKRKKEEK 355
             ++K E  ++  + K+K +  K+ E+ KKK +  KK    +KK  + KK  + K+K EE 
Sbjct: 1436 AKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEA 1495

Query: 356  KKKKKKKKKKEKRKKR 371
            KKK  + KK  + KK+
Sbjct: 1496 KKKADEAKKAAEAKKK 1511

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 2e-06
 Identities = 25/76 (32%), Positives = 48/76 (63%), Gaps = 4/76 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKK----KRKKKKRKKKRKKKKRKKKKRKKEEK 355
            ++K +  ++K ++K+K    K+K +E KKK    K+    +KK  + KK+ ++K+K +E 
Sbjct: 1377 KKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEA 1436

Query: 356  KKKKKKKKKKEKRKKR 371
            KKK ++ KK ++ KK+
Sbjct: 1437 KKKAEEAKKADEAKKK 1452

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 2e-06
 Identities = 26/75 (34%), Positives = 44/75 (58%), Gaps = 3/75 (4%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK---KRKKEEKK 356
            ++K +  ++    K+K    K+K +EKKK    KKK ++ +K  + KKK    +K EE K
Sbjct: 1404 KKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAK 1463

Query: 357  KKKKKKKKKEKRKKR 371
            KK ++ KK ++ KK+
Sbjct: 1464 KKAEEAKKADEAKKK 1478

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 2e-06
 Identities = 25/75 (33%), Positives = 45/75 (60%), Gaps = 4/75 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK----KKKRKKKKRKKEEK 355
             +K +  ++K ++ +K +  K+K +E KK    KKK ++ +K    KKK ++ K+K +E 
Sbjct: 1443 AKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEA 1502

Query: 356  KKKKKKKKKKEKRKK 370
            KK  + KKK ++ KK
Sbjct: 1503 KKAAEAKKKADEAKK 1517

Length = 2084

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 21/50 (42%), Positives = 37/50 (74%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           K++  ++ +  K K  +  KKKR++KK +K++KKKKRKKK +K+++K +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 48.8 bits (117), Expect = 2e-06
 Identities = 22/53 (41%), Positives = 37/53 (69%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK 348
           + L  E  +R    K+K  K  +KKR+EK+ +K+K+KKK++KK +K+KK+ +K
Sbjct: 362 DELKEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 47.4 bits (113), Expect = 2e-06
 Identities = 23/59 (38%), Positives = 38/59 (64%), Gaps = 1/59 (1%)

Query: 313 KRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K+K+K     E EK KK+ ++K++ K +KKK +KKK + K++K  KK  K +K+  K+ 
Sbjct: 61  KKKKKELAE-EIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEA 118

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 47.8 bits (114), Expect = 2e-06
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 1/70 (1%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EK  ++  + KKK++ K K  KE  KKKKK+     K  +    R KKK ++        
Sbjct: 75  EKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLL 134

Query: 361 KKK-KKEKRK 369
               +K  R 
Sbjct: 135 DSPRRKSSRS 144

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.4 bits (117), Expect = 3e-06
 Identities = 17/70 (24%), Positives = 36/70 (51%)

Query: 302  KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            K+  +++K  + +K+  + +K  E KKK  + KK+    KKK  + KK  +  K + +  
Sbjct: 1296 KKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAA 1355

Query: 362  KKKKEKRKKR 371
              + E  +++
Sbjct: 1356 ADEAEAAEEK 1365

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.0 bits (116), Expect = 3e-06
 Identities = 24/71 (33%), Positives = 47/71 (66%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++  E  +++ ++ +K +  K+KE E+KKK  + KK +++ K K  + KK  +E+KKK +
Sbjct: 1688 KKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAE 1747

Query: 360  KKKKKKEKRKK 370
            + KK +E++KK
Sbjct: 1748 EAKKDEEEKKK 1758

Length = 2084

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 19/50 (38%), Positives = 37/50 (74%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
           +++  KR  + K++  K  KKK+ +KK +K+K+KKK++KK K++K++ +K
Sbjct: 365 KEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKKKGRK 414

Length = 414

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 47.9 bits (114), Expect = 4e-06
 Identities = 13/71 (18%), Positives = 42/71 (59%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           ++  E ++++  ++ ++K  +++   +K  K+ ++  K+  +K+K+ ++ + K+  + K 
Sbjct: 75  QQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKA 134

Query: 360 KKKKKKEKRKK 370
           K + + EK+ K
Sbjct: 135 KAEAEAEKKAK 145

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 45.3 bits (108), Expect = 4e-06
 Identities = 22/59 (37%), Positives = 43/59 (72%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           EK   + ++KKKKRKR  KKR+   + +++R K++ +K+++ +K ++KK K+ +K+K+K
Sbjct: 72  EKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRRQKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 45.4 bits (108), Expect = 4e-06
 Identities = 25/71 (35%), Positives = 50/71 (70%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           RE+++RK  +K  K++ KR+K+K+K+KKKKK KK  +K++++  K  ++   +EE+ ++ 
Sbjct: 72  REEKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKKGNKKEEKEGSKSSEESSDEEEEGEED 131

Query: 360 KKKKKKEKRKK 370
           K+++  E  +K
Sbjct: 132 KQEEPVEIMEK 142

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 46.9 bits (112), Expect = 4e-06
 Identities = 29/64 (45%), Positives = 47/64 (73%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EK  +K  K+K+K+K+K KK  ++ K+K ++KK +R+KKR++  +K+K  KK +KKKK K
Sbjct: 141 EKLLKKALKRKEKQKKKSKKEWKERKEKVEKKKAERQKKREENLKKRKDDKKNKKKKKAK 200

Query: 361 KKKK 364
           KK +
Sbjct: 201 KKGR 204

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional

 Score = 47.6 bits (114), Expect = 5e-06
 Identities = 17/53 (32%), Positives = 29/53 (54%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K R   E + K +   ++K  +  KK   K+ +K+EK+K+K K KK+ +  K 
Sbjct: 369 KARVIDELRPKTKAPSEKKTGKPSKKVLAKRAEKKEKEKEKPKVKKRHRDTKN 421

Length = 434

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 48.6 bits (115), Expect = 5e-06
 Identities = 19/72 (26%), Positives = 37/72 (51%), Gaps = 2/72 (2%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR--KKEEKKKK 358
            +K E K++  + K+K +  K+ ++ KKK +  KKK    +KK +  KK     K E +  
Sbjct: 1296 KKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAA 1355

Query: 359  KKKKKKKEKRKK 370
              + +  E++ +
Sbjct: 1356 ADEAEAAEEKAE 1367

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 47.5 bits (113), Expect = 5e-06
 Identities = 21/72 (29%), Positives = 38/72 (52%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++++ +  K K+  + K K   E EKK K+  KK+ +++ K K   + K+K  E KKK 
Sbjct: 116 EKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKA 175

Query: 360 KKKKKKEKRKKR 371
           + + K +   K 
Sbjct: 176 EAEAKAKAEAKA 187

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 47.5 bits (113), Expect = 5e-06
 Identities = 18/70 (25%), Positives = 36/70 (51%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            + E+K +++ KK+  +  K K   + KKK  + K+K + + K + + K K + ++ K K
Sbjct: 138 AEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAK 197

Query: 361 KKKKKEKRKK 370
            +  K K   
Sbjct: 198 AEAAKAKAAA 207

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 45.0 bits (107), Expect = 5e-06
 Identities = 23/66 (34%), Positives = 46/66 (69%), Gaps = 4/66 (6%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRK--KKKRKKKRKKKKRKKK--KRKKEEKKKKKKKKKKK 365
           KK   K +++  +EKEKKKK+++  KK+R   R +++R K+  +++K  +K ++KK K++
Sbjct: 65  KKHNAKVEKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRR 124

Query: 366 EKRKKR 371
           +K K++
Sbjct: 125 QKEKEK 130

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 21/55 (38%), Positives = 29/55 (52%)

Query: 317 KRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K  +R+E+ KKKK+ K K  K+  KKKK+K     K  K    + KKK E+    
Sbjct: 76  KELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWA 130

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 48.2 bits (114), Expect = 6e-06
 Identities = 25/70 (35%), Positives = 43/70 (61%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            EK++    KKK +  +K  + K+K ++ KK ++ K+K +  KK  + KK+ +E KK  + 
Sbjct: 1429 EKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEA 1488

Query: 361  KKKKKEKRKK 370
            KKK +E +KK
Sbjct: 1489 KKKAEEAKKK 1498

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 48.2 bits (114), Expect = 6e-06
 Identities = 17/71 (23%), Positives = 39/71 (54%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E ++ + +KK  + K+K ++ K+ ++ KKK ++ K+K    KKK ++ K+  E  K + +
Sbjct: 1294 EAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAE 1353

Query: 361  KKKKKEKRKKR 371
                + +  + 
Sbjct: 1354 AAADEAEAAEE 1364

Length = 2084

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 45.8 bits (109), Expect = 6e-06
 Identities = 20/71 (28%), Positives = 40/71 (56%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           + K+E + ++K K +K+K KK+K+K+K KK  KK  + +K+ +K+ + K     +   + 
Sbjct: 73  KVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSET 132

Query: 360 KKKKKKEKRKK 370
                + K +K
Sbjct: 133 LSTLSELKPRK 143

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.8 bits (113), Expect = 7e-06
 Identities = 25/76 (32%), Positives = 46/76 (60%), Gaps = 4/76 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK----KKKRKKKKRKKEEK 355
            ++K +  ++K ++ +K    K+K +E KK +  KKK ++ +K    KKK ++ K+  E K
Sbjct: 1430 KKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAK 1489

Query: 356  KKKKKKKKKKEKRKKR 371
            KK ++ KKK ++ KK 
Sbjct: 1490 KKAEEAKKKADEAKKA 1505

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.8 bits (113), Expect = 7e-06
 Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 2/73 (2%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK--RKKEEKK 356
             ++K E  ++  + K+K +  K+K  E KK    KKK  + +K ++ KK    +K EE K
Sbjct: 1475 AKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAK 1534

Query: 357  KKKKKKKKKEKRK 369
            K  + KK +EK+K
Sbjct: 1535 KADEAKKAEEKKK 1547

Length = 2084

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 47.5 bits (114), Expect = 7e-06
 Identities = 18/62 (29%), Positives = 40/62 (64%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            + ++  ++KK  K K+K+ KRK     K+ +  K R+++R +++R+KKK+K++  +K  
Sbjct: 114 PKAKKAAKKKKGPKPKKKKPKRKAARGGKRGKGGKGRRRRRGRRRRRKKKKKQKPTEKIP 173

Query: 360 KK 361
           ++
Sbjct: 174 RE 175

Length = 746

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.8 bits (113), Expect = 8e-06
 Identities = 24/69 (34%), Positives = 41/69 (59%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
             K++    KKK + K+K  + K+K ++ KK  + K+K +  KK  + KK+ +E KK  + 
Sbjct: 1416 AKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEA 1475

Query: 361  KKKKKEKRK 369
            KKK +E +K
Sbjct: 1476 KKKAEEAKK 1484

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.8 bits (113), Expect = 8e-06
 Identities = 17/73 (23%), Positives = 36/73 (49%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++  E+K+  + KK+  + KK  E +KK ++ KKK    K+K ++ KK     + + + 
Sbjct: 1295 AKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEA 1354

Query: 359  KKKKKKKEKRKKR 371
               + +  + K  
Sbjct: 1355 AADEAEAAEEKAE 1367

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 46.8 bits (111), Expect = 8e-06
 Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 2/70 (2%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK--K 360
           ++    K K + + ++K ++E +K+ ++  K K   + KKK  + KK+ + E K K   K
Sbjct: 127 KQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAK 186

Query: 361 KKKKKEKRKK 370
            K K E+ K 
Sbjct: 187 AKAKAEEAKA 196

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 46.2 bits (110), Expect = 8e-06
 Identities = 26/105 (24%), Positives = 45/105 (42%), Gaps = 29/105 (27%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK-------- 347
           E+   E+ ++K+R K K  K   KK+K+K+    K  K    + +KK +R          
Sbjct: 77  ELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLDS 136

Query: 348 ---------------------KKRKKEEKKKKKKKKKKKEKRKKR 371
                                K+R+   KK + K +K+KEK+K++
Sbjct: 137 PRRKSSRSSTVQNKEATHERLKEREIRRKKIQAKARKRKEKKKEK 181

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|221028 pfam11208, DUF2992, Protein of unknown function (DUF2992)

 Score = 44.5 bits (106), Expect = 9e-06
 Identities = 20/76 (26%), Positives = 46/76 (60%), Gaps = 5/76 (6%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKK-----RKKKKRKKKRKKKKRKKKKRKKE 353
           ++   +++++   K+ +R+  K  +K     K     + + +R K+ KKK+ K+KK +++
Sbjct: 55  VKVSIKKQKKINPKRLQRQAAKEVKKPGISTKAQQALKLEHERNKQEKKKRSKEKKEEEK 114

Query: 354 EKKKKKKKKKKKEKRK 369
           E+K++ K++KKK K +
Sbjct: 115 ERKRQLKQQKKKAKHR 130

This bacterial family of proteins has no known function. However, the cis-regulatory yjdF motif, just upstream from the gene encoding the proteins for this family, is a small non-coding RNA, Rfam:RF01764. The yjdF motif is found in many Firmicutes, including Bacillus subtilis. In most cases, it resides in potential 5' UTRs of homologues of the yjdF gene whose function is unknown. However, in Streptococcus thermophilus, a yjdF RNA motif is associated with an operon whose protein products synthesise nicotinamide adenine dinucleotide (NAD+). Also, the S. thermophilus yjdF RNA lacks typical yjdF motif consensus features downstream of and including the P4 stem. Thus, if yjdF RNAs are riboswitch aptamers, the S. thermophilus RNAs might sense a distinct compound that structurally resembles the ligand bound by other yjdF RNAs. On the ohter hand, perhaps these RNAs have an alternative solution forming a similar binding site, as is observed with some SAM riboswitches. Length = 132

>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota)

 Score = 47.0 bits (112), Expect = 9e-06
 Identities = 31/111 (27%), Positives = 56/111 (50%), Gaps = 4/111 (3%)

Query: 263 RAKREGSIVSFHHVNLRDAFAKSM----DLIDVIVDTEILIREKRERKRRKKKKKRKRKR 318
           RA RE +I+  H   +     KSM    + I  +      +++           KRK K 
Sbjct: 256 RANREVAILCNHQRTVSKTHEKSMEKLQEKIKALKYQLKRLKKMILLFEMISDLKRKLKS 315

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
           K  ++ EK   + K+KK++KK+++KK+K+ +R +E  +K + +   KE+ K
Sbjct: 316 KFERDNEKLDAEVKEKKKEKKKEEKKKKQIERLEERIEKLEVQATDKEENK 366

DNA Topoisomerase I (eukaryota), DNA topoisomerase V, Vaccina virus topoisomerase, Variola virus topoisomerase, Shope fibroma virus topoisomeras. Length = 391

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.4 bits (112), Expect = 1e-05
 Identities = 20/74 (27%), Positives = 37/74 (50%), Gaps = 4/74 (5%)

Query: 302  KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKK----KKRKKKKRKKEEKKK 357
            K+  + +K ++K+K    K+K +E KK    KKK ++ +KK    KK+ ++ +K  E  K
Sbjct: 1290 KKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAK 1349

Query: 358  KKKKKKKKEKRKKR 371
             + +    E     
Sbjct: 1350 AEAEAAADEAEAAE 1363

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.4 bits (112), Expect = 1e-05
 Identities = 26/70 (37%), Positives = 44/70 (62%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            EK++ + +KK    K+K +++K+ ++ KKK ++ K+K    KK    KK+  E KKK ++
Sbjct: 1370 EKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEE 1429

Query: 361  KKKKKEKRKK 370
            KKK  E +KK
Sbjct: 1430 KKKADEAKKK 1439

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 46.4 bits (110), Expect = 1e-05
 Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 3/71 (4%)

Query: 300 REKRERKRRKK---KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKK 356
           ++  E K + +   +KK K + KK+ E+E K K   + K+K    KKK + + + K E K
Sbjct: 127 KQAAEAKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAK 186

Query: 357 KKKKKKKKKEK 367
            K K ++ K K
Sbjct: 187 AKAKAEEAKAK 197

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 46.0 bits (109), Expect = 1e-05
 Identities = 18/70 (25%), Positives = 38/70 (54%), Gaps = 2/70 (2%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK--RKKKRKKKKRKKKKRKKEEKKKKKK 360
           + R++  +++    K  K+ E+  K+ + K+K+    K ++  + K K   + EKK K++
Sbjct: 88  QARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEE 147

Query: 361 KKKKKEKRKK 370
            KK+ E+  K
Sbjct: 148 AKKQAEEEAK 157

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|220237 pfam09428, DUF2011, Fungal protein of unknown function (DUF2011)

 Score = 44.2 bits (105), Expect = 1e-05
 Identities = 20/60 (33%), Positives = 40/60 (66%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
            K  K+  + K K+KKRK   KK++   + +R++ +++ +++K+ RK  EKK K+++K+K
Sbjct: 69  AKVEKELLREKEKKKKRKRPGKKRRIALRLRRERTKERAEKEKRTRKNREKKFKRRQKEK 128

This is a family of fungal proteins whose function is unknown. Length = 130

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 45.3 bits (108), Expect = 1e-05
 Identities = 12/68 (17%), Positives = 36/68 (52%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           E K + + ++ +++ KKR+   +K+K  +++++ K +  +K++K + +K E +       
Sbjct: 105 EAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDI 164

Query: 364 KKEKRKKR 371
            +    + 
Sbjct: 165 SELTVGQA 172

Length = 213

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 21/70 (30%), Positives = 39/70 (55%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           ++++ E K++ K KK+K K+KK K+K+KK  K+  K  KK  K+ + K +   K   +  
Sbjct: 74  VKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETL 133

Query: 359 KKKKKKKEKR 368
               + K ++
Sbjct: 134 STLSELKPRK 143

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 45.2 bits (107), Expect = 1e-05
 Identities = 23/67 (34%), Positives = 39/67 (58%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           R    +  K+K K K +K + +     +     +  K  ++K KK+K E+ K++KKKKK+
Sbjct: 102 RLMHIQPPKKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKE 161

Query: 365 KEKRKKR 371
           K+K+KKR
Sbjct: 162 KKKKKKR 168

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 46.8 bits (112), Expect = 1e-05
 Identities = 19/53 (35%), Positives = 31/53 (58%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            + +E+E +       +RKK RKK+++ +KK +KEE +K   KKK +   KK 
Sbjct: 394 AEGEEEEGENGNLSPAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKA 446

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 24/71 (33%), Positives = 38/71 (53%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           E +      KK K++ K  + K+K +KKKK+KK+K++ K + + +   K  K+ KK KKK
Sbjct: 46  ENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKKK 105

Query: 361 KKKKKEKRKKR 371
             K K      
Sbjct: 106 PPKPKPNEDVD 116

Length = 413

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 45.1 bits (107), Expect = 1e-05
 Identities = 17/64 (26%), Positives = 52/64 (81%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            KK+ K + K+ +R+++E ++++R+++K+ +++++ +RK+++  +EE++KKK+++++KE+
Sbjct: 5   AKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKER 64

Query: 368 RKKR 371
            ++ 
Sbjct: 65  EEQA 68

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 20/72 (27%), Positives = 40/72 (55%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +EK + K +K ++ R R+ +K++E+ + K + KK  +KK   KKK   ++ K+ +  ++ 
Sbjct: 144 KEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREA 203

Query: 360 KKKKKKEKRKKR 371
            K K +E     
Sbjct: 204 VKGKPEEPDVNE 215

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.7 bits (110), Expect = 2e-05
 Identities = 23/76 (30%), Positives = 45/76 (59%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
            E+      ++K  + KKK + K+K  + K+K ++ +K  + KKK ++ K+ ++ +KK E+
Sbjct: 1409 ELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEE 1468

Query: 356  KKKKKKKKKKEKRKKR 371
             KK  + KKK +  K+
Sbjct: 1469 AKKADEAKKKAEEAKK 1484

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 3/73 (4%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKK---RKKKKRKKKRKKKKRKKKKRKKEEKK 356
             +K +  ++K ++ +K    K+K +E KKK    +K  + KKK  + K+ ++ +K +E K
Sbjct: 1469 AKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAK 1528

Query: 357  KKKKKKKKKEKRK 369
            K ++ KK  E +K
Sbjct: 1529 KAEEAKKADEAKK 1541

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 27/76 (35%), Positives = 43/76 (56%), Gaps = 4/76 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK----RKKEEK 355
             +K+E  ++K    +K+  +K+K  E KKK  + KK+  + KK    KKK    +KK E+
Sbjct: 1370 EKKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEE 1429

Query: 356  KKKKKKKKKKEKRKKR 371
            KKK  + KKK +  K+
Sbjct: 1430 KKKADEAKKKAEEAKK 1445

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 2e-05
 Identities = 25/74 (33%), Positives = 42/74 (56%), Gaps = 4/74 (5%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKK----KKRKKKKRKKEEK 355
             +K E  ++K ++ +K    K+K +E KK    KKK ++ +KK    KK  + K+K +E 
Sbjct: 1456 AKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEA 1515

Query: 356  KKKKKKKKKKEKRK 369
            KK ++ KK  E +K
Sbjct: 1516 KKAEEAKKADEAKK 1529

Length = 2084

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 45.1 bits (107), Expect = 2e-05
 Identities = 18/69 (26%), Positives = 36/69 (52%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           E+ E++ +++++ +K+KR K K  ++  KK+KKK     +  K    + +KK E+     
Sbjct: 72  EEGEKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAP 131

Query: 361 KKKKKEKRK 369
                 +RK
Sbjct: 132 TLLDSPRRK 140

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|218336 pfam04935, SURF6, Surfeit locus protein 6

 Score = 45.0 bits (107), Expect = 2e-05
 Identities = 28/59 (47%), Positives = 45/59 (76%), Gaps = 3/59 (5%)

Query: 316 RKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE---EKKKKKKKKKKKEKRKKR 371
           +K  KRKEK+KKK K++ K+RK+K +KKK +++K+++E   ++K  KK KKKK+ +KK 
Sbjct: 145 KKALKRKEKQKKKSKKEWKERKEKVEKKKAERQKKREENLKKRKDDKKNKKKKKAKKKG 203

The surfeit locus protein SURF-6 is shown to be a component of the nucleolar matrix and has a strong binding capacity for nucleic acids. Length = 206

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 44.8 bits (106), Expect = 2e-05
 Identities = 26/60 (43%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE-EKKKKKKKKKKKEKRK 369
           KKK K K KK + ++   ++        K  +KK KKKK + + E+KKKKK+KKKK+KR 
Sbjct: 110 KKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKKKKKKRH 169

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 46.1 bits (110), Expect = 2e-05
 Identities = 19/48 (39%), Positives = 28/48 (58%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
             RKK +K++RK +K+ EKE+ +K   KKK +   KK K    + KK 
Sbjct: 409 AERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 21/65 (32%), Positives = 28/65 (43%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            ++   K +   +K  K+K  K     KK  K   K  K+ KK  KK  KK  K  KK  
Sbjct: 212 AKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAA 271

Query: 366 EKRKK 370
           +K  K
Sbjct: 272 KKAAK 276

Length = 333

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 45.9 bits (109), Expect = 2e-05
 Identities = 25/75 (33%), Positives = 47/75 (62%), Gaps = 9/75 (12%)

Query: 305 RKRRKKKKKRKRKR-KKRKEKEKKKKKRKKKKRKKK--------RKKKKRKKKKRKKEEK 355
             R K+K K +R + K+RKE E++ K+ K+ K+K           K+  +K+K R ++++
Sbjct: 272 PVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKKLAQLARLKEIAKEVAQKEKARARKKE 331

Query: 356 KKKKKKKKKKEKRKK 370
           ++K++ +KKK KR+K
Sbjct: 332 QRKERGEKKKLKRRK 346

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.9 bits (108), Expect = 3e-05
 Identities = 23/75 (30%), Positives = 44/75 (58%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
            +   ++  E K+  + KK+  + KK+ ++ KK  + KKK  + K+ ++ +K  + KK E+
Sbjct: 1473 DEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEE 1532

Query: 356  KKKKKKKKKKEKRKK 370
             KK  + KK E++KK
Sbjct: 1533 AKKADEAKKAEEKKK 1547

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.9 bits (108), Expect = 3e-05
 Identities = 26/78 (33%), Positives = 46/78 (58%), Gaps = 2/78 (2%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK--KRKKE 353
            +   ++  E+K+  + KK+  + KK  E +KK ++ KK +  KK+ ++ +K    K+K E
Sbjct: 1421 DEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAE 1480

Query: 354  EKKKKKKKKKKKEKRKKR 371
            E KK  + KKK E+ KK+
Sbjct: 1481 EAKKADEAKKKAEEAKKK 1498

Length = 2084

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 45.8 bits (109), Expect = 3e-05
 Identities = 21/80 (26%), Positives = 36/80 (45%)

Query: 289  IDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK 348
            ++   + E     K +R + K K K  + RK + +K++KKKK+    + KK       K+
Sbjct: 1141 LEEQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKR 1200

Query: 349  KRKKEEKKKKKKKKKKKEKR 368
                E++K   K   KK   
Sbjct: 1201 VDSDEKRKLDDKPDNKKSNS 1220

Length = 1388

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 43.6 bits (103), Expect = 3e-05
 Identities = 23/60 (38%), Positives = 37/60 (61%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           +K++K   K+ +EKE  K K++KK++K+K+  +K  KKK  K  K   KK  KK   +K+
Sbjct: 96  EKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKKE 155

Length = 158

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.5 bits (107), Expect = 4e-05
 Identities = 26/77 (33%), Positives = 45/77 (58%), Gaps = 2/77 (2%)

Query: 296  EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK--KRKKE 353
            + L +    +K+  + KK+  ++KK  E +KK ++ KK    KK+ ++ +K +  K+K E
Sbjct: 1408 DELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAE 1467

Query: 354  EKKKKKKKKKKKEKRKK 370
            E KK  + KKK E+ KK
Sbjct: 1468 EAKKADEAKKKAEEAKK 1484

Length = 2084

>gnl|CDD|237753 PRK14552, PRK14552, C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional

 Score = 45.0 bits (107), Expect = 4e-05
 Identities = 19/49 (38%), Positives = 37/49 (75%)

Query: 323 EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           ++ K++  ++ ++ K+K  K  +KK++ KK +K+KKKKK+KKK K++K+
Sbjct: 362 DELKEELNKRIEEIKEKYPKPPKKKREEKKPQKRKKKKKRKKKGKKRKK 410

Length = 414

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.8 bits (106), Expect = 4e-05
 Identities = 17/73 (23%), Positives = 45/73 (61%), Gaps = 3/73 (4%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK--- 357
            K+E++R+KK +++  + +K++  E+ ++K  +++   ++  K+ ++  ++ EEK+K   
Sbjct: 63  AKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAE 122

Query: 358 KKKKKKKKEKRKK 370
           + K K+  E + K
Sbjct: 123 EAKAKQAAEAKAK 135

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 45.3 bits (108), Expect = 4e-05
 Identities = 13/47 (27%), Positives = 27/47 (57%)

Query: 325 EKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
             ++KK +KK+RK ++K +K + +K   ++K +   KK K    + +
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETK 454

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 44.9 bits (107), Expect = 4e-05
 Identities = 16/46 (34%), Positives = 28/46 (60%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK 349
           ERK+ +KK+++  K+ +++E EK   K+K +   KK K    + KK
Sbjct: 410 ERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKK 455

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 45.1 bits (107), Expect = 4e-05
 Identities = 26/87 (29%), Positives = 45/87 (51%)

Query: 284 KSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKK 343
             +  I  I    +++ ++      +++ K      K+ +KE K  + KKK  KKK+KKK
Sbjct: 19  SKLQPISYIYSNVLVLSKEILSTFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKK 78

Query: 344 KRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           ++K+ K + E K   K  KK K+ +KK
Sbjct: 79  EKKEPKSEGETKLGFKTPKKSKKTKKK 105

Length = 413

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 44.7 bits (106), Expect = 4e-05
 Identities = 26/77 (33%), Positives = 40/77 (51%)

Query: 295 TEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEE 354
            EIL     E  +      +K K++ +  + KKK ++KKKK+K+K++ K   + K   + 
Sbjct: 36  KEILSTFSEEENKVATTSTKKDKKEDKNNESKKKSEKKKKKKKEKKEPKSEGETKLGFKT 95

Query: 355 KKKKKKKKKKKEKRKKR 371
            KK KK KKK  K K  
Sbjct: 96  PKKSKKTKKKPPKPKPN 112

Length = 413

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 45.1 bits (107), Expect = 4e-05
 Identities = 15/61 (24%), Positives = 34/61 (55%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            E      R++ +KR  K K++  K   K K ++ K+++  + +++KK+K+ K E++  +
Sbjct: 335 GEPDGISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQ 394

Query: 360 K 360
            
Sbjct: 395 N 395

Length = 395

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.1 bits (106), Expect = 5e-05
 Identities = 21/71 (29%), Positives = 42/71 (59%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++  E K++ ++ K+K    K+  + KKK    KK  + K+  + +K ++ KK ++ KK 
Sbjct: 1483 KKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKA 1542

Query: 360  KKKKKKEKRKK 370
            ++KKK ++ KK
Sbjct: 1543 EEKKKADELKK 1553

Length = 2084

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.4 bits (105), Expect = 5e-05
 Identities = 19/75 (25%), Positives = 42/75 (56%), Gaps = 5/75 (6%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK- 360
             E+ R+K+ ++R    K  K+ E+  K+ ++K+++ +  K K+  + + K E + +KK 
Sbjct: 85  AAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKA 144

Query: 361 ----KKKKKEKRKKR 371
               KK+ +E+ K +
Sbjct: 145 KEEAKKQAEEEAKAK 159

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.4 bits (105), Expect = 5e-05
 Identities = 18/72 (25%), Positives = 34/72 (47%), Gaps = 1/72 (1%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRK-KEEKKKK 358
            + +     +KK K + K++  +E + K     KKK  + +KK + + K +   + K K 
Sbjct: 132 AKAKAEAEAEKKAKEEAKKQAEEEAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKA 191

Query: 359 KKKKKKKEKRKK 370
           ++ K K E  K 
Sbjct: 192 EEAKAKAEAAKA 203

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 43.8 bits (104), Expect = 5e-05
 Identities = 16/54 (29%), Positives = 34/54 (62%)

Query: 318 RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           RK+ +E + K + ++ +++ KKR+    K+K  ++E K K K  +KK++ R ++
Sbjct: 100 RKQLEEAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQK 153

Length = 213

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 42.3 bits (100), Expect = 5e-05
 Identities = 25/67 (37%), Positives = 46/67 (68%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           R  R+++ +R     ++ +KE + ++ ++K+ +KKRK +++  KKR K +KKK+KKKKKK
Sbjct: 42  RALRRREYERLELMDEKWKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKKKKKK 101

Query: 365 KEKRKKR 371
           K K+  +
Sbjct: 102 KAKKGNK 108

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 44.9 bits (107), Expect = 5e-05
 Identities = 15/49 (30%), Positives = 28/49 (57%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             +++K ++K+RK ++K +K+  +K   KK+ +   KK K    E KK 
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 43.5 bits (103), Expect = 5e-05
 Identities = 15/66 (22%), Positives = 50/66 (75%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            +++ K + K+ R++++E E+++++ +KK  +K+  ++K +++  ++ EKKK+++++K++
Sbjct: 5   AKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKER 64

Query: 366 EKRKKR 371
           E++ ++
Sbjct: 65  EEQARK 70

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.1 bits (104), Expect = 6e-05
 Identities = 19/82 (23%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
             E   ++K E++  + +K+R  ++ ++KE E++    K  K+ ++  K+  +K+K+ +E
Sbjct: 64  KKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEE 123

Query: 354 EKKK----KKKKKKKKEKRKKR 371
            K K     K K + + ++K +
Sbjct: 124 AKAKQAAEAKAKAEAEAEKKAK 145

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 42.7 bits (101), Expect = 6e-05
 Identities = 25/75 (33%), Positives = 42/75 (56%), Gaps = 2/75 (2%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRK--KKRKKKKRKKKKRKKEEKK 356
           ++  + R +  K K R+R+  K  +K++K+  ++ KK    KK + KK   KK+  E KK
Sbjct: 88  LQSMKSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKK 147

Query: 357 KKKKKKKKKEKRKKR 371
            K+  K  ++KRKK 
Sbjct: 148 SKQLDKALEKKRKKN 162

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 44.1 bits (104), Expect = 7e-05
 Identities = 17/72 (23%), Positives = 45/72 (62%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +EK+  + R +++++KR+R + K + KK  K+K   +KK+  +++++++  ++  K K +
Sbjct: 150 KEKKVEEPRDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPE 209

Query: 360 KKKKKKEKRKKR 371
           +    +E+ K+ 
Sbjct: 210 EPDVNEEREKEE 221

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 7e-05
 Identities = 22/70 (31%), Positives = 43/70 (61%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++K +  ++  + K+K    K+ E+ KK  + KK +  KK  + K+ ++K+K +E KK +
Sbjct: 1496 KKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAE 1555

Query: 360  KKKKKKEKRK 369
            + KK +EK+K
Sbjct: 1556 ELKKAEEKKK 1565

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.7 bits (105), Expect = 7e-05
 Identities = 24/72 (33%), Positives = 41/72 (56%)

Query: 299  IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             ++K E  ++K  + +K    K+K  E KK +  KK  + K+ ++ +K  + KK E+KKK
Sbjct: 1488 AKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKK 1547

Query: 359  KKKKKKKEKRKK 370
              + KK E+ KK
Sbjct: 1548 ADELKKAEELKK 1559

Length = 2084

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 44.8 bits (107), Expect = 7e-05
 Identities = 11/43 (25%), Positives = 17/43 (39%)

Query: 323 EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           EK +K +       K    KK   K  RK +++    +K  K 
Sbjct: 816 EKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 43.9 bits (104), Expect = 7e-05
 Identities = 24/59 (40%), Positives = 34/59 (57%)

Query: 312 KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           KK     +    K KKKKK+KKK   KK K KK   K+RK   K KK +++++ +K+ K
Sbjct: 242 KKAHAAIRANPSKVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKKIK 300

Length = 300

>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]

 Score = 44.3 bits (104), Expect = 7e-05
 Identities = 26/61 (42%), Positives = 37/61 (60%), Gaps = 1/61 (1%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK-EKRK 369
            K + +KRK  +E+E+KK K      K+K+  KK K    KKEE+ +  KKKKK+  K+K
Sbjct: 526 NKSKNKKRKVDEEEEEKKLKMIMMSNKQKKLYKKMKYSNAKKEEQAENLKKKKKQIAKQK 585

Query: 370 K 370
           K
Sbjct: 586 K 586

Length = 591

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 43.1 bits (102), Expect = 8e-05
 Identities = 18/50 (36%), Positives = 29/50 (58%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            EKE ++++R KKK++ K K  K   KK+KK++    K  K    + KK+
Sbjct: 74  GEKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKK 123

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 44.0 bits (105), Expect = 8e-05
 Identities = 15/69 (21%), Positives = 46/69 (66%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
           +E + R+ + ++  KR  +KE+   +K    +KR+++ +KK+++ +++++E +KK+++ +
Sbjct: 75  KELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELE 134

Query: 363 KKKEKRKKR 371
           +  E++ + 
Sbjct: 135 ELIEEQLQE 143

Length = 520

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 9e-05
 Identities = 23/72 (31%), Positives = 45/72 (62%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            ++K E  ++ ++ ++K     +KE E+ KK  + KK++ + KKK  + KK ++E K K +
Sbjct: 1674 KKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAE 1733

Query: 360  KKKKKKEKRKKR 371
            + KK+ E+ KK+
Sbjct: 1734 EAKKEAEEDKKK 1745

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 9e-05
 Identities = 22/69 (31%), Positives = 42/69 (60%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            +K    ++K  + +K +  K+ ++ KK ++ KK    KK ++KK+  + +K EE KK ++
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEE 1562

Query: 361  KKKKKEKRK 369
            KKK +E +K
Sbjct: 1563 KKKAEEAKK 1571

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 9e-05
 Identities = 23/71 (32%), Positives = 43/71 (60%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            +K E   +K  +  K++ ++ K+ E+ KKK  ++K+K +  KK  ++ K K EE KK+ +
Sbjct: 1681 KKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAE 1740

Query: 361  KKKKKEKRKKR 371
            + KKK +  K+
Sbjct: 1741 EDKKKAEEAKK 1751

Length = 2084

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 43.7 bits (103), Expect = 9e-05
 Identities = 21/69 (30%), Positives = 28/69 (40%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
             ++  +KK  K     KK  +   K  K+ KK  KK  KK  +  KK  K+  K   K 
Sbjct: 222 AAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKA 281

Query: 362 KKKKEKRKK 370
            K   K  K
Sbjct: 282 AKGAAKATK 290

Length = 333

>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase component YidC; Validated

 Score = 43.7 bits (103), Expect = 9e-05
 Identities = 16/85 (18%), Positives = 37/85 (43%), Gaps = 13/85 (15%)

Query: 300 REKRERKRRKKKKKRKRKRKK-------------RKEKEKKKKKRKKKKRKKKRKKKKRK 346
            + RE+++ KK      +R +               E  + KK R  +K + K +KK+  
Sbjct: 292 AQYREKQKEKKAFLWTLRRNRLRMIITPWRAPELHAENAEIKKTRTAEKNEAKARKKEIA 351

Query: 347 KKKRKKEEKKKKKKKKKKKEKRKKR 371
           +K+R  E +  ++ ++++     + 
Sbjct: 352 QKRRAAEREINREARQERAAAMARA 376

Length = 429

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 41.7 bits (99), Expect = 9e-05
 Identities = 20/67 (29%), Positives = 33/67 (49%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
            +++K KK         +E +  K+  +     KK  K   K +K+ ++ K K +KKK K
Sbjct: 32  AQKKKGKKGELEITDLNEEYKDLKESLEAALLDKKELKAWEKAEKKAEKAKAKAEKKKAK 91

Query: 365 KEKRKKR 371
           KE+ K R
Sbjct: 92  KEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK 347
             ++    + E + +K+KKK+K  +K++KEK+ KK+K  + K  KK+KKKK+KK
Sbjct: 140 TAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKGSKKKKKKKKKK 193

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 1e-04
 Identities = 25/73 (34%), Positives = 44/73 (60%), Gaps = 2/73 (2%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK--KRKKEEKKK 357
            + + ++K+  + KK    +KK  E +KK +++KK    KK+ ++ +K    K+K EE KK
Sbjct: 1399 KAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKK 1458

Query: 358  KKKKKKKKEKRKK 370
             ++ KKK E+ KK
Sbjct: 1459 AEEAKKKAEEAKK 1471

Length = 2084

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 43.8 bits (104), Expect = 1e-04
 Identities = 16/48 (33%), Positives = 29/48 (60%)

Query: 323 EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
             E+KK ++K++K +KK +K++ +K   KK+ +   KK K    + KK
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKK 455

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 16/49 (32%), Positives = 29/49 (59%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             +RK+ RKK+++ EKK +K + +K   K+K +   KK +  + + KK 
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 16/67 (23%), Positives = 50/67 (74%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            +KR +   K+ ++++R+ ++ + +E+KK + K++  +K+ ++ + +++K+K+EE++K++
Sbjct: 5   AKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKER 64

Query: 360 KKKKKKE 366
           +++ +KE
Sbjct: 65  EEQARKE 71

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 20/72 (27%), Positives = 28/72 (38%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           +     +K  K    +   +K   + +   KK  KKK  K     K+  K   K  KK K
Sbjct: 194 VGAANAKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAK 253

Query: 359 KKKKKKKEKRKK 370
           K  KK  +K  K
Sbjct: 254 KTAKKALKKAAK 265

Length = 333

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 11/75 (14%)

Query: 300 REKRERK-RRKKKKKRKRKRKKRKEKEKKKKKRK----------KKKRKKKRKKKKRKKK 348
             + +RK + ++ K+++RK  +R+ KE+K+ K+K           K+  +K K + RKK+
Sbjct: 272 PVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKKLAQLARLKEIAKEVAQKEKARARKKE 331

Query: 349 KRKKEEKKKKKKKKK 363
           +RK+  +KKK K++K
Sbjct: 332 QRKERGEKKKLKRRK 346

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 18/58 (31%), Positives = 33/58 (56%)

Query: 295 TEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKK 352
             I +RE+ E++  K K+K  +   K K +  KK++  + +RKKK KK K +++  + 
Sbjct: 338 DGISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQN 395

Length = 395

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 14/63 (22%), Positives = 42/63 (66%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
             K+ +++KK ++  ++++++E++K++ + + R++  K+K  +  ++K ++  K++  K 
Sbjct: 94  SAKQAQRQKKLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKH 153

Query: 364 KKE 366
           KKE
Sbjct: 154 KKE 156

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 19/86 (22%), Positives = 49/86 (56%), Gaps = 14/86 (16%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK-----RKKKRKKKKRKKKKRKKEE 354
            +++++ ++  ++K+K++R+K +E+ + +++  K+K     R+K ++  K++  K KKE 
Sbjct: 98  AQRQKKLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKHKKEA 157

Query: 355 KK---------KKKKKKKKKEKRKKR 371
            +          K ++   +E+ KKR
Sbjct: 158 AESASSSLSGSAKPERNVSQEEAKKR 183

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 15/68 (22%), Positives = 41/68 (60%)

Query: 304  ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
            E + + + K R  K + + ++EK++ +  ++ ++++  KK++++++R ++      K+  
Sbjct: 1010 ECREKHEIKDRIVKERIKDQEEKERMESLQRAKEEEIGKKEKEREQRIRKTIHDNYKEMA 1069

Query: 364  KKEKRKKR 371
            KK  +KKR
Sbjct: 1070 KKRLKKKR 1077

Length = 1077

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 25/93 (26%), Positives = 50/93 (53%), Gaps = 14/93 (15%)

Query: 292 IVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRK 351
           + D E L REK E++  K++K+ ++ +K+ ++K+K+ +K +K K       K+++ K   
Sbjct: 547 LDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAKIPPAEFFKRQEDKYSA 606

Query: 352 KEE--------------KKKKKKKKKKKEKRKK 370
            +E              KK++KK  K+ +K+ K
Sbjct: 607 FDETGLPTHDADGEEISKKERKKLSKEYDKQAK 639

Length = 651

>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 32/155 (20%), Positives = 63/155 (40%), Gaps = 25/155 (16%)

Query: 67  DNPKLAIVEAVCITW--FSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYIS--LFLL 122
               L       +    F V  + ++    E  ++ +   N++DL  +    +   L + 
Sbjct: 205 SLFLLLCEIIFLVFVLYFVVAEITKIR--REGPRYLRSVWNLLDLAIVALSVVVIVLHIY 262

Query: 123 -ESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRI----------LRILKLARHSTGLQSL 171
            +  +T   ++V+     F D  RV ++ ++ RI          L++ K+ R +  +   
Sbjct: 263 RDFLATQLWKQVEASPVDFTDFDRVARLDQLYRIILAFLLFLTWLKLFKVLRFNRTMSLF 322

Query: 172 GFTLRNSYKEL-----GLLMLFLA---MGVLIFSS 198
             TL  + KEL       ++LFLA   +G L+F S
Sbjct: 323 TKTLSRALKELLGFAVMFVILFLAYAQLGYLLFGS 357

This family contains the cation channel region of PKD1 and PKD2 proteins. Length = 423

>gnl|CDD|235370 PRK05244, PRK05244, Der GTPase activator; Provisional

 Score = 42.2 bits (100), Expect = 1e-04
 Identities = 30/92 (32%), Positives = 45/92 (48%), Gaps = 24/92 (26%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKK---------------KRKKKKRK 346
           K++   ++ K   K K+K R+E + + ++RK+KK+ K               K K + +K
Sbjct: 2   KKKSSPKRSKGMAKSKKKTREELDAEARERKRKKKHKGLKSGSRHNEGNTQSKGKGQAQK 61

Query: 347 KKKR---KK------EEKKKKKKKKKKKEKRK 369
           K  R   KK      EEK K KKKK K +K K
Sbjct: 62  KDPRIGSKKPIPLGVEEKVKPKKKKPKSKKPK 93

Length = 177

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 16/46 (34%), Positives = 29/46 (63%)

Query: 323 EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           E+E ++K+ +K K   K K KK  K K +++EK K++K++K   + 
Sbjct: 39  EEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLREL 84

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 14/68 (20%), Positives = 36/68 (52%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
            +   +   K++ +  KK++EK+ + +K  K   ++K + +  K +K  +E + +  +++
Sbjct: 10  DKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRE 69

Query: 363 KKKEKRKK 370
            K E +K 
Sbjct: 70  LKAEAKKM 77

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein

 Score = 42.4 bits (100), Expect = 1e-04
 Identities = 29/77 (37%), Positives = 49/77 (63%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
           +   L+ EK+++K  KKK+K  ++ K+RKE+EKK KK +++   ++   KK K KK+K  
Sbjct: 163 EKTSLVDEKQKKKSAKKKRKLYKELKERKEREKKLKKVEQRLELQRELMKKGKGKKKKIV 222

Query: 354 EKKKKKKKKKKKEKRKK 370
           + K  K   K K++RK+
Sbjct: 223 KDKDGKVVYKWKKERKR 239

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 239

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.6 bits (102), Expect = 2e-04
 Identities = 23/69 (33%), Positives = 41/69 (59%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
             K++    KK ++ K+  + +K +E KK    KK  +KK+  + +K ++ KK E+KKK +
Sbjct: 1508 AKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAE 1567

Query: 361  KKKKKEKRK 369
            + KK E+ K
Sbjct: 1568 EAKKAEEDK 1576

Length = 2084

>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 20/70 (28%), Positives = 33/70 (47%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K  R++ KK    K+  K+R+  +K   +     R +K+ K K  KK  +K +K   K +
Sbjct: 736 KTAREKAKKGDAGKKGGKRRQVGKKVNFEPDSAFRGEKKAKPKAAKKDARKAKKPSAKTQ 795

Query: 362 KKKKEKRKKR 371
           K     + KR
Sbjct: 796 KIAAATKAKR 805

Length = 813

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 42.9 bits (101), Expect = 2e-04
 Identities = 16/79 (20%), Positives = 48/79 (60%)

Query: 291 VIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           V+VD   + ++    +++KK   +K + +++K +++ ++  K++  ++ R+K+  ++   
Sbjct: 41  VLVDPGAVAQQANRIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAA 100

Query: 351 KKEEKKKKKKKKKKKEKRK 369
           +K  K+ ++  K+ +EK+K
Sbjct: 101 EKAAKQAEQAAKQAEEKQK 119

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 2/65 (3%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK--KKKKE 366
           + K K   + KK+  + KKK + + K + + + K K ++ K K E  K K       K E
Sbjct: 155 EAKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAKAE 214

Query: 367 KRKKR 371
                
Sbjct: 215 AEAAA 219

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 15/73 (20%), Positives = 47/73 (64%), Gaps = 1/73 (1%)

Query: 300 REKRERKRRKKK-KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           R ++++K   KK ++R++K +++ E+ +K++  ++ ++K+  ++   +K  ++ E+  K+
Sbjct: 54  RIQQQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQ 113

Query: 359 KKKKKKKEKRKKR 371
            ++K+K+ +  K 
Sbjct: 114 AEEKQKQAEEAKA 126

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219124 pfam06658, DUF1168, Protein of unknown function (DUF1168)

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 23/72 (31%), Positives = 48/72 (66%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R + ER     +K +K    +  ++++++KKRK +++  K++ K++KKK++KK++KK KK
Sbjct: 46  RREYERLELMDEKWKKETEDEEFQQKREEKKRKDEEKTAKKRAKRQKKKQKKKKKKKAKK 105

Query: 360 KKKKKKEKRKKR 371
             KK++++  K 
Sbjct: 106 GNKKEEKEGSKS 117

This family consists of several hypothetical eukaryotic proteins of unknown function. Length = 142

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 42.6 bits (101), Expect = 2e-04
 Identities = 14/47 (29%), Positives = 28/47 (59%)

Query: 317 KRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           +RKK ++K++K +K+ +K+  +K   KK+ +   KK +    + KK 
Sbjct: 410 ERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 15/69 (21%), Positives = 55/69 (79%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            +  +++ ++++R+ + ++R+E++K ++KR+ ++++++  +++R+KKK ++E K+++++ 
Sbjct: 9   AKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQA 68

Query: 362 KKKKEKRKK 370
           +K++E+ +K
Sbjct: 69  RKEQEEYEK 77

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 14/61 (22%), Positives = 34/61 (55%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
            E      +++ +++ +K KEK  K   + K +R KK +  + ++KK++K+ K +++  +
Sbjct: 335 GEPDGISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQ 394

Query: 363 K 363
            
Sbjct: 395 N 395

Length = 395

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 313 KRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
                   R+E EK+ +K K+K  K   K K  + KK +    ++KKK+KK K +R+  
Sbjct: 335 GEPDGISLREELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGL 393

Length = 395

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 23/72 (31%), Positives = 42/72 (58%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             + ++R+R   K+ +K++++  KE +K    +K + +K   KKK  + KK K+ +K  +
Sbjct: 97  TLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVLKKKFDELKKSKQLDKALE 156

Query: 359 KKKKKKKEKRKK 370
           KK+KK   K KK
Sbjct: 157 KKRKKNAGKEKK 168

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 19/70 (27%), Positives = 44/70 (62%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           +KR+   ++  KK +   KK  E + +    ++ + K K +K K+++ ++K++E+  + K
Sbjct: 365 DKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDK 424

Query: 361 KKKKKEKRKK 370
           +K++K++RKK
Sbjct: 425 EKRQKDERKK 434

Length = 434

>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 13/74 (17%), Positives = 36/74 (48%), Gaps = 6/74 (8%)

Query: 303 RERKR-----RKKKKKRKRKRKKRKEKEKKKKKRKKKK-RKKKRKKKKRKKKKRKKEEKK 356
           RER R     R+  K R+R R++ + +++ +++R +   R ++ + + R   +  +    
Sbjct: 5   RERGRLRNDTRRSDKGRERSRRRSRSRDRSRRRRDRDYYRGRRGRSRSRSPNRYYRPRGD 64

Query: 357 KKKKKKKKKEKRKK 370
           +  ++  ++  R  
Sbjct: 65  RSYRRDDRRSGRNT 78

This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed. Length = 457

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 19/63 (30%), Positives = 39/63 (61%), Gaps = 2/63 (3%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKK--KRKKKKRKKKKRK 351
           + +IL  E+ ERK++K++K ++++ KK K  +K+ K + + ++        KK +KK RK
Sbjct: 9   EKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRK 68

Query: 352 KEE 354
           ++ 
Sbjct: 69  RDV 71

Length = 1066

>gnl|CDD|222665 pfam14303, NAM-associated, No apical meristem-associated C-terminal domain

 Score = 40.8 bits (96), Expect = 2e-04
 Identities = 24/66 (36%), Positives = 42/66 (63%), Gaps = 1/66 (1%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK-RKKKKRKKKKRKKEEKKKKKKKK 362
           E KR + +KK K K ++ K K KK++  K+K+++++  K     +K+R + EKKK + K 
Sbjct: 58  ESKRPEGRKKAKEKLRRDKLKAKKEEAEKEKEKEERFMKALAEAEKERAELEKKKAEAKL 117

Query: 363 KKKEKR 368
            K+EK+
Sbjct: 118 MKEEKK 123

This domain is found in a number of different types of plant proteins including NAM-like proteins. Length = 147

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.8 bits (100), Expect = 3e-04
 Identities = 22/72 (30%), Positives = 43/72 (59%), Gaps = 2/72 (2%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK--KKRKKEEKKK 357
             +K +  ++K ++ +K+  + +K  E KKK  + KK ++ +K  + KK  + +K +E KK
Sbjct: 1482 AKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKK 1541

Query: 358  KKKKKKKKEKRK 369
             ++KKK  E +K
Sbjct: 1542 AEEKKKADELKK 1553

Length = 2084

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.8 bits (100), Expect = 3e-04
 Identities = 24/69 (34%), Positives = 42/69 (60%)

Query: 302  KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            K+  + +KK  + K+  + +K  E KK +  KK  + K+ ++K+K  + KK E+ KK ++
Sbjct: 1503 KKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEE 1562

Query: 362  KKKKEKRKK 370
            KKK E+ KK
Sbjct: 1563 KKKAEEAKK 1571

Length = 2084

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 11/62 (17%), Positives = 37/62 (59%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           RK+ ++ K K + ++ +++ KK+    +++K  +++++ K K  ++++K + +K + +  
Sbjct: 100 RKQLEEAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHT 159

Query: 368 RK 369
             
Sbjct: 160 PV 161

Length = 213

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 39.9 bits (94), Expect = 3e-04
 Identities = 15/70 (21%), Positives = 37/70 (52%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           E+ +    K+  K   K K + EK++++KK + +K  K   ++K + +  K E++ ++ +
Sbjct: 3   EEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELE 62

Query: 361 KKKKKEKRKK 370
            +  + + K 
Sbjct: 63  AELARRELKA 72

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional

 Score = 42.1 bits (100), Expect = 3e-04
 Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 4/62 (6%)

Query: 314 RKRKRKKRKEKE----KKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
            +RK+ ++ E E     ++ K  K++ K     KK  K   K ++KK+K++ K  K K K
Sbjct: 30  AQRKKSQKGELEVTNLNEQYKEMKEELKAALLDKKELKAWHKAQKKKEKQEAKAAKAKSK 89

Query: 370 KR 371
            R
Sbjct: 90  PR 91

Length = 330

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 41.6 bits (98), Expect = 3e-04
 Identities = 21/93 (22%), Positives = 38/93 (40%), Gaps = 6/93 (6%)

Query: 284 KSMDLIDVIV----DTEILIREKR--ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRK 337
           K     DV+     + E+ + + R  E + +KKKKK+K+K KK        +        
Sbjct: 152 KPYSEEDVVPLNPTEEEVELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVP 211

Query: 338 KKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
            +      +  + KK +KK+      +K +  K
Sbjct: 212 TELSSGAGQVGEAKKLKKKRSIAPDNEKSEVYK 244

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 20/39 (51%), Positives = 30/39 (76%)

Query: 325 EKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           E+K  K+  K++ K++K+KK+KKKK+KK+  KK  KKKK
Sbjct: 97  EQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 17/70 (24%), Positives = 32/70 (45%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K E    KKK + + K    K K + + K K +K+ +   ++K   +K+K   K K  K 
Sbjct: 186 KAEAAAAKKKAEAEAKAAAEKAKAEAEAKAKAEKKAEAAAEEKAAAEKKKAAAKAKADKA 245

Query: 362 KKKKEKRKKR 371
               +  +++
Sbjct: 246 AAAAKAAERK 255

Length = 387

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.7 bits (98), Expect = 4e-04
 Identities = 15/72 (20%), Positives = 28/72 (38%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            + +     KKK    +K+ + + K K + K K K  + K K +  K K   +   K + 
Sbjct: 156 AKAKAAAEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAKAEA 215

Query: 360 KKKKKKEKRKKR 371
           +         +R
Sbjct: 216 EAAAAAAAEAER 227

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 41.1 bits (97), Expect = 4e-04
 Identities = 12/63 (19%), Positives = 30/63 (47%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           R  ++ KK+     K++  + ++K K K  ++K+K + +K + +     +  +    +  
Sbjct: 114 RAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDISELTVGQAV 173

Query: 365 KEK 367
           K K
Sbjct: 174 KVK 176

Length = 213

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 42.2 bits (100), Expect = 4e-04
 Identities = 13/48 (27%), Positives = 29/48 (60%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
            E++K +KK++K ++K ++++ ++   K+K E   KK K    + K+ 
Sbjct: 409 AERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 33/130 (25%), Positives = 65/130 (50%), Gaps = 10/130 (7%)

Query: 252 EKALKRREAMERAKRE-GSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRKK 310
            KA K+R+ +ER + +    ++     L +     ++  D   + E       E    + 
Sbjct: 207 VKAEKKRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDESAWEGFESEY 266

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR---------KKEEKKKKKKK 361
           +   K  R KRK K ++ K++++K+ +++ K++K+ KKK           KE  +K+K +
Sbjct: 267 EPINKPVRPKRKTKAQRNKEKRRKELEREAKEEKQLKKKLAQLARLKEIAKEVAQKEKAR 326

Query: 362 KKKKEKRKKR 371
            +KKE+RK+R
Sbjct: 327 ARKKEQRKER 336

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 26/71 (36%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E++E    K+  K +R + K K K  K   RK K +KK++KKKK    K KK       K
Sbjct: 1142 EEQEEVEEKEIAKEQRLKSKTKGKASKL--RKPKLKKKEKKKKKSSADKSKKASVVGNSK 1199

Query: 361  KKKKKEKRKKR 371
            +    EKRK  
Sbjct: 1200 RVDSDEKRKLD 1210

Length = 1388

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 42.3 bits (100), Expect = 4e-04
 Identities = 22/95 (23%), Positives = 42/95 (44%), Gaps = 1/95 (1%)

Query: 277  NLRDAFAKSMDLIDVIVDTEILIREKRERKR-RKKKKKRKRKRKKRKEKEKKKKKRKKKK 335
             L     K    ++ + +T        +  +  +  ++++   +K   KE++ K + K K
Sbjct: 1106 KLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKGK 1165

Query: 336  RKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
              K RK K +KK+K+KK+    K KK       K+
Sbjct: 1166 ASKLRKPKLKKKEKKKKKSSADKSKKASVVGNSKR 1200

Length = 1388

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 17/53 (32%), Positives = 33/53 (62%)

Query: 315 KRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           + + +KR EK K+K  +   K K +R KK+R  + R+K+++KK K +++  + 
Sbjct: 343 REELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQN 395

Length = 395

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 41.9 bits (99), Expect = 4e-04
 Identities = 16/45 (35%), Positives = 33/45 (73%)

Query: 313 KRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
           K   K + ++EKE+K+  +++K+ +K +K++++KKK+ +K EK K
Sbjct: 546 KLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAK 590

Length = 651

>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR)

 Score = 42.0 bits (98), Expect = 4e-04
 Identities = 25/107 (23%), Positives = 48/107 (44%), Gaps = 39/107 (36%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK---------------------------- 335
           E+K +K KKK K++++K ++K+KKK+    K                             
Sbjct: 196 EKKSKKPKKKEKKEKEKERDKDKKKEVEGFKSLLLALDDSPASAASVAEADEASLANTVS 255

Query: 336 -----------RKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
                      +  + ++ K+  K +KK+++K+K++KKKKK+    R
Sbjct: 256 GTAPDSEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKKKKHHHHR 302

This family consists of several bovine specific leukaemia virus receptors which are thought to function as transmembrane proteins, although their exact function is unknown. Length = 561

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 16/55 (29%), Positives = 25/55 (45%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
              +    K K++ + EKK KK K K + K + K K K + + K+   K   K  
Sbjct: 75  TPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAP 129

Length = 244

>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62

 Score = 40.9 bits (96), Expect = 4e-04
 Identities = 19/58 (32%), Positives = 30/58 (51%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           + K  K K   +   +   + K  +K K   K +  +R KK   +E+K++KKK KKKK
Sbjct: 20  KYKANKDKGNPEIYNKINSQDKAIEKFKLLIKAQMAERVKKLHSQEKKEEKKKPKKKK 77

Length = 217

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 42.1 bits (98), Expect = 5e-04
 Identities = 22/69 (31%), Positives = 46/69 (66%)

Query: 300  REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             +K E  ++K+ +++K+  + +K +E+ K K ++ K++ +  KKK ++ K+ +EEKKK  
Sbjct: 1701 AKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIA 1760

Query: 360  KKKKKKEKR 368
              KK++EK+
Sbjct: 1761 HLKKEEEKK 1769

Length = 2084

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 40.8 bits (96), Expect = 5e-04
 Identities = 13/53 (24%), Positives = 30/53 (56%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            +++ + +++ K+KK+ + K  K+  +KKKK+     K  K    + +K+ +R
Sbjct: 74  GEKELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSER 126

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 25/69 (36%), Positives = 29/69 (42%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K   K  KK KK  +K  K+  K  KK  +K  K   K  K   K  K K + KKK  KK
Sbjct: 243 KTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGKAKAKKKAGKK 302

Query: 362 KKKKEKRKK 370
                K K 
Sbjct: 303 AAAGSKAKA 311

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 23/70 (32%), Positives = 30/70 (42%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K+  K     KK  +   K  +K KK  K+  KK  K  KK  +K  K   +  K   K 
Sbjct: 229 KKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKA 288

Query: 362 KKKKEKRKKR 371
            K K K KK+
Sbjct: 289 TKGKAKAKKK 298

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 23/71 (32%), Positives = 29/71 (40%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            K+  K    K   K+   K K   KK  K+K  K     KK  +   K  K+ KK  KK
Sbjct: 199 AKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKK 258

Query: 361 KKKKKEKRKKR 371
             KK  K  K+
Sbjct: 259 ALKKAAKAVKK 269

Length = 333

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 42.0 bits (99), Expect = 5e-04
 Identities = 22/88 (25%), Positives = 41/88 (46%)

Query: 280  DAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK 339
            D F ++++  + + + EI   ++ + K + K  K ++ + K+KEK+KKK    K K+   
Sbjct: 1135 DKFEEALEEQEEVEEKEIAKEQRLKSKTKGKASKLRKPKLKKKEKKKKKSSADKSKKASV 1194

Query: 340  RKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
                KR     K++   K   KK     
Sbjct: 1195 VGNSKRVDSDEKRKLDDKPDNKKSNSSG 1222

Length = 1388

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 23/61 (37%), Positives = 34/61 (55%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           ++K+  K   +K   K KK+KK KK+K+  ++  KK+  K  K   KK  KK   KKE+ 
Sbjct: 98  EQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKKEEG 157

Query: 369 K 369
           K
Sbjct: 158 K 158

Length = 158

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 41.7 bits (99), Expect = 5e-04
 Identities = 9/63 (14%), Positives = 22/63 (34%)

Query: 282 FAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK 341
             K  +     V+  + +  ++  K R       +    +K   K  +K K++    ++ 
Sbjct: 796 LPKGRETRAPTVEEALELLAEKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKD 855

Query: 342 KKK 344
            K 
Sbjct: 856 GKA 858

Length = 859

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 41.2 bits (97), Expect = 5e-04
 Identities = 19/55 (34%), Positives = 33/55 (60%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
              R    K +K+K+KKKK   KK + KK   K+RK + + K+ +++++ +KK K
Sbjct: 246 AAIRANPSKVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKKIK 300

Length = 300

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 14/64 (21%), Positives = 41/64 (64%), Gaps = 2/64 (3%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE--EKKKKKKKKKKKEK 367
              K+ +++KK ++  ++K+K++++K +++ + ++R  K++ +E   +K ++  K++  K
Sbjct: 93  LSAKQAQRQKKLQKLLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPK 152

Query: 368 RKKR 371
            KK 
Sbjct: 153 HKKE 156

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]

 Score = 40.9 bits (96), Expect = 5e-04
 Identities = 20/58 (34%), Positives = 27/58 (46%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
           + +   +    K KEK K +KK KK K K K K K + K K + + KK   K   K  
Sbjct: 72  EPETPPEPTPPKPKEKPKPEKKPKKPKPKPKPKPKPKPKVKPQPKPKKPPSKTAAKAP 129

Length = 244

>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional

 Score = 41.5 bits (98), Expect = 5e-04
 Identities = 16/60 (26%), Positives = 27/60 (45%), Gaps = 8/60 (13%)

Query: 184 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 243
            L+ +   G L           D       S+   F+++ +TM+TVGYGDI P +   ++
Sbjct: 146 SLLFYSTFGALYLG--------DGFSPPIESLSTAFYFSIVTMSTVGYGDIVPVSESARL 197

Length = 393

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 41.9 bits (98), Expect = 5e-04
 Identities = 21/66 (31%), Positives = 33/66 (50%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EK + +  +  K R+R++KKRK +  KK   K KK +K  K+K     K+       K +
Sbjct: 548 EKSKTELDRTDKNRERRKKKRKRRAAKKAVTKAKKERKIGKEKVDGVAKKSSSAFFAKLQ 607

Query: 361 KKKKKE 366
           + K  E
Sbjct: 608 ETKAVE 613

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.7 bits (97), Expect = 6e-04
 Identities = 29/125 (23%), Positives = 68/125 (54%), Gaps = 2/125 (1%)

Query: 246  SNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRER 305
            + ++++ +  K+ E  ++A+ + ++        + A    ++  +V+   E   + K E 
Sbjct: 1554 AEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIE--EVMKLYEEEKKMKAEE 1611

Query: 306  KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
             ++ ++ K K +  K+ E+EKKK ++ KKK  +++KK +  KK  ++ + K  ++ KK +
Sbjct: 1612 AKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAE 1671

Query: 366  EKRKK 370
            E +KK
Sbjct: 1672 EDKKK 1676

Length = 2084

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 20/52 (38%), Positives = 33/52 (63%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKK 356
           R    K KK+K+K+KK   K+ K KK   K+RK + K KK ++++R +++ K
Sbjct: 249 RANPSKVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKKIK 300

Length = 300

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 9/80 (11%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           REK +++R  ++ + + ++ KR+  + K  +  +    + ++K  R K+  KK+ KK   
Sbjct: 334 REKEQKEREGRQSEWEARQAKREGGDAKAGRAAEPTGSRTQQKGDRPKRGEKKKPKKPSV 393

Query: 360 K---------KKKKKEKRKK 370
                     KKK KEK+  
Sbjct: 394 DKPLHPSWEAKKKAKEKKAN 413

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 39.2 bits (92), Expect = 6e-04
 Identities = 15/58 (25%), Positives = 36/58 (62%), Gaps = 3/58 (5%)

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKK---KKRKKKKRKKEEKKKKKKK 361
           R K  +    + K+ +++ +K++K +K++++K+  K   +K +++KR +E +K K K 
Sbjct: 5   RDKSGRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKP 62

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.0 bits (96), Expect = 7e-04
 Identities = 14/67 (20%), Positives = 29/67 (43%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            + ++K  + KKK + + K + E + K K  + K + +  K K   +   K E +     
Sbjct: 162 AEAKKKAAEAKKKAEAEAKAKAEAKAKAKAEEAKAKAEAAKAKAAAEAAAKAEAEAAAAA 221

Query: 361 KKKKKEK 367
             + + K
Sbjct: 222 AAEAERK 228

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 41.4 bits (97), Expect = 7e-04
 Identities = 18/63 (28%), Positives = 36/63 (57%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           E+K   +++  ++K+K+ K KEK+ KK K  +++ K K + ++        KK +KK +K
Sbjct: 9   EKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRK 68

Query: 364 KKE 366
           +  
Sbjct: 69  RDV 71

Length = 1066

>gnl|CDD|217756 pfam03839, Sec62, Translocation protein Sec62

 Score = 40.2 bits (94), Expect = 7e-04
 Identities = 21/70 (30%), Positives = 35/70 (50%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R KR  +  + +K +  K K   E   K   + K   K K   K +  ++ KK   ++KK
Sbjct: 8   RAKRVVRALESEKYKANKDKGNPEIYNKINSQDKAIEKFKLLIKAQMAERVKKLHSQEKK 67

Query: 360 KKKKKKEKRK 369
           ++KKK +K+K
Sbjct: 68  EEKKKPKKKK 77

Length = 217

>gnl|CDD|233352 TIGR01310, L7, 60S ribosomal protein L7, eukaryotic

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 20/61 (32%), Positives = 34/61 (55%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           KK+K R+    +  ++ K KKK  KKKRK   K+ +   K+ +K E++  + K+  K+  
Sbjct: 5   KKRKARQELAVQVAKQAKAKKKANKKKRKIYFKRAESFVKEYRKAEREIIRLKRLAKKPG 64

Query: 369 K 369
           K
Sbjct: 65  K 65

This model describes the eukaryotic 60S (cytosolic) ribosomal protein L7 and paralogs that may or may not also be L7. Human, Drosophila, and Arabidopsis all have both a typical L7 and an L7-related paralog. This family is designated subfamily rather than equivalog to reflect these uncharacterized paralogs. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues). Length = 235

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 40.1 bits (94), Expect = 8e-04
 Identities = 17/63 (26%), Positives = 30/63 (47%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           K+ ++ +R +KK++ K K  K+  KKK+KK     K  K    + +KK ++         
Sbjct: 76  KELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLD 135

Query: 369 KKR 371
             R
Sbjct: 136 SPR 138

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase component YidC; Validated

 Score = 40.6 bits (95), Expect = 8e-04
 Identities = 10/67 (14%), Positives = 30/67 (44%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             K+ R   K + K ++K   +K +  +++  ++ ++++     + + ++   + KKK  
Sbjct: 331 EIKKTRTAEKNEAKARKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGL 390

Query: 360 KKKKKKE 366
                 E
Sbjct: 391 IDASPNE 397

Length = 429

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 40.0 bits (94), Expect = 8e-04
 Identities = 15/42 (35%), Positives = 27/42 (64%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           +EKE++K K   K + KK  K K ++K++ K EK++K  ++ 
Sbjct: 43  EEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLREL 84

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 40.9 bits (96), Expect = 8e-04
 Identities = 18/80 (22%), Positives = 53/80 (66%)

Query: 291 VIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           V+VD   ++ +   +++++K  KR  +++K+KE+++ ++ ++K+  +++R K+  K++  
Sbjct: 53  VMVDPGAVVEQYNRQQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLA 112

Query: 351 KKEEKKKKKKKKKKKEKRKK 370
            +E+KK+ ++  K+   ++K
Sbjct: 113 AQEQKKQAEEAAKQAALKQK 132

Length = 387

>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional

 Score = 39.9 bits (94), Expect = 9e-04
 Identities = 13/70 (18%), Positives = 36/70 (51%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           + K + +R +++ K++    ++++  ++++K K K  +KKRK + +K + +        +
Sbjct: 107 KAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHTPVSDISE 166

Query: 360 KKKKKKEKRK 369
               +  K K
Sbjct: 167 LTVGQAVKVK 176

Length = 213

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 40.1 bits (94), Expect = 9e-04
 Identities = 15/65 (23%), Positives = 32/65 (49%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           K  +++++ K+K++ + +  K+  K+KKKK     K  K    + KK+ ++         
Sbjct: 76  KELQREERLKKKKRVKTKAYKEPTKKKKKKDPTAAKSPKAAAPRPKKKSERISWAPTLLD 135

Query: 366 EKRKK 370
             R+K
Sbjct: 136 SPRRK 140

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 40.6 bits (95), Expect = 9e-04
 Identities = 21/70 (30%), Positives = 29/70 (41%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K +   +K  KK+  K     +K  K   +  KK KK  KK  +K  K  K+  KK  K 
Sbjct: 218 KAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKA 277

Query: 362 KKKKEKRKKR 371
             K  K   +
Sbjct: 278 AAKAAKGAAK 287

Length = 333

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 21/62 (33%), Positives = 36/62 (58%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
           + K    +  KR EK   K    K K  K+ K +  K+++++KE+ K++KKKKK+K K +
Sbjct: 68  ESKLSSDEAVKRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEE 127

Query: 370 KR 371
            +
Sbjct: 128 PK 129

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 16/72 (22%), Positives = 43/72 (59%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R++ E K+R++ + + R +K  K+K   KKK   ++ K+++  ++  K K ++ +  +++
Sbjct: 158 RDREEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPEEPDVNEER 217

Query: 360 KKKKKKEKRKKR 371
           +K++   K ++ 
Sbjct: 218 EKEEDDGKDRET 229

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 14/47 (29%), Positives = 26/47 (55%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
              ++K +KK+++ +KK +K+  +K   KKK +   KK K    + K
Sbjct: 408 PAERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETK 454

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|240388 PTZ00372, PTZ00372, endonuclease 4-like protein; Provisional

 Score = 40.1 bits (94), Expect = 0.001
 Identities = 19/69 (27%), Positives = 35/69 (50%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
              +K+ +KKKK+K+++K+ K + + K   K  K+ KK KKK  K K  +  +    K  
Sbjct: 64  NESKKKSEKKKKKKKEKKEPKSEGETKLGFKTPKKSKKTKKKPPKPKPNEDVDNAFNKIA 123

Query: 362 KKKKEKRKK 370
           +  ++    
Sbjct: 124 ELAEKSNVY 132

Length = 413

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 20/68 (29%), Positives = 27/68 (39%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
             K+  K    K   KK   K K   K+  KK+  K     +K  K   +  KK KK  K
Sbjct: 198 NAKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAK 257

Query: 364 KKEKRKKR 371
           K  K+  +
Sbjct: 258 KALKKAAK 265

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 21/63 (33%), Positives = 27/63 (42%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           +   K K   K+  KK+  K     K+  K   K  KK K+  KK  K+  K  KK  KK
Sbjct: 214 KASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKK 273

Query: 365 KEK 367
             K
Sbjct: 274 AAK 276

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 21/69 (30%), Positives = 29/69 (42%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            ++   + K   +K  +KK  +     KK  K   K  +K KK  KK  KK  K  KK  
Sbjct: 212 AKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAA 271

Query: 362 KKKKEKRKK 370
           KK  +   K
Sbjct: 272 KKAAKAAAK 280

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 40.3 bits (94), Expect = 0.001
 Identities = 23/71 (32%), Positives = 30/71 (42%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           ++   + +   KK  K+K  K     KK  K   K  KK +K  K+  KK  K  KK  K
Sbjct: 213 KKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAK 272

Query: 360 KKKKKKEKRKK 370
           K  K   K  K
Sbjct: 273 KAAKAAAKAAK 283

Length = 333

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 21/82 (25%), Positives = 41/82 (50%), Gaps = 9/82 (10%)

Query: 299  IREKRERKRRKKKKKRKRKRKK---------RKEKEKKKKKRKKKKRKKKRKKKKRKKKK 349
            +  + E+K ++ +K +    K           +  E++++  +K+  K++R K K K K 
Sbjct: 1107 LNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAKEQRLKSKTKGKA 1166

Query: 350  RKKEEKKKKKKKKKKKEKRKKR 371
             K  + K KKK+KKKK+    +
Sbjct: 1167 SKLRKPKLKKKEKKKKKSSADK 1188

Length = 1388

>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 19/57 (33%), Positives = 28/57 (49%)

Query: 310  KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
            KKK +KR        +KKKK  KK  RKKK K + ++    +     ++ +KKK   
Sbjct: 1307 KKKVKKRLEGSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLLRRPRKKKSDS 1363

Length = 1388

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 39.0 bits (91), Expect = 0.001
 Identities = 20/64 (31%), Positives = 38/64 (59%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           E ++ +K+  ++ + K+  + +K+KK++K+KK  +K  KKK  K  +   +K  KK   K
Sbjct: 94  ESEKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTK 153

Query: 364 KKEK 367
           K+E 
Sbjct: 154 KEEG 157

Length = 158

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 12/53 (22%), Positives = 31/53 (58%)

Query: 318 RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           R++ +++ +K K++  K   K + ++ +K++  +   KKK+KK K ++   + 
Sbjct: 343 REELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQN 395

Length = 395

>gnl|CDD|218899 pfam06102, DUF947, Domain of unknown function (DUF947)

 Score = 38.8 bits (91), Expect = 0.001
 Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKR----KKKKRKKEEK 355
            EK E KR  +  K + K  K K++E++  K  KK+ K+  K+ K+    KK + KK   
Sbjct: 79  EEKEELKRTLQSMKSRLKTLKNKDREREILKEHKKQEKELIKEGKKPYYLKKSEIKKLVL 138

Query: 356 KKKKKKKKKKEKRKKR 371
           KKK  + KK ++  K 
Sbjct: 139 KKKFDELKKSKQLDKA 154

Family of eukaryotic proteins with unknown function. Length = 168

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 20/113 (17%), Positives = 58/113 (51%), Gaps = 37/113 (32%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKE--KKKKKRKKKKRKKK-------------- 339
            +  ++K+ER++ +++ + +++  K K +E  ++K ++  K+R  K              
Sbjct: 107 LLEEKQKQEREKEREEAELRQRLAKEKYEEWCRQKAQQAAKQRTPKHKKEAAESASSSLS 166

Query: 340 ---------------------RKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
                                  KK ++++++++EE++K++KK++++E+RK++
Sbjct: 167 GSAKPERNVSQEEAKKRLQEWELKKLKQQQQKREEERRKQRKKQQEEEERKQK 219

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|217834 pfam03998, Utp11, Utp11 protein

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 20/76 (26%), Positives = 45/76 (59%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
             L +     +++KKK  +K+++  ++ KE+K++++K KK +++ + ++   KK K ++K
Sbjct: 160 SQLEKTSLVDEKQKKKSAKKKRKLYKELKERKEREKKLKKVEQRLELQRELMKKGKGKKK 219

Query: 356 KKKKKKKKKKEKRKKR 371
           K  K K  K   + K+
Sbjct: 220 KIVKDKDGKVVYKWKK 235

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 239

>gnl|CDD|218188 pfam04641, Rtf2, Replication termination factor 2

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 15/63 (23%), Positives = 28/63 (44%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
            +  K + + ++ K+K+KKKKK+ KK        +         E      +  + K+ +
Sbjct: 169 VELLKARLEEERAKKKKKKKKKKTKKNNATGSSAEATVSSAVPTELSSGAGQVGEAKKLK 228

Query: 369 KKR 371
           KKR
Sbjct: 229 KKR 231

It is vital for effective cell-replication that replication is not stalled at any point by, for instance, damaged bases. Rtf2 stabilizes the replication fork stalled at the site-specific replication barrier RTS1 by preventing replication restart until completion of DNA synthesis by a converging replication fork initiated at a flanking origin. The RTS1 element terminates replication forks that are moving in the cen2-distal direction while allowing forks moving in the cen2-proximal direction to pass through the region. Rtf2 contains a C2HC2 motif related to the C3HC4 RING-finger motif, and would appear to fold up, creating a RING finger-like structure but forming only one functional Zn2+ ion-binding site. Length = 254

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 22/41 (53%), Positives = 31/41 (75%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
            E++K  K+  K+K K+K++KKK+KKKK+KK  KK  KKKK
Sbjct: 95  VEEQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 40.4 bits (94), Expect = 0.001
 Identities = 17/66 (25%), Positives = 31/66 (46%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           I + +    R  K + +RK+K+++   KK   + KK+RK  ++K     KK       K 
Sbjct: 547 IEKSKTELDRTDKNRERRKKKRKRRAAKKAVTKAKKERKIGKEKVDGVAKKSSSAFFAKL 606

Query: 359 KKKKKK 364
           ++ K  
Sbjct: 607 QETKAV 612

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 39.8 bits (93), Expect = 0.001
 Identities = 17/62 (27%), Positives = 26/62 (41%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           KKK + +   K   E +KK +   KKK   + KKK   + K    +   + K   +K   
Sbjct: 184 KKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAAAKAAAEAKAAAEKAAA 243

Query: 369 KK 370
            K
Sbjct: 244 AK 245

Length = 387

>gnl|CDD|219978 pfam08701, GN3L_Grn1, GNL3L/Grn1 putative GTPase

 Score = 37.2 bits (87), Expect = 0.001
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 10/77 (12%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRK----------KKRKKKKRKKKKRKKEE 354
           R R K +KK     +K +++ KK    K KK+K          K+   ++ ++KKRK+EE
Sbjct: 1   RLRYKIEKKVAEHHRKLRKEAKKNPTWKSKKKKDPGIPNSFPFKEEILEEIEEKKRKQEE 60

Query: 355 KKKKKKKKKKKEKRKKR 371
           +K+++K+ +K E+ + R
Sbjct: 61  EKERRKEARKAERAEAR 77

Grn1 (yeast) and GNL3L (human) are putative GTPases which are required for growth and play a role in processing of nucleolar pre-rRNA. This family contains a potential nuclear localisation signal. Length = 80

>gnl|CDD|187751 cd09270, RNase_H2-B, Ribonuclease H2-B is a subunit of the eukaryotic RNase H complex which cleaves RNA-DNA hybrids

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 20/56 (35%), Positives = 30/56 (53%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            KK  + K+K+   KE +  + KKK    + +KKK+KKK  KK++ KK      K 
Sbjct: 150 LKKVERLKKKELDIKEAEAARDKKKSNNAEEEKKKKKKKSAKKKKLKKVAAVGMKA 205

Ribonuclease H2B is one of the three proteins of eukaryotic RNase H2 complex that is required for nucleic acid binding and hydrolysis. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with RNase H2B and RNase H2C proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 211

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 20/62 (32%), Positives = 34/62 (54%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
            +   K  K+ K+K+++ +E  +  + R +KKRK K + KK+K K+ K  +  KK   K 
Sbjct: 220 FKPLDKYLKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKGVKALKKVVAKG 279

Query: 364 KK 365
            K
Sbjct: 280 MK 281

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|240317 PTZ00217, PTZ00217, flap endonuclease-1; Provisional

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 26/85 (30%), Positives = 37/85 (43%), Gaps = 14/85 (16%)

Query: 295 TEILIREK---RER-----KRRKKKKKRKRKR------KKRKEKEKKKKKRKKKKRKKKR 340
            + L++EK    ER     +R KK K +K +          K+  KK   + K K+KKK+
Sbjct: 309 KKFLVKEKNFNEERVEKYIERLKKAKTKKTQTRLDSFFTATKKPIKKSNSKAKLKKKKKK 368

Query: 341 KKKKRKKKKRKKEEKKKKKKKKKKK 365
                  K    +E K   KKK KK
Sbjct: 369 AGASAVPKSETSQEAKSSGKKKVKK 393

Length = 393

>gnl|CDD|218941 pfam06217, GAGA_bind, GAGA binding protein-like family

 Score = 39.9 bits (93), Expect = 0.001
 Identities = 16/48 (33%), Positives = 21/48 (43%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKK 356
           K+ KK K+ +  +  K  K KK KKK     R  K      R K + K
Sbjct: 145 KEVKKPKKGQSPKVPKAPKPKKPKKKGSVSNRSVKMPGIDPRSKPDWK 192

This family includes gbp a protein from Soybean that binds to GAGA element dinucleotide repeat DNA. It seems likely that the this domain mediates DNA binding. This putative domain contains several conserved cysteines and a histidine suggesting this may be a zinc-binding DNA interaction domain. Length = 301

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 16/44 (36%), Positives = 24/44 (54%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            E+E   + + + K KKKR+  K K +K K + + KK K  K K
Sbjct: 109 TEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKPKPSKPK 152

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|219953 pfam08648, DUF1777, Protein of unknown function (DUF1777)

 Score = 38.7 bits (90), Expect = 0.001
 Identities = 18/66 (27%), Positives = 40/66 (60%), Gaps = 1/66 (1%)

Query: 300 REKRERKR-RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           R++RER+R R + ++R R+R+ R     + ++ +  +R + R +   +++ RK+E  K  
Sbjct: 21  RDRRERRRERSRSRERDRRRRSRSRSPHRSRRSRSPRRHRSRSRSPSRRRDRKRERDKDA 80

Query: 359 KKKKKK 364
           ++ KK+
Sbjct: 81  REPKKR 86

This is a family of eukaryotic proteins of unknown function. Some of the proteins in this family are putative nucleic acid binding proteins. Length = 158

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 38.1 bits (89), Expect = 0.001
 Identities = 20/64 (31%), Positives = 43/64 (67%), Gaps = 4/64 (6%)

Query: 306 KRRKKKKKRKRK----RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K++K KKK   +    ++ RKE      KRK+++RKK +++ K K+++ + EE+K+ +++
Sbjct: 1   KKKKAKKKGVEEVVFDKEARKEYLTGFHKRKQQRRKKAQEEAKEKEREERIEERKRIREE 60

Query: 362 KKKK 365
           +K++
Sbjct: 61  RKQE 64

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 17/37 (45%), Positives = 20/37 (54%)

Query: 326 KKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
           +KK K KKK    K K  K  KKK K + KK  KK+ 
Sbjct: 748 EKKTKAKKKSASTKGKAAKTVKKKSKAKSKKTTKKRA 784

Length = 860

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 18/117 (15%), Positives = 37/117 (31%), Gaps = 7/117 (5%)

Query: 250 RREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRK 309
             E   K ++   ++K +G I         +   ++++      +    +        + 
Sbjct: 13  EEEAKKKLKKLAAKSKSKGFITK-------EEIKEALESKKKTPEQIDQVLIFLSGMVKD 65

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
                +    K+K K   K    K   KKK K +    KK +K+    K       +
Sbjct: 66  TDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVK 122

Length = 509

>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

 Score = 39.9 bits (94), Expect = 0.001
 Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 1/66 (1%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEK-EKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           + +R R+     +K++++  K +E   + K    K K+ K R K+  K + R  EE+  +
Sbjct: 242 KAERLRQEAAAYEKQQKELAKEQEWIRRGKAAASKAKKAKSRIKRLEKLEARLAEERPVE 301

Query: 359 KKKKKK 364
           + K   
Sbjct: 302 EGKPLA 307

Length = 530

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 19/73 (26%), Positives = 40/73 (54%), Gaps = 1/73 (1%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKK-KKRKKKRKKKKRKKKKRKKEEKKKK 358
           RE+ +++ R + K R +K  K+K   KKK+  ++ K+R+  R+  K K ++    E+++K
Sbjct: 160 REEEKKRERVRAKSRPKKPPKKKPPNKKKEPPEEEKQRQAAREAVKGKPEEPDVNEEREK 219

Query: 359 KKKKKKKEKRKKR 371
           ++   K  +    
Sbjct: 220 EEDDGKDRETTTS 232

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 21/69 (30%), Positives = 40/69 (57%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E ++    KK ++ K+  + +K +EKKK    KK  + K+ ++K+K ++ KK E+ K   
Sbjct: 1520 EAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMA 1579

Query: 361  KKKKKEKRK 369
             +K +E +K
Sbjct: 1580 LRKAEEAKK 1588

Length = 2084

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 38.5 bits (90), Expect = 0.002
 Identities = 20/50 (40%), Positives = 33/50 (66%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           +  E KKKK++  +  +K KK+  +K+K K ++KK KKKK K K+K+  +
Sbjct: 56  EYTEAKKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDK 105

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 2/77 (2%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK--RKKKKRKKKKRK 351
           D       K    R KKK +R        +  ++K  R    + K+   ++ K ++ +RK
Sbjct: 106 DPTAAKSPKAAAPRPKKKSERISWAPTLLDSPRRKSSRSSTVQNKEATHERLKEREIRRK 165

Query: 352 KEEKKKKKKKKKKKEKR 368
           K + K +K+K+KKKEK 
Sbjct: 166 KIQAKARKRKEKKKEKE 182

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|150884 pfam10278, Med19, Mediator of RNA pol II transcription subunit 19

 Score = 38.7 bits (90), Expect = 0.002
 Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 18/65 (27%)

Query: 309 KKKKKRKRKRKKRKE------------------KEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           KKK K K K+ + ++                  K KKKK    K+RKKK+K+KK+KKK+ 
Sbjct: 110 KKKHKHKHKKHRTQDPLPEETPSDSEGLKGHEKKHKKKKHEDDKERKKKKKEKKKKKKRH 169

Query: 351 KKEEK 355
             E  
Sbjct: 170 SPEHP 174

Med19 represents a family of conserved proteins which are members of the multi-protein co-activator Mediator complex. Mediator is required for activation of RNA polymerase II transcription by DNA binding transactivators. Length = 178

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 13/64 (20%), Positives = 48/64 (75%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R++RE +  ++++++K + K+  E++++++  +++++KK+ +++K ++++ +KE+++ +K
Sbjct: 18  RQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQARKEQEEYEK 77

Query: 360 KKKK 363
            K  
Sbjct: 78  LKSS 81

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 21/70 (30%), Positives = 29/70 (41%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K    +   KK   + +   K+  KKK  +     KK  K   +  KK KK  KK  KK 
Sbjct: 204 KTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKA 263

Query: 362 KKKKEKRKKR 371
            K  +K  K+
Sbjct: 264 AKAVKKAAKK 273

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 21/71 (29%), Positives = 29/71 (40%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            +    K   KK   K K   +K  +KK  K     +K  +   K  KK +K  +K  KK
Sbjct: 203 AKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKK 262

Query: 360 KKKKKKEKRKK 370
             K  K+  KK
Sbjct: 263 AAKAVKKAAKK 273

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 19/64 (29%), Positives = 24/64 (37%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
                K+  K    K   KK   + K   KK  KKK  K     K+  K   K  KK +K
Sbjct: 195 GAANAKKAAKTPAAKSGAKKASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKK 254

Query: 368 RKKR 371
             K+
Sbjct: 255 TAKK 258

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 22/71 (30%), Positives = 31/71 (43%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           ++K  +     KK  K   K  K+ +K  KK  KK  K  +K  K+  K   K  K   K
Sbjct: 228 KKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAK 287

Query: 360 KKKKKKEKRKK 370
             K K + +KK
Sbjct: 288 ATKGKAKAKKK 298

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 23/66 (34%), Positives = 29/66 (43%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           +K  K   K  +K KK  +K  KK  +  KK  KK  K   K  K   +  K K K KKK
Sbjct: 239 KKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGKAKAKKK 298

Query: 365 KEKRKK 370
             K+  
Sbjct: 299 AGKKAA 304

Length = 333

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 39.1 bits (91), Expect = 0.002
 Identities = 20/71 (28%), Positives = 29/71 (40%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +   + K   KK  +K+  K     +K  K   K  +K K+  KK  KK  K  +K  KK
Sbjct: 214 KASAKAKSAAKKVSKKKAAKTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKK 273

Query: 360 KKKKKKEKRKK 370
             K   +  K 
Sbjct: 274 AAKAAAKAAKG 284

Length = 333

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 22/71 (30%), Positives = 39/71 (54%)

Query: 297 ILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKK 356
           I +  +   K +K+  K   +++  K K++KK+K++KK  +K  KKK  K  K   ++  
Sbjct: 88  INLFPEESEKEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKAT 147

Query: 357 KKKKKKKKKEK 367
           KK   KK++ K
Sbjct: 148 KKTTTKKEEGK 158

Length = 158

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 39.8 bits (94), Expect = 0.002
 Identities = 11/43 (25%), Positives = 15/43 (34%)

Query: 318 RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            K  K +       K    KK   K  RK K++    +K  K 
Sbjct: 816 EKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|240254 PTZ00069, PTZ00069, 60S ribosomal protein L5; Provisional

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 21/53 (39%), Positives = 34/53 (64%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRK 351
           IR    + ++KKKKK+K   KK K K+   K+RK + + KK ++++R +KK K
Sbjct: 248 IRANPSKVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERLQKKIK 300

Length = 300

>gnl|CDD|227519 COG5192, BMS1, GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

 Score = 40.1 bits (93), Expect = 0.002
 Identities = 19/59 (32%), Positives = 33/59 (55%)

Query: 290  DVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKK 348
            D IV   I  +E++ER    ++ K +   KK KE+E++ +K      K+  KK+ +KK+
Sbjct: 1019 DRIVKERIKDQEEKERMESLQRAKEEEIGKKEKEREQRIRKTIHDNYKEMAKKRLKKKR 1077

Length = 1077

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 12/45 (26%), Positives = 31/45 (68%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
           +++EK+++K K   + K +K  K K ++++K +++K++K  ++ E
Sbjct: 41  EDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELE 85

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 37.2 bits (87), Expect = 0.002
 Identities = 13/63 (20%), Positives = 33/63 (52%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           +K    K   K   +++ K +K++++K+ +  K  K   +++ + E +K +K+ ++ E  
Sbjct: 5   EKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAE 64

Query: 369 KKR 371
             R
Sbjct: 65  LAR 67

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 18/63 (28%), Positives = 38/63 (60%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           K+++  K   KK ++  KK  + K +    +  + K K++K K+EE +KK+K++  ++K 
Sbjct: 366 KRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKE 425

Query: 369 KKR 371
           K++
Sbjct: 426 KRQ 428

Length = 434

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 15/68 (22%), Positives = 42/68 (61%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           +R+   K+  +K +   +K  E K +    ++ + K K++K K+++ +K++K++  + K+
Sbjct: 366 KRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKE 425

Query: 364 KKEKRKKR 371
           K++K +++
Sbjct: 426 KRQKDERK 433

Length = 434

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 40.3 bits (94), Expect = 0.002
 Identities = 18/60 (30%), Positives = 35/60 (58%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           +K   + + +RKK+KE++ K+K+ KK K  +K  K K + ++        KK +KK +++
Sbjct: 10  KKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKKSEKKSRKR 69

Length = 1066

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 40.0 bits (93), Expect = 0.002
 Identities = 21/49 (42%), Positives = 31/49 (63%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           KK K  EK K +  +  + ++R+KKKRK++  KK   K KK++K  KEK
Sbjct: 542 KKMKAIEKSKTELDRTDKNRERRKKKRKRRAAKKAVTKAKKERKIGKEK 590

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|233352 TIGR01310, L7, 60S ribosomal protein L7, eukaryotic

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 16/60 (26%), Positives = 33/60 (55%)

Query: 312 KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           KKRK +++   +  K+ K +KK  +KK++   KR +   K+  K +++  + K+  +K  
Sbjct: 5   KKRKARQELAVQVAKQAKAKKKANKKKRKIYFKRAESFVKEYRKAEREIIRLKRLAKKPG 64

This model describes the eukaryotic 60S (cytosolic) ribosomal protein L7 and paralogs that may or may not also be L7. Human, Drosophila, and Arabidopsis all have both a typical L7 and an L7-related paralog. This family is designated subfamily rather than equivalog to reflect these uncharacterized paralogs. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues). Length = 235

>gnl|CDD|220252 pfam09468, RNase_H2-Ydr279, Ydr279p protein family (RNase H2 complex component)

 Score = 39.6 bits (93), Expect = 0.002
 Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 8/74 (10%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKK--------KKRKKKRKKKKRKKKKRKKEEKK 356
           ++  K     + K   +  KE KKKKR+          + +KKRK K+  KKK+ KE K 
Sbjct: 209 KELLKSLLIPEFKPLDKYLKESKKKKRETEEDVEAAESRAEKKRKSKEEIKKKKPKESKG 268

Query: 357 KKKKKKKKKEKRKK 370
            K  KK   +  KK
Sbjct: 269 VKALKKVVAKGMKK 282

RNases H are enzymes that specifically hydrolyse RNA when annealed to a complementary DNA and are present in all living organisms. In yeast RNase H2 is composed of a complex of three proteins (Rnh2Ap, Ydr279p and Ylr154p), this family represents the homologues of Ydr279p. It is not known whether non yeast proteins in this family fulfil the same function. Length = 287

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 17/67 (25%), Positives = 21/67 (31%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           +  E    KKK K   K    K   KKK K +    KK  KK    K       K     
Sbjct: 68  DATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDIDVL 127

Query: 361 KKKKKEK 367
            +   + 
Sbjct: 128 NQADDDD 134

Length = 509

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 39.5 bits (93), Expect = 0.002
 Identities = 18/79 (22%), Positives = 57/79 (72%), Gaps = 6/79 (7%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKR------KKKKRKK 352
           I+E+ E + ++K++K+K+ R++  E  +++ +RK+++++++R+++ +      +K +R++
Sbjct: 108 IQEEDEAEAQEKREKQKKLREEIDEFNEERIERKEEEKEREREEELKILEYQREKAEREE 167

Query: 353 EEKKKKKKKKKKKEKRKKR 371
           E + +++++K++KE+   R
Sbjct: 168 EREAERRERKEEKEREVAR 186

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.3 bits (94), Expect = 0.002
 Identities = 16/72 (22%), Positives = 34/72 (47%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           REKR++K R KK   + +       + ++ K ++ K K++ KK     + ++K E +++ 
Sbjct: 167 REKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEEN 226

Query: 360 KKKKKKEKRKKR 371
                  K  + 
Sbjct: 227 LLYLDYLKLNEE 238

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 39.6 bits (92), Expect = 0.002
 Identities = 24/124 (19%), Positives = 60/124 (48%), Gaps = 1/124 (0%)

Query: 247 NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERK 306
            + + E   +    ++  K     +      LRD   +       +   E  I  +  ++
Sbjct: 216 LKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIESSKQELEK-EEEILAQVLKE 274

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
            ++++K++K + ++ K   K++++ K +  K +R+K   ++K ++ E++ KK +K+ KKE
Sbjct: 275 NKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKESEKELKKLEKELKKE 334

Query: 367 KRKK 370
           K + 
Sbjct: 335 KEEI 338

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 10/58 (17%), Positives = 19/58 (32%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
            +K+K++++ + E E  K    K   K K    +        +      K       R
Sbjct: 765 TEKQKKEKESKSELEALKGVGAKTAEKLKDAGVETVTDLTAADPDAVAAKVDGVSADR 822

Length = 822

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 23/80 (28%), Positives = 44/80 (55%), Gaps = 16/80 (20%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKK----------------KKRKKKK 349
           K+R+++ + KRKR++ +EK  K ++++++  K    K                KK KK++
Sbjct: 43  KKRQEEAEAKRKREELREKIAKAREKRERNSKLGGIKTLGEDDDDDDDTKAWLKKSKKRQ 102

Query: 350 RKKEEKKKKKKKKKKKEKRK 369
           +KKE ++KK     +KEK +
Sbjct: 103 KKKEAERKKALLLDEKEKER 122

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 38.2 bits (88), Expect = 0.002
 Identities = 18/72 (25%), Positives = 55/72 (76%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           RE+ E+ R ++++ ++R  ++R  +E++ +++++++ ++K +K KRK ++ +K+E+++++
Sbjct: 47  REQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEEEEKQEQEEQE 106

Query: 360 KKKKKKEKRKKR 371
           + +K+KE+ + R
Sbjct: 107 RIQKQKEEAEAR 118

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 39.8 bits (94), Expect = 0.002
 Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 4/71 (5%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
             LI    E   R+ ++K +      KE EK K++ ++KK K    +++  K   + E++
Sbjct: 519 NELI-ASLEELERELEQKAEEAEALLKEAEKLKEELEEKKEK---LQEEEDKLLEEAEKE 574

Query: 356 KKKKKKKKKKE 366
            ++  K+ KKE
Sbjct: 575 AQQAIKEAKKE 585

Length = 782

>gnl|CDD|204792 pfam11947, DUF3464, Protein of unknown function (DUF3464)

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 17/45 (37%), Positives = 21/45 (46%)

Query: 327 KKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
               RK+   + KR +KK  K  RK    K K K+KK K KR   
Sbjct: 1   MASSRKRLPFEPKRSRKKGVKALRKAAVAKSKDKQKKPKSKRAAS 45

This family of proteins are functionally uncharacterized. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length. Length = 149

>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 5/59 (8%)

Query: 314 RKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK-----KKKKKKKKEK 367
           +   R K+K KEK    ++ K      + +  +   +++EEK          KKKK  K
Sbjct: 792 KAAARAKQKPKEKGPNDKEIKIESPSVETEGERCTIKQREEKGIDAPAILNVKKKKPYK 850

Length = 926

>gnl|CDD|203848 pfam08079, Ribosomal_L30_N, Ribosomal L30 N-terminal domain

 Score = 36.1 bits (84), Expect = 0.002
 Identities = 20/61 (32%), Positives = 36/61 (59%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
             KKRKR  K R ++ KK+  +K  ++KK++   KR +K  K+    ++ + + K+E +K
Sbjct: 2   LLKKRKRNEKLRAKRAKKRAAKKAARKKKRKLIFKRAEKYVKEYRAAERDEIRLKREAKK 61

Query: 370 K 370
           K
Sbjct: 62  K 62

This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018. Length = 71

>gnl|CDD|172341 PRK13808, PRK13808, adenylate kinase; Provisional

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 23/69 (33%), Positives = 29/69 (42%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K     +K  K   +  KK K+  KK  K+  K  KK  KK  +   K  K   K  K K
Sbjct: 233 KTAVSAKKAAKTAAKAAKKAKKTAKKALKKAAKAVKKAAKKAAKAAAKAAKGAAKATKGK 292

Query: 362 KKKKEKRKK 370
            K K+K  K
Sbjct: 293 AKAKKKAGK 301

Length = 333

>gnl|CDD|224415 COG1498, SIK1, Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 13/53 (24%), Positives = 32/53 (60%)

Query: 313 KRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           + + +++  K KEK  K   K K ++ +K++  + +++KKE+K K +++  + 
Sbjct: 343 REELEKRIEKLKEKPPKPPTKAKPERDKKERPGRYRRKKKEKKAKSERRGLQN 395

Length = 395

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 39.4 bits (93), Expect = 0.003
 Identities = 7/43 (16%), Positives = 16/43 (37%)

Query: 321 RKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
            K ++ +       K    +K   +  +K K++    +K  K 
Sbjct: 816 EKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 13/45 (28%), Positives = 34/45 (75%)

Query: 320 KRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
           K  +KE+ ++++++K+  K++K+ ++ KK+ +K++K+ +K +K K
Sbjct: 546 KLDDKEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKAK 590

Length = 651

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 16/70 (22%), Positives = 36/70 (51%)

Query: 293 VDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKK 352
           VD  I   + +  K++++KK    K  K   +EK + + +K +++ +  + +  +++ K 
Sbjct: 13  VDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKA 72

Query: 353 EEKKKKKKKK 362
           E KK   +K 
Sbjct: 73  EAKKMLSEKG 82

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 13/53 (24%), Positives = 30/53 (56%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            K K K +KK++ KK + +K  K    +K + + E+ +K+ ++ + +  R++ 
Sbjct: 18  AKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARREL 70

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 14/68 (20%), Positives = 45/68 (66%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R++  ++  KK +   +K  + K++    ++ + K +++K K+++ +KK++++ ++ K+K
Sbjct: 367 RQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEK 426

Query: 360 KKKKKKEK 367
           ++K +++K
Sbjct: 427 RQKDERKK 434

Length = 434

>gnl|CDD|215214 PLN02381, PLN02381, valyl-tRNA synthetase

 Score = 39.5 bits (92), Expect = 0.003
 Identities = 18/68 (26%), Positives = 39/68 (57%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            R     +KK   + + +++K+KE+K K+++ KK K  +K+ K K + ++  +     KK
Sbjct: 2   SRTESEAEKKILTEEELERKKKKEEKAKEKELKKLKAAQKEAKAKLQAQQASDGTNVPKK 61

Query: 362 KKKKEKRK 369
            +KK +++
Sbjct: 62  SEKKSRKR 69

Length = 1066

>gnl|CDD|185429 PTZ00074, PTZ00074, 60S ribosomal protein L34; Provisional

 Score = 37.4 bits (87), Expect = 0.003
 Identities = 19/42 (45%), Positives = 32/42 (76%)

Query: 298 LIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK 339
           L+ E++  K+  K+K +++K+KK+K+K+KKKK  KK  +KKK
Sbjct: 94  LVEEQKIVKQVLKEKAKQKKQKKKKKKKKKKKTSKKAAKKKK 135

Length = 135

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 14/60 (23%), Positives = 35/60 (58%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           ++++K++K +  ++ E E ++ KR+    K  R  +    + ++K ++ K+ +KKK K+ 
Sbjct: 332 KEREKEQKEREGRQSEWEARQAKREGGDAKAGRAAEPTGSRTQQKGDRPKRGEKKKPKKP 391

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 16/66 (24%), Positives = 30/66 (45%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           E+  ++   K+K+ +    K     K K + + K+     KK   + KK+ + E  KK  
Sbjct: 121 EEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAAEAKKKAEAEAAKKAA 180

Query: 361 KKKKKE 366
            + KK+
Sbjct: 181 AEAKKK 186

Length = 387

>gnl|CDD|218941 pfam06217, GAGA_bind, GAGA binding protein-like family

 Score = 39.1 bits (91), Expect = 0.003
 Identities = 14/45 (31%), Positives = 19/45 (42%)

Query: 325 EKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
            K+ KK KK +  K  K  K KK K+K     +  K      + K
Sbjct: 144 AKEVKKPKKGQSPKVPKAPKPKKPKKKGSVSNRSVKMPGIDPRSK 188

This family includes gbp a protein from Soybean that binds to GAGA element dinucleotide repeat DNA. It seems likely that the this domain mediates DNA binding. This putative domain contains several conserved cysteines and a histidine suggesting this may be a zinc-binding DNA interaction domain. Length = 301

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 14/54 (25%), Positives = 21/54 (38%)

Query: 317 KRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           K      +    KK+ K   K    K   KKK + + +  KK +KK   +K   
Sbjct: 64  KDTDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDD 117

Length = 509

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 39.0 bits (91), Expect = 0.003
 Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 15/81 (18%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKR---------------KKKRKKKKRKK 347
            E + ++K+++ + K  K +EK ++  K    K                KK +K++K+K+
Sbjct: 47  EEAEAKRKREELREKIAKAREKRERNSKLGGIKTLGEDDDDDDDTKAWLKKSKKRQKKKE 106

Query: 348 KKRKKEEKKKKKKKKKKKEKR 368
            +RKK     +K+K++  E  
Sbjct: 107 AERKKALLLDEKEKERAAEYT 127

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 37.8 bits (87), Expect = 0.003
 Identities = 13/72 (18%), Positives = 57/72 (79%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           RE+ E++RR+++++ + +R++ K +  +++ R++++ +++ +++ R+K+++ K + ++++
Sbjct: 39  REQEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEEEE 98

Query: 360 KKKKKKEKRKKR 371
           K+++++++R ++
Sbjct: 99  KQEQEEQERIQK 110

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|227446 COG5116, RPN2, 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

 Score = 39.2 bits (91), Expect = 0.003
 Identities = 15/59 (25%), Positives = 26/59 (44%)

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           +   + K+K K K   +KE K +    +   ++   K+R++K          KKKK  K
Sbjct: 792 KAAARAKQKPKEKGPNDKEIKIESPSVETEGERCTIKQREEKGIDAPAILNVKKKKPYK 850

Length = 926

>gnl|CDD|221952 pfam13166, AAA_13, AAA domain

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 19/73 (26%), Positives = 32/73 (43%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           ++++ ++   K ++      KK +E EK K K   K  KK  KK      +  K    KK
Sbjct: 100 LKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLDKAWKKLAKKYDSNLSEALKGLNYKK 159

Query: 359 KKKKKKKEKRKKR 371
             K+K  ++ K  
Sbjct: 160 NFKEKLLKELKSV 172

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. This family includes the PrrC protein that is thought to be the active component of the anticodon nuclease. Length = 713

>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional

 Score = 39.6 bits (92), Expect = 0.003
 Identities = 24/65 (36%), Positives = 29/65 (44%)

Query: 306  KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
             R   KKK  +K   +K   KK   +K   +KK  KK   KK  RK   KK  KK  +K 
Sbjct: 988  TRAAMKKKVAKKAPAKKAAAKKAAAKKAAAKKKVAKKAPAKKVARKPAAKKAAKKPARKA 1047

Query: 366  EKRKK 370
              RK 
Sbjct: 1048 AGRKA 1052

Length = 1052

>gnl|CDD|217348 pfam03064, U79_P34, HSV U79 / HCMV P34

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 15/67 (22%), Positives = 35/67 (52%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
           K++ KRR +  ++ ++ +++K++EK++    K+          +     K E  K+K++K
Sbjct: 165 KQKEKRRVEDSQKHKEDRRKKQEEKRRNDEDKRPGGGGGSSGGQSGLSTKDEPPKEKRQK 224

Query: 362 KKKKEKR 368
               E+R
Sbjct: 225 HHDPERR 231

This family represents herpes virus protein U79 and cytomegalovirus early phosphoprotein P34 (UL112). Length = 238

>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional

 Score = 39.5 bits (92), Expect = 0.003
 Identities = 24/116 (20%), Positives = 40/116 (34%), Gaps = 29/116 (25%)

Query: 280  DAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK 339
            DA  K +D +D   D +     +  R++ ++   R      +K   +  KK   KK  KK
Sbjct: 1159 DALEKELDKLD-KEDAK----AEEAREKLQRAAARGESGAAKKVSRQAPKKPAPKKTTKK 1213

Query: 340  R------------------------KKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
                                     K K R   K+K     K+K+++ +    K R
Sbjct: 1214 ASESETTEETYGSSAMETENVAEVVKPKGRAGAKKKAPAAAKEKEEEDEILDLKDR 1269

Length = 1465

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 11/81 (13%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKK-----------KKKRKKKKRKKKRKKKKRKKKK 349
           E  E  + +K   +  KR ++ +KE++           K      K  KK+  KK+   K
Sbjct: 460 EDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEENPWLKTTSSVGKSAKKQDSKKKSSSK 519

Query: 350 RKKEEKKKKKKKKKKKEKRKK 370
             K   K  K   K K+K+KK
Sbjct: 520 LDKAANKISKAAVKVKKKKKK 540

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 37.8 bits (88), Expect = 0.004
 Identities = 15/49 (30%), Positives = 33/49 (67%)

Query: 323 EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
             E +  +++   + +K  + + ++KK KK++K+ KK+KK+KK+K++K 
Sbjct: 129 GSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKM 177

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 39.4 bits (91), Expect = 0.004
 Identities = 21/69 (30%), Positives = 40/69 (57%)

Query: 301  EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
            E ++ +  KK  + K+  + +K  E KK + KKK  + K+ ++ +K +++KK E+ KK +
Sbjct: 1514 EAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAE 1573

Query: 361  KKKKKEKRK 369
            + K    RK
Sbjct: 1574 EDKNMALRK 1582

Length = 2084

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 14/49 (28%), Positives = 27/49 (55%), Gaps = 2/49 (4%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            +RK+  KK++K   +K+ +K + +K   KK+ +   KK K    + +K
Sbjct: 409 AERKKLRKKQRK--AEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKK 455

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 11/47 (23%), Positives = 27/47 (57%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           +++K ++K++K  KK ++++  K   +KK +   ++ K    + KK 
Sbjct: 410 ERKKLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKV 456

This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with pfam07719, pfam00515. There is a single completely conserved residue L that may be functionally important. NARP1 is the mammalian homologue of a yeast N-terminal acetyltransferase that regulates entry into the G(0) phase of the cell cycle. Length = 516

>gnl|CDD|237035 PRK12280, rplW, 50S ribosomal protein L23; Reviewed

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 19/62 (30%), Positives = 37/62 (59%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
           K++K+  ++ ++++  + KK+K++KK++K   K  K+K  K  K   KK  KK   K++ 
Sbjct: 97  KEQKEVSKETEEKEAIKAKKEKKEKKEKKVAEKLAKKKSTKTTKNTTKKATKKTTTKKEE 156

Query: 369 KK 370
            K
Sbjct: 157 GK 158

Length = 158

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 39.0 bits (92), Expect = 0.004
 Identities = 8/47 (17%), Positives = 17/47 (36%), Gaps = 3/47 (6%)

Query: 324 KEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
             +K +K +       +    +K   +     +K K++    EK  K
Sbjct: 814 LAEKPEKLRYLADAPAKDPAGKKAAVKF---SRKTKQQYVASEKDGK 857

Length = 859

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 38.6 bits (91), Expect = 0.004
 Identities = 8/43 (18%), Positives = 16/43 (37%)

Query: 316 RKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
            K +K +       K    K+   +  +K K++    E+  K 
Sbjct: 816 EKPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated

 Score = 38.6 bits (91), Expect = 0.004
 Identities = 9/42 (21%), Positives = 16/42 (38%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRK 351
           K +K +       +    KK   K  RK K++    +K  + 
Sbjct: 817 KPEKLRYLADAPAKDPAGKKAAVKFSRKTKQQYVASEKDGKA 858

Length = 859

>gnl|CDD|178945 PRK00247, PRK00247, putative inner membrane protein translocase component YidC; Validated

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 16/69 (23%), Positives = 34/69 (49%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           EK E K RKK+  +KR+  +R+   + +++R     + + ++   K KK+   +    + 
Sbjct: 339 EKNEAKARKKEIAQKRRAAEREINREARQERAAAMARARARRAAVKAKKKGLIDASPNED 398

Query: 361 KKKKKEKRK 369
              + E+ K
Sbjct: 399 TPSENEESK 407

Length = 429

>gnl|CDD|219868 pfam08496, Peptidase_S49_N, Peptidase family S49 N-terminal

 Score = 37.1 bits (87), Expect = 0.004
 Identities = 13/34 (38%), Positives = 21/34 (61%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKK 335
           K+E K  +K +K+  K K + EK+K KK+  K +
Sbjct: 65  KKELKAWEKAEKKAEKAKAKAEKKKAKKEEPKPR 98

This domain is found to the N-terminus of bacterial signal peptidases of the S49 family (pfam01343). Length = 154

>gnl|CDD|222447 pfam13904, DUF4207, Domain of unknown function (DUF4207)

 Score = 38.2 bits (89), Expect = 0.004
 Identities = 19/67 (28%), Positives = 46/67 (68%), Gaps = 3/67 (4%)

Query: 302 KRERKRRKKKKKRKRK---RKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
           K ER   +++ K++ +    KK K++++K+++ ++K+RKK++++++RK+K  +  +K  K
Sbjct: 170 KPERNVSQEEAKKRLQEWELKKLKQQQQKREEERRKQRKKQQEEEERKQKAEEAWQKWMK 229

Query: 359 KKKKKKK 365
             K++ K
Sbjct: 230 NVKQRPK 236

This family is found in eukaryotes; it has several conserved tryptophan residues. The function is not known. Length = 261

>gnl|CDD|236978 PRK11778, PRK11778, putative inner membrane peptidase; Provisional

 Score = 38.7 bits (91), Expect = 0.004
 Identities = 19/83 (22%), Positives = 40/83 (48%), Gaps = 7/83 (8%)

Query: 282 FAKSMDLIDVIVDTEILIREKRERKRRKKKK-------KRKRKRKKRKEKEKKKKKRKKK 334
            AK++ ++  I     LI    +RK+ +K +       ++ ++ K+  +     KK  K 
Sbjct: 9   LAKTVTVVVAIAAVVALIVSLAQRKKSQKGELEVTNLNEQYKEMKEELKAALLDKKELKA 68

Query: 335 KRKKKRKKKKRKKKKRKKEEKKK 357
             K ++KK+K++ K  K + K +
Sbjct: 69  WHKAQKKKEKQEAKAAKAKSKPR 91

Length = 330

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 38.4 bits (89), Expect = 0.004
 Identities = 18/78 (23%), Positives = 49/78 (62%)

Query: 294 DTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKE 353
           + +   +E++  +  K K+  +++R K+ EKE+ K + ++K+ ++  K+ + ++K+++++
Sbjct: 78  EQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQ 137

Query: 354 EKKKKKKKKKKKEKRKKR 371
            +K   ++KKK E  K +
Sbjct: 138 ARKAAAEQKKKAEAAKAK 155

Length = 387

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 13/55 (23%), Positives = 37/55 (67%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           K  R    ++++E+++++K+ K++K +K+++  K   +K ++E++ ++ +K K K
Sbjct: 7   KSGRIIDIEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNK 61

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|233352 TIGR01310, L7, 60S ribosomal protein L7, eukaryotic

 Score = 38.1 bits (89), Expect = 0.004
 Identities = 19/61 (31%), Positives = 33/61 (54%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
           ++RK R++   +  K+ K K+K  KKK++   KR +   K+ RK ++     K+  KK  
Sbjct: 5   KKRKARQELAVQVAKQAKAKKKANKKKRKIYFKRAESFVKEYRKAEREIIRLKRLAKKPG 64

Query: 363 K 363
           K
Sbjct: 65  K 65

This model describes the eukaryotic 60S (cytosolic) ribosomal protein L7 and paralogs that may or may not also be L7. Human, Drosophila, and Arabidopsis all have both a typical L7 and an L7-related paralog. This family is designated subfamily rather than equivalog to reflect these uncharacterized paralogs. Members of this family average ~ 250 residues in length, somewhat longer than the archaeal L30P/L7E homolog (~ 155 residues) and much longer than the related bacterial/organellar form (~ 60 residues). Length = 235

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 18/70 (25%), Positives = 28/70 (40%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           +K+      KK   + K+K   E   K     KKK + + KKK   + K+K   + K   
Sbjct: 168 KKKAEAEAAKKAAAEAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAAEAKKKAAAEAKAAA 227

Query: 361 KKKKKEKRKK 370
            K   E +  
Sbjct: 228 AKAAAEAKAA 237

Length = 387

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 18/77 (23%), Positives = 35/77 (45%)

Query: 291 VIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
              + E L + ++ER   +++KK+  +  K+   ++K+ +    K     K K   + KR
Sbjct: 96  QAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKR 155

Query: 351 KKEEKKKKKKKKKKKEK 367
                KK   + KKK +
Sbjct: 156 AAAAAKKAAAEAKKKAE 172

Length = 387

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 12/59 (20%), Positives = 18/59 (30%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
                     KK+ +   K    K   +KK + +    KK  KK    K       K+ 
Sbjct: 66  TDDATESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDI 124

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 13/49 (26%), Positives = 20/49 (40%)

Query: 322 KEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
            E +  KKK K   +    K   +KK K + +  KK +KK    +    
Sbjct: 70  TESDIPKKKTKTAAKAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDL 118

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 38.4 bits (90), Expect = 0.004
 Identities = 14/70 (20%), Positives = 24/70 (34%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
           ++  ++  + KKK   +  +         K      +    KKK K   +    K   KK
Sbjct: 35  KEEIKEALESKKKTPEQIDQVLIFLSGMVKDTDDATESDIPKKKTKTAAKAAAAKAPAKK 94

Query: 361 KKKKKEKRKK 370
           K K +    K
Sbjct: 95  KLKDELDSSK 104

Length = 509

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

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 14/74 (18%), Positives = 41/74 (55%)

Query: 298 LIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
           L++ +  RK+ +  + R R  + ++E E+K+++ ++ KR   +++        + E+++ 
Sbjct: 61  LLKLEVARKKERLNQIRARISQLKEEIEQKRERIEELKRALAQRRSDLSSASYQLEKRRA 120

Query: 358 KKKKKKKKEKRKKR 371
            + +K + E ++ R
Sbjct: 121 SQLEKLQDEIKRTR 134

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

>gnl|CDD|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 10/76 (13%), Positives = 18/76 (23%), Gaps = 3/76 (3%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRK---EKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
            R   E +     + +K K  K+        +    K      K             E +
Sbjct: 417 TRPGLEEESDISDEIKKLKSSKKALLRGLGVRFTLSKLLANLGKEIPGAGDAVTIDPELE 476

Query: 356 KKKKKKKKKKEKRKKR 371
           ++        E   K 
Sbjct: 477 RRSPNSADDIEYILKG 492

Length = 513

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	371
KOG3713|consensus	477		100.0
KOG1545|consensus	507		100.0
KOG4390|consensus	632		99.97
KOG1419|consensus	654		99.95
PLN03192	823	Voltage-dependent potassium channel; Provisional	99.93
KOG0498|consensus	727		99.88
KOG0501|consensus	971		99.86
KOG1420|consensus	1103		99.76
PF00520	200	Ion_trans: Ion transport protein calcium channel s	99.69
KOG2301|consensus	1592		99.63
KOG0500|consensus	536		99.62
KOG2302|consensus	1956		99.59
KOG2301|consensus	1592		99.46
PRK10537	393	voltage-gated potassium channel; Provisional	99.46
KOG2302|consensus	1956		99.4
KOG0499|consensus	815		99.34
PF07885	79	Ion_trans_2: Ion channel; InterPro: IPR013099 This	99.24
KOG3193|consensus	1087		98.87
PLN03223	1634	Polycystin cation channel protein; Provisional	98.74
KOG3684|consensus	489		98.61
PF08016	425	PKD_channel: Polycystin cation channel; InterPro:	98.17
KOG4404|consensus	350		98.12
KOG1418|consensus	433		97.96
PF01007	336	IRK: Inward rectifier potassium channel; InterPro:	97.88
KOG3599|consensus	798		97.87
TIGR00870	743	trp transient-receptor-potential calcium channel p	97.49
KOG4404|consensus	350		97.47
KOG1418|consensus	433		96.7
KOG3609|consensus	822		96.46
KOG3614|consensus	1381		96.22
KOG2572|consensus	498		95.68
KOG0510|consensus	929		95.66
KOG3533|consensus	2706		95.44
KOG3827|consensus	400		95.04
PRK00247	429	putative inner membrane protein translocase compon	94.4
KOG2573|consensus	498		94.02
KOG3676|consensus	782		93.88
PLN03223	1634	Polycystin cation channel protein; Provisional	91.2
PF00520	200	Ion_trans: Ion transport protein calcium channel s	90.95
KOG2573|consensus	498		89.59
COG4499	434	Predicted membrane protein [Function unknown]	88.58
KOG3713|consensus	477		87.91
PRK00247	429	putative inner membrane protein translocase compon	87.73
PLN03192	823	Voltage-dependent potassium channel; Provisional	87.23
PF07946	321	DUF1682: Protein of unknown function (DUF1682); In	86.74
KOG1545|consensus	507		86.25
KOG3599|consensus	798		85.85
PRK12585	197	putative monovalent cation/H+ antiporter subunit G	85.25
KOG2412|consensus	591		80.89

>KOG3713|consensus

Probab=100.00  E-value=5.8e-45  Score=336.98  Aligned_cols=228  Identities=52%  Similarity=0.913  Sum_probs=210.6

Q ss_pred             HHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCC----------CCCCChhHHHHHHHH
Q psy6333           9 IRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAG----------NPIDNPKLAIVEAVC   78 (371)
Q Consensus         9 ~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~----------~~~~~~~~~~i~~i~   78 (371)
                      +|+++|.++++|+||.+    +++|...++++|+++++.+++.+.|+++.....+          .+..++.+.++|.+|
T Consensus       174 ~r~rlW~~~E~P~SS~~----Ak~fa~~Sv~FVlvSiv~lcL~T~pe~q~~~~~~~~~~~~~~~~~~~~~p~l~~vE~vC  249 (477)
T KOG3713|consen  174 LRRRLWALLENPGSSLA----AKVFAVLSVLFVLVSIVGLCLGTLPEFQVPDKQGEGLLVNVEKIESEPHPILTYVETVC  249 (477)
T ss_pred             HHHHHHHHhcCCCcchH----HHHHHHHHHHHHHHHHHHHHHcCCHhhhchhhccccccccccccCCCCCCchHHHHHHH
Confidence            78999999999999999    9999999999999999999999999998876443          445578899999999


Q ss_pred             HHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q psy6333          79 ITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRI  158 (371)
Q Consensus        79 ~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri  158 (371)
                      .++|++|+++|+..++++.+|++++.|+||+++++|+++.+........        .+..+..++.++|++|++|++|+
T Consensus       250 i~WFT~E~llR~~~~P~k~~F~k~pLNIIDllAIlPFYielll~~~~~~--------~~~~l~~~~~vvrvlR~lRI~RI  321 (477)
T KOG3713|consen  250 IAWFTFEYLLRFLVAPNKLEFFKSPLNIIDLLAILPFYLELLLTLFGGE--------SLKELENAGLVVRVLRVLRILRI  321 (477)
T ss_pred             HHHHHHHHHHHHHcCchHHHHHhCcchHHHHHHHHHHHHHHHHHHhccc--------hHHHHhhhhhhHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999887544421        23456666788999999999999


Q ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCC
Q psy6333         159 LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT  238 (371)
Q Consensus       159 ~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t  238 (371)
                      +|+.||+.+++.+..+++.|.++++++++++.+.+.+||.+.|++|.+.+...|++.+.++||+++|||||||||++|.|
T Consensus       322 ~KLaRhS~GLr~lg~Tlr~S~~ElglLllfL~~GI~iFStlvY~~Ek~~~~~~FtSIPa~~WWaiVTMTTVGYGDm~P~T  401 (477)
T KOG3713|consen  322 FKLARHSTGLRTLGLTLRRSYRELGLLLLFLAVGIVIFSTLVYFAEKDEPDTKFTSIPAGFWWAVVTMTTVGYGDMVPVT  401 (477)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCccccchhheeeEEEeeecccCccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhHHhHH
Q psy6333         239 PLGKMIGSNQ  248 (371)
Q Consensus       239 ~~~~~~~~~~  248 (371)
                      ..|++++...
T Consensus       402 ~~Gklvas~c  411 (477)
T KOG3713|consen  402 VLGKLVASLC  411 (477)
T ss_pred             cchHHHHHHH
Confidence            9999999833

>KOG1545|consensus

Probab=100.00  E-value=8.6e-42  Score=301.30  Aligned_cols=238  Identities=41%  Similarity=0.701  Sum_probs=206.5

Q ss_pred             ccchhHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCC-------------C-------
Q psy6333           4 YSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKA-------------G-------   63 (371)
Q Consensus         4 ~~~~~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~-------------~-------   63 (371)
                      .++.+.++.+|.+++.|.||.+    .+...++++++|+++++.+|+++.|++....+.             +       
T Consensus       168 lP~n~fqRqvWlLfEYPeSS~~----AR~iAiVSVlVIliSIviFClETlPefrderd~~~~~~~~~~~~~~n~~~~~~~  243 (507)
T KOG1545|consen  168 LPRNEFQRQVWLLFEYPESSGP----ARIIAIVSVLVILISIVIFCLETLPEFRDERDLTGHFPAGTGGGVMNPTSGPEL  243 (507)
T ss_pred             CCcchHHhhhhheeecccccCC----eeeeeehhHHHHHHHHHHHHHHhCchhhhhccccccccccCCCcccCCCCCccc
Confidence            4677889999999999999999    999999999999999999999999998765110             0       


Q ss_pred             ----CCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhh
Q psy6333          64 ----NPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQ  139 (371)
Q Consensus        64 ----~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~  139 (371)
                          ...-...+.++|..|.++|++|+++||.+++.+..|+++..|++|+++++|+++.+..........++.++..   
T Consensus       244 ~~~~~~~f~dPFFiVEt~CIiWFtfEllvRf~aCPsK~~Ff~nimNiIDiVaI~PyFitlgtela~q~g~g~~gqqa---  320 (507)
T KOG1545|consen  244 LDLGDTKFTDPFFIVETLCIIWFTFELLVRFFACPSKATFFRNIMNIIDIVAIIPYFITLGTELAEQQGGGGQGQQA---  320 (507)
T ss_pred             ccccccccCCchHhHHHHHHHHHhHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhcCCccchhh---
Confidence                1112356789999999999999999999999999999999999999999999998866433221111111111   


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHH
Q psy6333         140 FQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETF  219 (371)
Q Consensus       140 ~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  219 (371)
                        ..+.++|++|++|++|++++.|++.+++.+.+++..+++.++++++++++.+++|+...|+.|.+++.+.|.+.++||
T Consensus       321 --MSlAILRViRLVRVFRIFKLSRHSkGLQILGqTl~aSmrElgLLIFFlfIgviLFsSavYFAEade~~S~F~SIPdaF  398 (507)
T KOG1545|consen  321 --MSLAILRVIRLVRVFRIFKLSRHSKGLQILGQTLRASMRELGLLIFFLFIGVILFSSAVYFAEADEPESHFSSIPDAF  398 (507)
T ss_pred             --hhHHHHHHHHHHHHhhheeeccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhceeeeeecCCCccCCCcCcccc
Confidence              123689999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         220 WWAGITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       220 y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                      ||+++|||||||||+.|.|..|++++....+
T Consensus       399 WwavVTMTTVGYGDm~P~TvgGKIVGslCAi  429 (507)
T KOG1545|consen  399 WWAVVTMTTVGYGDMVPVTVGGKIVGSLCAI  429 (507)
T ss_pred             eEEEEEEEeeccccceecccCceehhhHHhh
Confidence            9999999999999999999999999985555

>KOG4390|consensus

Probab=99.97  E-value=8.7e-33  Score=246.62  Aligned_cols=222  Identities=35%  Similarity=0.670  Sum_probs=196.6

Q ss_pred             ccchhHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccC-----CCCCCCCChhHHHHHHHH
Q psy6333           4 YSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKD-----KAGNPIDNPKLAIVEAVC   78 (371)
Q Consensus         4 ~~~~~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~-----~~~~~~~~~~~~~i~~i~   78 (371)
                      ..-+.+||++|.-++||+++..    ..+|+++..++|.+++++-+.+++|.-....     .|+.. ....+..+|..|
T Consensus       162 p~~ls~rq~mWrAFENPHTst~----ALVFYYVtGFFIAVSVi~NvVETiPCg~~~~~~~e~pCGEr-y~~aFFclDTAC  236 (632)
T KOG4390|consen  162 PAGLSLRQRMWRAFENPHTSTA----ALVFYYVTGFFIAVSVIANVVETIPCGGSPGRSKELPCGER-YPVAFFCLDTAC  236 (632)
T ss_pred             cccchHHHHHHHHhcCCCcchh----hhhhhhhhhhhhhhhhhhceeeecccCCCCCCceecccccc-cceeeEEeccee
Confidence            3458899999999999999998    9999999999999999999999988754433     22322 245667899999


Q ss_pred             HHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Q psy6333          79 ITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRI  158 (371)
Q Consensus        79 ~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri  158 (371)
                      ..+|+.|++||+++++.|.+|+++...++|+++++|+++.++......-                ...+--+|++|++|+
T Consensus       237 VmIFT~EYlLRL~aAPsR~rF~RSvMSiIDVvAIlPYYigLv~t~N~DV----------------SGaFVTLRVFRVFRI  300 (632)
T KOG4390|consen  237 VMIFTGEYLLRLFAAPSRYRFLRSVMSIIDVVAILPYYIGLVMTDNEDV----------------SGAFVTLRVFRVFRI  300 (632)
T ss_pred             EEEeeHHHHHHHHcCchHHHHHHHHHHHHHHhhhhhhheEEEecCCccc----------------cceeEEEEeeeeeee
Confidence            9999999999999999999999999999999999999998876543321                123445788889999


Q ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCC
Q psy6333         159 LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT  238 (371)
Q Consensus       159 ~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t  238 (371)
                      ++..|+.++++.+..++.++...++.+++-+.+.+++||+++|+.|.+.+.+.|++.+.|||++++||||.||||++|.|
T Consensus       301 FKFSRHSQGLRILGYTLKSCASELGFLlFSLtMAIIIFATvMfYAEKg~~at~FTsIPaaFWYTIVTmTTLGYGDMVp~T  380 (632)
T KOG4390|consen  301 FKFSRHSQGLRILGYTLKSCASELGFLLFSLTMAIIIFATVMFYAEKGSSATKFTSIPAAFWYTIVTMTTLGYGDMVPST  380 (632)
T ss_pred             eeecccccccchhhhhHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhccccccccccCcHhHhhheeeeeeccccccchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhHHh
Q psy6333         239 PLGKMIGS  246 (371)
Q Consensus       239 ~~~~~~~~  246 (371)
                      .+|++|+.
T Consensus       381 IaGKIfGs  388 (632)
T KOG4390|consen  381 IAGKIFGS  388 (632)
T ss_pred             HHHHHhhh
Confidence            99999988

>KOG1419|consensus

Probab=99.95  E-value=2.1e-27  Score=220.92  Aligned_cols=212  Identities=25%  Similarity=0.406  Sum_probs=171.3

Q ss_pred             HHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHH
Q psy6333           9 IRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLL   88 (371)
Q Consensus         9 ~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~l   88 (371)
                      +|-++++.+|.|.---     +.++..+++++++.++++-++.+.+++....       ..++.++|+++.++|.+||++
T Consensus        77 ~q~~vYN~LERPrGWk-----af~YH~~VFllVl~CLILsV~STi~e~~~~a-------~~~L~~LEiv~IV~Fg~Efiv  144 (654)
T KOG1419|consen   77 IQNKVYNFLERPRGWK-----AFLYHFFVFLLVLSCLILSVLSTIEEYEKLA-------SGILYILEIVMIVFFGLEFIV  144 (654)
T ss_pred             HHHHHHHHHhCCCcch-----HHHHHHHHHHHHHHHHHHHHhcccHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH
Confidence            4567999999996543     6678888888888899988999988876655       678999999999999999999


Q ss_pred             Hhhcccc---------hhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q psy6333          89 RLGASPE---------KWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRIL  159 (371)
Q Consensus        89 r~~~~~~---------~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~  159 (371)
                      |+|++++         |.+|.+.++.+||+++++..+..+....     .++..++         ..++-+|.++++|++
T Consensus       145 RlWSAGC~~rYrG~~GRLrFarkp~cvIDiivi~Asi~vl~~g~-----qG~vfat---------SalrslRFlQILRml  210 (654)
T KOG1419|consen  145 RLWSAGCCCRYRGWYGRLRFARKPFCVIDIIVIIASIAVLAAGS-----QGNVFAT---------SALRSLRFLQILRML  210 (654)
T ss_pred             HHHhcccccccccceeeEEeecCCceEEEEeeeeeeeeEEEecC-----ccceeeh---------hhhhhhHHHHHHHHH
Confidence            9999985         4568889999999998888765444321     1111111         236778888888888


Q ss_pred             HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc----CCCCCcCChhhHHHHhhhhhcccccCCcc
Q psy6333         160 KLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKD----EHDTKFVSIPETFWWAGITMTTVGYGDIC  235 (371)
Q Consensus       160 ~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~s~y~~~~t~tTvGyGdi~  235 (371)
                      ++-|....|+.+...+...-.++.....+-+++.++.+.+.|+.|.+    +.+..|.+|.||+||.++|+|||||||.+
T Consensus       211 r~DRrggTWKLLGSvV~aH~~ELiTt~YIGFL~LIfsSflVYLaEKd~~~e~~n~~F~TyADALWWG~ITltTIGYGDk~  290 (654)
T KOG1419|consen  211 RMDRRGGTWKLLGSVVYAHSKELITTWYIGFLVLIFSSFLVYLAEKDAQGEGTNDEFPTYADALWWGVITLTTIGYGDKT  290 (654)
T ss_pred             HhhccCchhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccchhHHHHHHhhheeEEeeccCCcC
Confidence            88888888988888888777777777666676677777888888766    34567999999999999999999999999


Q ss_pred             cCCcchhhHHh
Q psy6333         236 PTTPLGKMIGS  246 (371)
Q Consensus       236 p~t~~~~~~~~  246 (371)
                      |+|+.||+++.
T Consensus       291 P~TWlGr~laa  301 (654)
T KOG1419|consen  291 PQTWLGRLLAA  301 (654)
T ss_pred             cccchhHHHHH
Confidence            99999999887

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=99.93  E-value=2.6e-24  Score=223.88  Aligned_cols=207  Identities=15%  Similarity=0.220  Sum_probs=135.2

Q ss_pred             HhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcc
Q psy6333          14 ATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGAS   93 (371)
Q Consensus        14 ~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~   93 (371)
                      +..+-+|.+++     .++|+++++++++++.+.+.++........        ...+.+++.+++++|++|++++|+++
T Consensus        50 ~~~ii~P~~~~-----~~~Wd~~~~~~~~y~~~~~p~~~~F~~~~~--------~~~~~~~d~i~~~~F~iDi~l~f~~a  116 (823)
T PLN03192         50 DGWIISPMDSR-----YRWWETLMVVLVAYSAWVYPFEVAFLNASP--------KRGLEIADNVVDLFFAVDIVLTFFVA  116 (823)
T ss_pred             CCeEECCCCcH-----HHHHHHHHHHHHHHHHHHHHHHHHeeCCCC--------CCCeeeHHHHHHHHHHHHHHhheeEE
Confidence            34567787776     678888888888888888766653221111        23467899999999999999999988


Q ss_pred             c--------------chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Q psy6333          94 P--------------EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRIL  159 (371)
Q Consensus        94 ~--------------~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~  159 (371)
                      +              ...+|+++ |+++|+++++|+.+.........            .....+.+++++|++|+.|+.
T Consensus       117 y~d~~~~~lV~d~~~I~~~Yl~~-~f~~Dlis~lP~~~i~~~~~~~~------------~~~~~~~~l~llrl~Rl~ri~  183 (823)
T PLN03192        117 YIDPRTQLLVRDRKKIAVRYLST-WFLMDVASTIPFQALAYLITGTV------------KLNLSYSLLGLLRFWRLRRVK  183 (823)
T ss_pred             EEeCCCcEEEeCHHHHHHHHHHH-hHHHHHHHHhHHHHHHHHhcCCc------------cchHHHHHHHHHHHHHHHHHH
Confidence            4              14589877 78999999999976544322111            111112233344444443333


Q ss_pred             HhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc---CCC-------------CCcCChhhHHHHhh
Q psy6333         160 KLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKD---EHD-------------TKFVSIPETFWWAG  223 (371)
Q Consensus       160 ~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~---~~~-------------~~~~~~~~s~y~~~  223 (371)
                      ++   +..++.... +......+..++++++++++++||++|++...   .+.             +++..|..|+||++
T Consensus       184 ~~---~~~le~~~~-~~~~~~~~~kli~~~l~~~H~~aC~~y~i~~~~~~~~~~Wi~~~~~~~~~~s~~~~Yi~slYwai  259 (823)
T PLN03192        184 QL---FTRLEKDIR-FSYFWIRCARLLSVTLFLVHCAGCLYYLIADRYPHQGKTWIGAVIPNFRETSLWIRYISAIYWSI  259 (823)
T ss_pred             HH---HHHHHHHHH-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchHHHhhhccccCcHHHHHHHHHHHHH
Confidence            33   333332211 11112234445556666788899999876532   111             22335888999999


Q ss_pred             hhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         224 ITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       224 ~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                      +|||||||||++|.|+.|+++++..|.
T Consensus       260 ~TmtTVGYGDi~p~t~~E~i~~i~~ml  286 (823)
T PLN03192        260 TTMTTVGYGDLHAVNTIEMIFIIFYML  286 (823)
T ss_pred             HHHhhccCCCcCCCccchHHHHHHHHH
Confidence            999999999999999999999994443

>KOG0498|consensus

Probab=99.88  E-value=1.9e-21  Score=192.47  Aligned_cols=218  Identities=15%  Similarity=0.170  Sum_probs=140.6

Q ss_pred             hcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhccccccccc-CCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhccc-
Q psy6333          17 SNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHK-DKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASP-   94 (371)
Q Consensus        17 ~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~-   94 (371)
                      .-+|++.+     -+.|+++++++++.+.++..++.+...... ..+-+......+.+++.+.+++|++|++++|.+++ 
T Consensus        69 Ii~P~s~~-----~~~W~~~~Ll~~iya~~v~P~~f~f~~~~~~~~~~d~~~~~~l~v~d~ivD~fflvdIvL~Frtayv  143 (727)
T KOG0498|consen   69 ILDPYSPF-----YRVWNKFFLLLVIYAAFVDPLFFYFLLIDDERKCIDGKLAAPLTVLDTIVDIFFLVDIVLNFRTAYV  143 (727)
T ss_pred             eECCCChH-----HHHHHHHHHHHHHHHHHhccceeeEEecccccccccccccCceeeHHHHHHHHHHHHHHHhheEEEE
Confidence            56777776     677888877777777777655554332221 11112223467889999999999999999998876 


Q ss_pred             -------------chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHh
Q psy6333          95 -------------EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKL  161 (371)
Q Consensus        95 -------------~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l  161 (371)
                                   ...+|+++ |+++|+++++|+...+++......    .   .+........++.+.|+.|+.|+++ 
T Consensus       144 ~~~s~elV~dpk~IA~rYl~t-wFiiDlis~lP~~~i~~~~~~~~~----~---~~~~~~~l~~il~~~rL~Rl~Rv~~-  214 (727)
T KOG0498|consen  144 DPSSYELVDDPKKIAKRYLKT-WFLIDLISTLPFDQIVVLVVIGST----S---LALESTILVGILLLQRLPRLRRVIP-  214 (727)
T ss_pred             CCCCceeeeCHHHHHHHHHhh-hHHHHHHHhcChhhheeeeeeccc----c---hhhhHHHHHHHHHHHHHHHHHHHHH-
Confidence                         24689997 889999999999877665432000    0   0001111123334444444444444 


Q ss_pred             hhhhhhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhcccCC------------------CCC----cC-----
Q psy6333         162 ARHSTGLQSLGFTLRNSYKE-LGLLMLFLAMGVLIFSSLAYFAEKDEH------------------DTK----FV-----  213 (371)
Q Consensus       162 ~~~~~~l~~l~~~l~~~~~~-l~~l~~~~~~~~~~~~~~~~~~~~~~~------------------~~~----~~-----  213 (371)
                        .+..+.........+.-. ...++++.++..|+.||++|++....+                  ..+    |.     
T Consensus       215 --l~~r~~k~~~~v~~~awa~~a~ll~~~~l~sH~~gc~wYlia~~~~~~~~~~~tw~~~l~~~~~~~~~~~~fg~~s~~  292 (727)
T KOG0498|consen  215 --LFARLEKDTGFVYETAWAGAALLLSVYLLASHWAGCIWYLIAIERPASCPRKATWLGSLGRLLSCYNLSFTFGIYSLA  292 (727)
T ss_pred             --HHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCccccccccccccccccCcccccccchhHH
Confidence              444444443333322222 446677777788999999997632211                  001    11     


Q ss_pred             -ChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         214 -SIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       214 -~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                       .|..|+||+++||||+||||.+|.++.|++|++..|.
T Consensus       293 ~kY~~aLyw~l~tLstvG~g~~~s~~~~E~iFsi~~mi  330 (727)
T KOG0498|consen  293 LKYVYALYWGLSTLSTVGYGLVHANNMGEKIFSIFIML  330 (727)
T ss_pred             HHHHHHHHHHhhHhhhccCCccCCCCcHHHHHHHHHHH
Confidence             3789999999999999999999999999999994444

>KOG0501|consensus

Probab=99.86  E-value=2.1e-21  Score=181.87  Aligned_cols=246  Identities=18%  Similarity=0.277  Sum_probs=161.3

Q ss_pred             cCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhccc---------
Q psy6333          24 VSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASP---------   94 (371)
Q Consensus        24 ~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~---------   94 (371)
                      +.|-....+|+|+++++.+...+...++.  .|....     .....+.+++.+++++|++|++|+|.+..         
T Consensus       211 LHYcaFKt~WDWvIL~LTFYTAimVPyNv--aFKnk~-----~~~vs~lvvDSiVDVIF~vDIvLNFHTTFVGPgGEVvs  283 (971)
T KOG0501|consen  211 LHYCAFKTIWDWVILILTFYTAIMVPYNV--AFKNKQ-----RNNVSWLVVDSIVDVIFFVDIVLNFHTTFVGPGGEVVS  283 (971)
T ss_pred             EeeehhhhHHHHHHHHHHHHHHheeeeee--eecccc-----cCceeEEEecchhhhhhhhhhhhhcceeeecCCCceec
Confidence            34444577888888877777666554443  222211     11355778999999999999999997753         


Q ss_pred             ----chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHH
Q psy6333          95 ----EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQS  170 (371)
Q Consensus        95 ----~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~  170 (371)
                          .|.+|+++ |+++|+++.+|+.+...+-....+            ..   .++..++++|++|+-|..|.....- 
T Consensus       284 dPkvIRmNYlKs-WFvIDLLSCLPYDi~naF~~~deg------------I~---SLFSaLKVVRLLRLGRVaRKLD~Yl-  346 (971)
T KOG0501|consen  284 DPKVIRMNYLKS-WFVIDLLSCLPYDIFNAFERDDEG------------IG---SLFSALKVVRLLRLGRVARKLDHYL-  346 (971)
T ss_pred             ChhHHhHHHHHH-HHHHHHHhcccHHHHHHhhccccc------------HH---HHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence                47899999 889999999999987776443322            11   2233333333333333333322222 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccC--------------------------------------CCCCc
Q psy6333         171 LGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE--------------------------------------HDTKF  212 (371)
Q Consensus       171 l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~--------------------------------------~~~~~  212 (371)
                           ......+.+++.+..++.+..||+||.+...+                                      +++.-
T Consensus       347 -----EYGAA~LvLLlC~y~lvAHWlACiWysIGd~ev~~~~~n~i~~dsWL~kLa~~~~tpY~~~~s~~~~~~gGPSr~  421 (971)
T KOG0501|consen  347 -----EYGAAVLVLLLCVYGLVAHWLACIWYSIGDYEVRDEMDNTIQPDSWLWKLANDIGTPYNYNLSNKGTLVGGPSRT  421 (971)
T ss_pred             -----HhhHHHHHHHHHHHHHHHHHHHHhheeccchheecccccccccchHHHHHHhhcCCCceeccCCCceeecCCccc
Confidence                 22233455566666777788899998764311                                      12223


Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHHHHHHHHHHHHHHhhCCCeEEeccc--chhhHhhhhchhhH
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHV--NLRDAFAKSMDLID  290 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~  290 (371)
                      .-|..|+||++..|||||||+|.|.|..+++|++..|...       ++..+.--||+....++  .-.+.|.+-.++++
T Consensus       422 S~YissLYfTMt~mttvGFGNiA~~TD~EKiF~v~mMii~-------aLLYAtIFG~vTTI~QQM~s~T~rYHeMlnnVR  494 (971)
T KOG0501|consen  422 SAYISSLYFTMTCMTTVGFGNIAPNTDNEKIFGVCMMIIG-------ALLYATIFGHVTTIIQQMTSNTNRYHEMLNNVR  494 (971)
T ss_pred             ceehhhhhhhhhhhhcccccccCCCccHHHHHHHHHHHHH-------HHHHHHHHhhHHHHHHHHHhhhHHHHHHHHHHH
Confidence            4588999999999999999999999999999999999876       44444444554332221  11233444448888


Q ss_pred             HHHHHHHHHHHHHHH
Q psy6333         291 VIVDTEILIREKRER  305 (371)
Q Consensus       291 ~~~~~~~~~~~~~~~  305 (371)
                      .+......|+...++
T Consensus       495 eFlKL~evPK~LsER  509 (971)
T KOG0501|consen  495 EFLKLYEVPKGLSER  509 (971)
T ss_pred             HHHHHHhccHHHHHH
Confidence            888888888877666

>KOG1420|consensus

Probab=99.76  E-value=5.3e-20  Score=172.28  Aligned_cols=216  Identities=19%  Similarity=0.280  Sum_probs=142.5

Q ss_pred             HHHHHHHHHHHHHhhcccccccccC-CCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHH
Q psy6333          36 ISIMFIVLSTVALTLNTIPSLQHKD-KAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMP  114 (371)
Q Consensus        36 ~~~~liil~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip  114 (371)
                      +++++.++++-.+++++++...... .|..|.. ..-+.++..|+++|++.+++||+++.++.-||.....++|++.+-|
T Consensus       129 lvvlvfilsigsliiyf~das~~~ve~cq~w~~-~~tqqidlafnifflvyffirfiaasdklwf~lemys~vdfftipp  207 (1103)
T KOG1420|consen  129 LVVLVFILSIGSLIIYFIDASNPIVETCQNWYK-DFTQQIDLAFNIFFLVYFFIRFIAASDKLWFWLEMYSVVDFFTIPP  207 (1103)
T ss_pred             eehhHHHHhhhceEEEEEcCCChHHHhhhhhhh-ChHHHhhhHhhHHHHHHHHHHHhhcccceeeeeehhhheeeeecCc
Confidence            3455566666667777765554433 3555553 4456789999999999999999999999889998889999999999


Q ss_pred             HHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy6333         115 YYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVL  194 (371)
Q Consensus       115 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~  194 (371)
                      .++.+++..+                   +..+|++|.+|++.+-.++++...+..     .++++...++.+++. +++
T Consensus       208 sfvsiyl~r~-------------------wlglrflralrlmtvpdilqylnilkt-----sssirl~qlvsifis-vwl  262 (1103)
T KOG1420|consen  208 SFVSIYLNRS-------------------WLGLRFLRALRLMTVPDILQYLNILKT-----SSSIRLVQLVSIFIS-VWL  262 (1103)
T ss_pred             hheEEEeccc-------------------hHHHHHHHHHHhccHHHHHHHHHHHhc-----cchhhHHHHHHHHHH-HHH
Confidence            9987765322                   234666666666555555443322221     223333333444443 344


Q ss_pred             HHHHHhhhhcccCC-CC-----CcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHH------HHHHHHHH---
Q psy6333         195 IFSSLAYFAEKDEH-DT-----KFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRR------EKALKRRE---  259 (371)
Q Consensus       195 ~~~~~~~~~~~~~~-~~-----~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~------~~~~~~~~---  259 (371)
                      -.|++.+++|+.++ ..     .--+|+++.|+.++||+||||||+...|..||+|-+.+...      ..-.+..+   
T Consensus       263 taag~ihllensgdp~~~f~n~hrltyw~cvyfl~vtmstvgygdvyc~t~lgrlfmvffil~glamfasyvpeiielig  342 (1103)
T KOG1420|consen  263 TAAGFIHLLENSGDPWENFQNNHRLTYWECVYFLMVTMSTVGYGDVYCKTTLGRLFMVFFILGGLAMFASYVPEIIELIG  342 (1103)
T ss_pred             hhcceeehhhcCCChhHhccCcccchhhheeeeeEEEeeeccccceeehhhhhHHHHHHHHHHHHHHHHhhhHHHHHHHc
Confidence            55667777765432 22     23479999999999999999999999999999988844332      22111111   


Q ss_pred             -------HHHHHhhCCCeEEecccc
Q psy6333         260 -------AMERAKREGSIVSFHHVN  277 (371)
Q Consensus       260 -------~~~~~~~~~~~~~~~~~~  277 (371)
                             .........|+++||+..
T Consensus       343 nr~kyggeyk~ehgkkhivvcghit  367 (1103)
T KOG1420|consen  343 NRKKYGGEYKAEHGKKHIVVCGHIT  367 (1103)
T ss_pred             cccccCceeehhcCCeeEEEeccee
Confidence                   111123467999999854

>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins

Probab=99.69  E-value=2.3e-16  Score=136.50  Aligned_cols=160  Identities=29%  Similarity=0.458  Sum_probs=124.1

Q ss_pred             HHHHHHHHHHHHHHHHHhhcccc-hhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHH
Q psy6333          73 IVEAVCITWFSVEYLLRLGASPE-KWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFR  151 (371)
Q Consensus        73 ~i~~i~~~iF~~d~~lr~~~~~~-~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr  151 (371)
                      ++|.+++++|++|+++++++.+. +.+|++++||++|+++++|.++.......+..+           ..   ..++++|
T Consensus         1 ~~~~~~~~~f~~e~~l~~~~~~~~~~~y~~~~~~~~d~~~~~~~~~~~~~~~~~~~~-----------~~---~~~~~~~   66 (200)
T PF00520_consen    1 ILEIIFDVIFILEIVLRFFALGFKRRRYFRSWWNWFDFISVIPSIVSVILRSYGSAS-----------AQ---SLLRIFR   66 (200)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCCCG-GCCCCSHHHHHHHHHHHHHCCHHCCHCSS--H-----------HC---HCHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHhccHHHHHhcChhhccccccccccccccccccccccc-----------cc---ceEEEEE
Confidence            57899999999999999998885 379999999999999999997776654332210           00   2355666


Q ss_pred             HHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccC----------------CCCCcCCh
Q psy6333         152 IMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE----------------HDTKFVSI  215 (371)
Q Consensus       152 llRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~  215 (371)
                      ++|++|++++.+..+.++.+...+..+.+.+..++++++++++.+|++++...+..                +.+.+++|
T Consensus        67 ~l~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~a~~~~~lf~~~~~~~~~~~~~~~~~~~~~~~f~~~  146 (200)
T PF00520_consen   67 LLRLLRLLRLLRRFRSLRRLLRALIRSFPDLFKFILLLFIVLLFFACIGYQLFGGSDNSCCDPTWDSENDIYGYENFDSF  146 (200)
T ss_dssp             HHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTS-------SS----SSTHHHHSSH
T ss_pred             eeccccccccccccccccccccccccccccccccccccccccccccchhheecccccccccccccccccccccccccccc
Confidence            66666666666667777777777788888888888888888899999888654332                23456789


Q ss_pred             hhHHHHhhhhhcccccCCcccC-----CcchhhHHh
Q psy6333         216 PETFWWAGITMTTVGYGDICPT-----TPLGKMIGS  246 (371)
Q Consensus       216 ~~s~y~~~~t~tTvGyGdi~p~-----t~~~~~~~~  246 (371)
                      ..|+||++.++||.||||+.|.     +..+.++.+
T Consensus       147 ~~s~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~  182 (200)
T PF00520_consen  147 GESLYWLFQTMTGEGWGDVMPSCMSARSWLAVIFFI  182 (200)
T ss_dssp             HHHHHHHHHHHTTTTCCCCHHHHHHTTSTTHHHHHH
T ss_pred             cccccccccccccCCccccccccccccchhHhHHhh
Confidence            9999999999999999999998     777777775

The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....

>KOG2301|consensus

Probab=99.63  E-value=1.2e-15  Score=162.50  Aligned_cols=189  Identities=22%  Similarity=0.326  Sum_probs=154.6

Q ss_pred             ccchhHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHH
Q psy6333           4 YSHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFS   83 (371)
Q Consensus         4 ~~~~~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~   83 (371)
                      ..+.+.+++++..+.+|.           +++.+++++++|++++.++++++.....        ..+.+.+.++.++|+
T Consensus       427 ~~~~~~~~~~~~~v~~~~-----------~~~~i~i~i~lnt~~~a~eh~~~~~~~~--------~~l~~~~~vF~~lF~  487 (1592)
T KOG2301|consen  427 PIWLKFKQWLRKMVFDPF-----------VILFITICIALNTLFMAMEHYEMTKARN--------YLLYLGNVVFTGLFT  487 (1592)
T ss_pred             hHHHHHHHHHHHhhhcce-----------ehhhhHHHHhhcccEEEEEEeCCcHHHH--------HHHHHHHHHHHHHHH
Confidence            456777888888866663           4566999999999999999998876654        788999999999999


Q ss_pred             HHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q psy6333          84 VEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLAR  163 (371)
Q Consensus        84 ~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~  163 (371)
                      .|+.+++++-+. ..|+++.||++|++.++-.++...   ..                 ....+.++|++|++|++|+.+
T Consensus       488 ~Em~~ki~al~~-~~yF~~~~n~fD~~iv~l~~~~~~---~~-----------------~~~g~svLr~frllRIfkl~k  546 (1592)
T KOG2301|consen  488 VEMILKIYALGP-RNYFRRGWNIFDLIIVLLSLLELL---LK-----------------NVYGLSVLRSFRLLRIFKLIK  546 (1592)
T ss_pred             HHHHHHHHHcCc-HHHHhhhcchheEEEEehhhHHhc---cc-----------------chHHHHHHHHHHHHHHHHHHH
Confidence            999999887665 589999999999999982222222   11                 114588999999999999999


Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCC-C-----CcCChhhHHHHhhhhhcccccCC
Q psy6333         164 HSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHD-T-----KFVSIPETFWWAGITMTTVGYGD  233 (371)
Q Consensus       164 ~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~-~-----~~~~~~~s~y~~~~t~tTvGyGd  233 (371)
                      ++..++.+...+.++...++.+++++++++++||.+++.+.++..+ .     ++.+++.||-+.++ +|+-+|-|
T Consensus       547 ~wp~l~~lv~~i~ns~~~l~~L~l~l~i~i~Ifa~~gmqlFg~~~n~~~~~~~~~~~fp~sfl~vFq-lt~e~W~e  621 (1592)
T KOG2301|consen  547 SWPTLNDLVKSIFNSGKALGNLVLFLFIFIFIFAAIGMQLFGGVYNLHCDIHWHFTDFPHSFLSVFQ-ITCEEWTD  621 (1592)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhhHHhhCcccCCCCCCccchhhCHHHHHHHHH-HcCCchHH
Confidence            9999999999999999999999999999999999999976554322 2     67789999999998 66655554

>KOG0500|consensus

Probab=99.62  E-value=5.6e-15  Score=137.16  Aligned_cols=206  Identities=15%  Similarity=0.197  Sum_probs=128.6

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHhhccc------------chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhh
Q psy6333          68 NPKLAIVEAVCITWFSVEYLLRLGASP------------EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQT  135 (371)
Q Consensus        68 ~~~~~~i~~i~~~iF~~d~~lr~~~~~------------~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~  135 (371)
                      ...|..+|++++++|++|++++..+.+            -+.+|+.+..+.+|+++++|..+.++.....          
T Consensus        28 ~~~wl~ld~~~D~vyllDi~v~~R~gyleqGllV~~~~Kl~~hY~~s~~f~lD~l~liP~D~l~~~~~~~----------   97 (536)
T KOG0500|consen   28 LENWLPLDYLFDFVYLLDIIVRSRTGYLEQGLLVKDTSKLRKHYVHSTQFKLDVLSLIPLDLLLFKDGSA----------   97 (536)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhHhcCeeehhhHHHHHHHHHhhhhhhhhhhhcchhHHhhcCCcc----------
Confidence            456789999999999999999987765            2569999999999999999999888775433          


Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccc-----C---
Q psy6333         136 RTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKD-----E---  207 (371)
Q Consensus       136 ~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~-----~---  207 (371)
                               ...|+.|++|+.|++.......+-...     -.+..+..++..+++++|..||+.|.+-..     +   
T Consensus        98 ---------~~~r~nRllk~yRl~~F~~rTetrT~~-----Pn~fri~~lv~~~~ilfHWNaClYf~iS~~~g~~~d~wv  163 (536)
T KOG0500|consen   98 ---------SLERLNRLLKIYRLFEFFDRTETRTTY-----PNAFRISKLVHYCLILFHWNACLYFLISKAIGFTTDDWV  163 (536)
T ss_pred             ---------hHHHHHHHHHHHHHHHHHHHhccccCC-----chHHHHHHHHHHHHHHHHHhhHHHHhhhHhcCccccccc
Confidence                     123445555555544443332221111     112233445556666778888888754211     0   


Q ss_pred             ----CCC---------CcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHHHHHHHHHHHHHHhhCCCeEEe-
Q psy6333         208 ----HDT---------KFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKALKRREAMERAKREGSIVSF-  273 (371)
Q Consensus       208 ----~~~---------~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  273 (371)
                          .+.         -...|..|+||+..|+||+| --..|.|..+.+|.+.....+       -+..+--.|++-.. 
T Consensus       164 Y~~i~d~~~~~c~~~n~~ReY~~S~YWStLTlTTiG-e~P~P~t~~ey~F~I~d~LiG-------vliFAtIvG~VGsmV  235 (536)
T KOG0500|consen  164 YPKINDPEFATCDAGNLTREYLYSLYWSTLTLTTIG-EQPPPVTSSEYAFVIVDTLIG-------VLIFATIVGNVGSMV  235 (536)
T ss_pred             cCCccCccccccchhHHHHHHHHHHHHHhhhhhhcc-CCCCCCcCchhhHHHHHHHHH-------HHHHhhhhccHhHHH
Confidence                011         11248899999999999999 567899999999988544433       11111111111000 


Q ss_pred             cccc-hhhHhhhhchhhHHHHHHHHHHHHHHHH
Q psy6333         274 HHVN-LRDAFAKSMDLIDVIVDTEILIREKRER  305 (371)
Q Consensus       274 ~~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~  305 (371)
                      .+.+ .+..|...||.+...+.....++.-+.+
T Consensus       236 tnmna~r~EFq~~mDGiK~YM~~RkV~~~lq~r  268 (536)
T KOG0500|consen  236 TNMNAARTEFQAKMDGIKQYMRYRKVPKALQTR  268 (536)
T ss_pred             HhhhHHHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            1122 2444566677777777766666655444

>KOG2302|consensus

Probab=99.59  E-value=2.5e-14  Score=141.18  Aligned_cols=157  Identities=21%  Similarity=0.313  Sum_probs=130.1

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhccc---chhhhhcccchh
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASP---EKWKFFKGGLNV  106 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~---~~~~y~~~~~~~  106 (371)
                      +..|+.+++++|++|++.++++....-....+      ...+..-+++|.++|..|+.+++.+.+   .-..|+++.||.
T Consensus      1123 hk~Fd~vVl~~IfLNcVtialerp~i~~~s~E------riFltlsnyIFtaIfV~Em~lKVVALGl~fge~aYl~ssWN~ 1196 (1956)
T KOG2302|consen 1123 HKAFDTVVLFFIFLNCVTIALERPAIVEGSTE------RIFLTLSNYIFTAIFVVEMTLKVVALGLYFGEQAYLRSSWNV 1196 (1956)
T ss_pred             HhhhhheehhhhhhhhHHHHhcccccccCcce------EEEEEecchHHHHHHHHHHHHHHHhhhhccchHHHHHHHHHh
Confidence            67799999999999999999998654433320      123344559999999999999998766   345899999999


Q ss_pred             hHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHH
Q psy6333         107 IDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLM  186 (371)
Q Consensus       107 iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~  186 (371)
                      +|.+.++...+.+.....+.            ...+++.++|++|++|-+|.+|.+....+++.+..++.++++.++.++
T Consensus      1197 LDgflv~vsviDilvs~asa------------~g~kILgVlrvLRlLRtlRpLRviSra~glklVveTL~sSLkpIgnIv 1264 (1956)
T KOG2302|consen 1197 LDGFLVAVSVIDILVSQASA------------GGAKILGVLRVLRLLRTLRPLRVISRAPGLKLVVETLISSLKPIGNIV 1264 (1956)
T ss_pred             hhHHHHHHHHHHHHHHHhhh------------hhHHHHHHHHHHHHHHHhhHHHHHhhcccHHHHHHHHHhccccHHHHH
Confidence            99999999988887755432            245677889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhc
Q psy6333         187 LFLAMGVLIFSSLAYFAE  204 (371)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~  204 (371)
                      ++.+.++++|+.++..+.
T Consensus      1265 liccaffiiFgilgvqLF 1282 (1956)
T KOG2302|consen 1265 LICCAFFIIFGILGVQLF 1282 (1956)
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            999999999998886543

>KOG2301|consensus

Probab=99.46  E-value=3.7e-13  Score=143.92  Aligned_cols=185  Identities=20%  Similarity=0.324  Sum_probs=148.7

Q ss_pred             hhHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHH
Q psy6333           7 IDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEY   86 (371)
Q Consensus         7 ~~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~   86 (371)
                      .+.|.+.+++       +.    ++.|++.+.++++++++.++++++++.....        ..+.+++.++.++|++|.
T Consensus      1144 ~~~q~~~~~~-------v~----~~~F~~~i~~li~ln~i~l~~~~~~qs~~~~--------~~l~~in~vft~~Ft~E~ 1204 (1592)
T KOG2301|consen 1144 NKLQGLVFDL-------VT----SQAFDYLIMLLIFLNTIIMMVETYDQSDTYT--------AILTILNAVFIVLFTIEC 1204 (1592)
T ss_pred             chhhhHHHHH-------Hh----hhHHHHHHHHHHHHHHHHHHHhhccchHHHH--------HHHHHHHHHHHHHHHHHH
Confidence            4566777777       33    5669999999999999999999998877655        688999999999999999


Q ss_pred             HHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q psy6333          87 LLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHST  166 (371)
Q Consensus        87 ~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~  166 (371)
                      ++++++... ..|+++.||++|+++++.+++..++......            +.......++.|++|+.|++++.+...
T Consensus      1205 vLKiiA~~~-~~yf~~~WN~FDfvvvIlSIv~~~ls~~~~~------------~~~~~~~~~~~rl~rV~R~l~Li~~~~ 1271 (1592)
T KOG2301|consen 1205 ILKVIALRF-RGYFTSAWNVFDFVVTILSIVGIVLSEAVEK------------YESSPTLLRFLRLFRVGRFLRLIPQAK 1271 (1592)
T ss_pred             HHHHHHhhh-hHhccccchheEeeeeeHhHHHHHHHHHHHh------------hccchhhHHHHHHHHHHHHHHhccccc
Confidence            999886643 5899999999999999998887776543311            000113578999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcc------cCCCCCcCChhhHHHHhh
Q psy6333         167 GLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEK------DEHDTKFVSIPETFWWAG  223 (371)
Q Consensus       167 ~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~s~y~~~  223 (371)
                      +++.+..++..|++.+..+.++++++.++||.+|....+      -++..+|.++..|+---+
T Consensus      1272 ~ir~LL~t~~~Sl~al~~i~lLl~ll~fiYAi~Gmq~Fg~Vkl~~i~~~~NF~tf~~a~i~LF 1334 (1592)
T KOG2301|consen 1272 TIRTLLLTLMMSLPALFFIILLLFLLFFIYAIIGMQLFGYVKLGGINDHNNFRTFPNSMVVLF 1334 (1592)
T ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhheeccccCCCcccccchhheeeee
Confidence            999999999999999999999999999999998875432      235566777776664333

>PRK10537 voltage-gated potassium channel; Provisional

Probab=99.46  E-value=1.3e-12  Score=123.81  Aligned_cols=97  Identities=19%  Similarity=0.320  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhhh-hcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHH------------------
Q psy6333         189 LAMGVLIFSSLAYF-AEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM------------------  249 (371)
Q Consensus       189 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~------------------  249 (371)
                      .+..+++++.++++ .+++. .+.+.++.+|+||+++|+|||||||+.|.|..||++++..+                  
T Consensus       143 ~~~~l~~~~~~g~~~~~~~f-~~~~~s~~dA~y~svvt~tTvGyGdi~p~t~~grl~~i~~ii~Gi~vf~~~is~i~~p~  221 (393)
T PRK10537        143 SITSLLFYSTFGALYLGDGF-SPPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGITVFATSISAIFGPV  221 (393)
T ss_pred             HHHHHHHHHHHHHHHHcccc-CcCCCCHHHHHHhhheeeecccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444566666544 44322 34468999999999999999999999999999999998322                  


Q ss_pred             HHHHHHHHHH-HHHHHhhCCCeEEecccchhhHhhhhc
Q psy6333         250 RREKALKRRE-AMERAKREGSIVSFHHVNLRDAFAKSM  286 (371)
Q Consensus       250 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~  286 (371)
                      ..+...+..+ ......+++|+++||++++++...+.+
T Consensus       222 i~~~l~~~~~~~~~~~~~k~HvII~G~g~lg~~v~~~L  259 (393)
T PRK10537        222 IRGNLKRLVKGRISHMHRKDHFIICGHSPLAINTYLGL  259 (393)
T ss_pred             HHHHHHHHHHhhhhhcccCCeEEEECCChHHHHHHHHH
Confidence            1111111111 112223479999999999877775544

>KOG2302|consensus

Probab=99.40  E-value=2.2e-12  Score=127.84  Aligned_cols=181  Identities=24%  Similarity=0.328  Sum_probs=144.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      +.+.+.++.+++.+|++++..+++.+....+        ..+.+.++.+.++|++|.++++.+++.+ +|++..||-+|+
T Consensus      1440 Shyld~fit~ii~LnvVtms~ehyqqp~sld--------ealkycny~ft~vfV~EaV~klvafG~r-rFfkdrwnqldl 1510 (1956)
T KOG2302|consen 1440 SHYLDQFITFIICLNVVTMSEEHYQQPTSLD--------EALKYCNYRFTAVFVLEAVLKLVAFGER-RFFKDRWNQLDL 1510 (1956)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhCcccHH--------HHhhhcceeeeehhHHHHHHHHHHHhHH-HHHhhhhhhhhH
Confidence            4568899999999999999999988766554        7899999999999999999999988875 899999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy6333         110 LAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFL  189 (371)
Q Consensus       110 i~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~  189 (371)
                      -+++-+++.+.+-+...+          +.+.--..++|++|++|+.|++++++.-.+++.+..+..+.+++++++.+++
T Consensus      1511 aivlls~mgitleeie~n----------aalpinptiirimrvlriarvlkllkmatgmralldtvvqalpqvgnlgllf 1580 (1956)
T KOG2302|consen 1511 AIVLLSVMGITLEEIEIN----------AALPINPTIIRIMRVLRIARVLKLLKMATGMRALLDTVVQALPQVGNLGLLF 1580 (1956)
T ss_pred             HHHHHHHhcccHhheeec----------ccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhHHH
Confidence            999888877766443321          1222223578888899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhccc-----CC-------CCCcCChhhHHHHhhhhhcccccCC
Q psy6333         190 AMGVLIFSSLAYFAEKD-----EH-------DTKFVSIPETFWWAGITMTTVGYGD  233 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~-----~~-------~~~~~~~~~s~y~~~~t~tTvGyGd  233 (371)
                      .+++++||.++.-+.+.     .+       -.+|.+    |-+++.|+.-|..||
T Consensus      1581 mllffiyaalgvelfg~lec~e~npceglsrhatf~n----fgmafltlfrvstgd 1632 (1956)
T KOG2302|consen 1581 MLLFFIYAALGVELFGKLECNEENPCEGLSRHATFEN----FGMAFLTLFRVSTGD 1632 (1956)
T ss_pred             HHHHHHHHHHHHHHhcccccCCCCCccccccccchhh----hchHhhhheeeccCC
Confidence            99999999988744322     11       113333    446788888888888

>KOG0499|consensus

Probab=99.34  E-value=7.3e-11  Score=112.00  Aligned_cols=154  Identities=15%  Similarity=0.194  Sum_probs=98.4

Q ss_pred             ChhHHHHHHHHHHHHHHHHHH-----Hhhccc--------chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhh
Q psy6333          68 NPKLAIVEAVCITWFSVEYLL-----RLGASP--------EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQ  134 (371)
Q Consensus        68 ~~~~~~i~~i~~~iF~~d~~l-----r~~~~~--------~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~  134 (371)
                      .+.|.++|++|++++++|+++     +|...+        .+.+|+++.-+-+|+++++|+.+.++..+..         
T Consensus       260 ~~~Wli~Dy~cDiIYllDmlf~q~Rl~fvrgG~~ik~kndtrk~Yl~sr~FklDllsiLPldllY~~~G~~---------  330 (815)
T KOG0499|consen  260 IHYWLIADYICDIIYLLDMLFIQPRLQFVRGGDIIKDKNDTRKHYLTSRKFKLDLLSILPLDLLYLFFGFN---------  330 (815)
T ss_pred             chhhhhHHHHhhHHHHHHHhhhhhhheeeeCceEEEechHHHHHHHHhhhhhhhHHhhhhHHHHHHHhccc---------
Confidence            467889999999999999986     222222        3679999999999999999998888775443         


Q ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccC---CC--
Q psy6333         135 TRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE---HD--  209 (371)
Q Consensus       135 ~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~---~~--  209 (371)
                                .+.|+-|++++.-++.+.+   .+..+...  ..+..++..+..++..+++-||+.|+...-.   .+  
T Consensus       331 ----------p~wR~~R~lK~~sF~e~~~---~Le~i~s~--~y~~RV~rT~~YmlyilHinacvYY~~SayqglG~~rW  395 (815)
T KOG0499|consen  331 ----------PMWRANRMLKYTSFFEFNH---HLESIMSK--AYIYRVIRTTGYLLYILHINACVYYWASAYQGLGTTRW  395 (815)
T ss_pred             ----------hhhhhhhHHHHHHHHHHHH---HHHHHhcc--hhhhhhHHHHHHHHHHHhhhHHHHHHHHhhccccccee
Confidence                      1223333333222222222   12221111  1112233334444556778888887653211   11  


Q ss_pred             ---CCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHh
Q psy6333         210 ---TKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS  246 (371)
Q Consensus       210 ---~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~  246 (371)
                         .--..|+.++||++-|++|+| |...|.|..+.+|-.
T Consensus       396 Vydg~Gn~YiRCyyfa~kt~~tiG-~~P~P~~~~E~Vf~~  434 (815)
T KOG0499|consen  396 VYDGEGNEYIRCYYFAVKTLITIG-GLPEPQTLFEIVFQL  434 (815)
T ss_pred             EEcCCCCceeeehhhHHHHHHHhc-CCCCcchHHHHHHHH
Confidence               112468999999999999999 999999998887765

>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []

Probab=99.24  E-value=2.3e-11  Score=89.13  Aligned_cols=60  Identities=30%  Similarity=0.531  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++.+++++++.+...+  + ....++.+|+||+++|+|||||||+.|.|+.||++++..+...
T Consensus         3 ~~~~l~~~~~~~~~~~--~-~~~~~~~da~yfs~~t~tTvGyGDi~p~t~~gr~~~~~~~~~G   62 (79)
T PF07885_consen    3 LLLVLAFGAIFFYISE--G-SEKWSFIDALYFSFVTITTVGYGDIVPQTPAGRIFTIIYMLIG   62 (79)
T ss_dssp             HHHHHHHHHHHHHHTT--S-SSTTSHHHHHHHHHHHHTT---SSSSTSSHHHHHHHHHHHHHH
T ss_pred             EEeeeHHHHHHHHHHH--h-cccCCHHHHHHHHHHHHhcccCCCccCCccchHHHHHHHHHHH
Confidence            3445556666665521  1 2258999999999999999999999999999999999666543

; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....

>KOG3193|consensus

Probab=98.87  E-value=7.3e-09  Score=97.78  Aligned_cols=155  Identities=18%  Similarity=0.245  Sum_probs=82.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHhhccc--chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHH
Q psy6333          69 PKLAIVEAVCITWFSVEYLLRLGASP--EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRV  146 (371)
Q Consensus        69 ~~~~~i~~i~~~iF~~d~~lr~~~~~--~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (371)
                      ..+++++..+.++-+..-++-+|.++  .-.+.+.+..++++++..+|+++.++.+...+.        +..-|...+  
T Consensus        90 ~~iw~lq~~~a~is~~~ti~~~yl~ysgsvvrllinihfllelitsfpfii~ifipsltyl--------yvpvflncw--  159 (1087)
T KOG3193|consen   90 FKIWFLQTMFACISMVYTILVFYLSYSGSVVRLLINIHFLLELITSFPFIISIFIPSLTYL--------YVPVFLNCW--  159 (1087)
T ss_pred             chHHHHHHHHHHHHHHHHHHHhhhccccchhhhhhhHHHHHHHhhcccceeeeecccccee--------echhhhhhh--
Confidence            45667777777777777777777655  344667777889999999999988776543221        001111110  


Q ss_pred             HHHHHHHHHHHHHHhhhhhhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhh-hhcccCCCCCcCChhhHHHHhh
Q psy6333         147 VQVFRIMRILRILKLARHSTGLQS-LGFTLRNSYKELGLLMLFLAMGVLIFSS-LAY-FAEKDEHDTKFVSIPETFWWAG  223 (371)
Q Consensus       147 ~~~lrllRllri~~l~~~~~~l~~-l~~~l~~~~~~l~~l~~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~~s~y~~~  223 (371)
                              +.+- .+.-....+.. ....-....+++.++...  +.+++|.+ ++. -+...  ...-.+.++|+||++
T Consensus       160 --------lakg-alqammndl~r~~~~s~sal~~ql~ll~s~--l~clift~~c~i~h~qra--~~k~i~lf~s~y~v~  226 (1087)
T KOG3193|consen  160 --------LAKG-ALQAMMNDLNRKSFISSSALFRQLLLLFSV--LACLIFTGMCSIEHLQRA--RGKRIDLFTSFYFVM  226 (1087)
T ss_pred             --------hhhh-HHHHhhhhHhHHhhhhHHHHHHHHHHHHHH--HHHHHHhhhhhHHHHHHc--cCceeeeeeeEEEEE
Confidence                    0000 00000011110 001111122233222222  22223321 111 11111  111256778999999


Q ss_pred             hhhcccccCCcccCCcchhhHHh
Q psy6333         224 ITMTTVGYGDICPTTPLGKMIGS  246 (371)
Q Consensus       224 ~t~tTvGyGdi~p~t~~~~~~~~  246 (371)
                      +|++||||||.+|.-+..++..+
T Consensus       227 vtfstvgygd~~pd~w~sql~~v  249 (1087)
T KOG3193|consen  227 VTFSTVGYGDWYPDYWASQLCVV  249 (1087)
T ss_pred             EEEeeccccccccccchhhHHHH
Confidence            99999999999999998887655

>PLN03223 Polycystin cation channel protein; Provisional

Probab=98.74  E-value=1.1e-06  Score=91.38  Aligned_cols=78  Identities=15%  Similarity=0.122  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhc
Q psy6333         149 VFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMT  227 (371)
Q Consensus       149 ~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~t  227 (371)
                      ++-+++++|++|++++.+.+..+..++..+.+.++.++++++++++.||.+++++.+... ..|.++..|++-.+..|+
T Consensus      1297 IlIFLsiLKfLRLLRFNPrL~vLt~TLrrAapDLa~F~IIF~IVF~AFAqLG~LLFGt~v-e~FSTf~sSL~TLFqMLL 1374 (1634)
T PLN03223       1297 INIILLLGRILKLMDFQPRLGVITRTLWLAGADLMHFFVIFGMVFVGYAFIGHVIFGNAS-VHFSDMTDSINSLFENLL 1374 (1634)
T ss_pred             HHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCc-hhhcCHHHHHHHHHHHHH
Confidence            344566677888888888999999999999999999999999999999999998877654 368899998887777664

>KOG3684|consensus

Probab=98.61  E-value=2.1e-06  Score=80.13  Aligned_cols=61  Identities=25%  Similarity=0.413  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHHHHHhhhhcccCCC-CCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHh
Q psy6333         186 MLFLAMGVLIFSSLAYFAEKDEHD-TKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS  246 (371)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~  246 (371)
                      +.+.+.++++.+...-++|..... +.-.+|.+|.|...+|+.++||||++|.|..||.+|+
T Consensus       258 ~vftl~~Wii~sW~~~~cER~~~~~~~~~~~~nsmWli~iTFlsiGYGDiVP~TycGr~v~l  319 (489)
T KOG3684|consen  258 LVFTLSLWIIASWMLRQCERYHDSQDVTINYLNSMWLIAITFLSIGYGDIVPNTYCGRGVAL  319 (489)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHhhHHHHHHHHhhcccCcccCCccccchHHH
Confidence            333444444444444455543322 2335799999999999999999999999999999988

>PF08016 PKD_channel: Polycystin cation channel; InterPro: IPR013122 Polycystic kidney diseases (PKD) are disorders characterised by large numbers of cysts distributed throughout grossly-enlarged kidneys

Probab=98.17  E-value=8.9e-05  Score=72.13  Aligned_cols=171  Identities=18%  Similarity=0.225  Sum_probs=101.6

Q ss_pred             HHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCC---------CCchhhhhhhh---hhhhhH
Q psy6333          76 AVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNS---------TSNEQEVQTRT---DQFQDV  143 (371)
Q Consensus        76 ~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~---------~~~~~~~~~~~---~~~~~~  143 (371)
                      .++.++|+..-+.++...+  +.|+++.||++|++.++-.+..+.......         ...++......   ......
T Consensus       218 ~~~~l~~~~~ei~~i~~~g--~~y~~~~WN~~e~~ii~ls~~~i~~~~~~~~~~~~~~~~~~~~~~~fv~f~~~a~~~~~  295 (425)
T PF08016_consen  218 VLFVLYFLYREIKKIRREG--RAYFKSFWNWLELLIILLSLAVIVLYFYRMILASEALKQYRENPRSFVDFQELAQWDQL  295 (425)
T ss_pred             HHHHHHHHHHHHHHHHHhh--hHHhhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCHHHHHHHHHH
Confidence            3444455555555655443  689999999999998876554433321000         00000000000   001111


Q ss_pred             H-HHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHh
Q psy6333         144 R-RVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWA  222 (371)
Q Consensus       144 ~-~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~  222 (371)
                      . .+.-++-++-.+|++++++..+.+..+..++..+...+...+++++++++.||.+++.+.+... ..|.++..|+.-.
T Consensus       296 ~~~l~a~~vfl~~lrll~~l~f~~~~~~~~~tl~~a~~~l~~f~~~~~i~~~~fa~~g~l~fG~~~-~~f~s~~~s~~tl  374 (425)
T PF08016_consen  296 YRYLLAFLVFLLWLRLLKLLRFNRRLSLLSRTLRRAAKDLLGFFVIFLIIFLAFAQAGYLLFGSYS-EDFSSFSSSLVTL  374 (425)
T ss_pred             HHHHHHHHHHHHHHHHhhheeecchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCc-cccCCHHHHHHHH
Confidence            1 1122233334567777777788888999999999999999999999999999999998876533 3578888877766


Q ss_pred             hhhhcc-cccCCcc-cCCcchhhHHhHHH
Q psy6333         223 GITMTT-VGYGDIC-PTTPLGKMIGSNQM  249 (371)
Q Consensus       223 ~~t~tT-vGyGdi~-p~t~~~~~~~~~~~  249 (371)
                      +.++.+ .+|+|+. +....|.++-...+
T Consensus       375 ~~~l~g~~~~~~~~~~~~~lg~l~~~~~~  403 (425)
T PF08016_consen  375 FRMLLGDFDYDELYQANPVLGPLFFFSFM  403 (425)
T ss_pred             HHHhcCCCchhhhhcccccHHHHHHHHHH
Confidence            555533 4555552 33344555544333

Cyst development is associated with impairment of kidney function, and ultimately kidney failure and death []. Most cases of autosomal dominant PKD result from mutations in the PKD1 gene that cause premature protein termination. A second gene for autosomal dominant polycystic kidney disease has been identified by positional cloning []. The predicted 968-amino acid sequence of the PKD2 gene product (polycystin-2) contains 6 transmembrane domains, with intracellular N- and C-termini. Polycystin-2 shares some similarity with the family of voltage-activated calcium (and sodium) channels, and contains a potential calcium-binding domain. Polycystin-2 is strongly expressed in ovary, foetal and adult kidney, testis, and small intestine. Polycystin-1 requires the presence of this protein for stable expression and is believed to interact with it via its C terminus. All mutations between exons 1 and 11 result in a truncated polycystin-2 that lacks a calcium-binding EF-hand domain and the cytoplasmic domains required for the interaction of polycystin-2 with polycystin-1 []. PKD2, although clinically milder than PKD1, has a deleterious impact on life expectancy. This entry contains proteins belonging to the polycystin family including Mucolipin and Polycystin-1 and -2 (PKD1 and PKD2). The domain contains the cation channel region of PKD1 and PKD2 proteins. PKD1 and PKD2 may function through a common signalling pathway that is necessary for normal tubulogenesis. The PKD2 gene product has six transmembrane spans with intracellular amino- and carboxyl-termini []. Mucolipin is a cationic channel which probably plays a role in the endocytic pathway and in the control of membrane trafficking of proteins and lipids. It could play a major role in the calcium ion transport regulating lysosomal exocytosis [, , ].

>KOG4404|consensus

Probab=98.12  E-value=1.8e-06  Score=77.14  Aligned_cols=27  Identities=30%  Similarity=0.573  Sum_probs=25.2

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCc
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTP  239 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~  239 (371)
                      ++|+||+|++++|+||+|+||.++...
T Consensus       185 Wsyfds~YyCFITltTIGFGDyValQ~  211 (350)
T KOG4404|consen  185 WSYFDSYYYCFITLTTIGFGDYVALQQ  211 (350)
T ss_pred             cchhhhhheeeeeeeeccccchhhhcc
Confidence            899999999999999999999988755

>KOG1418|consensus

Probab=97.96  E-value=2.8e-05  Score=75.36  Aligned_cols=39  Identities=31%  Similarity=0.549  Sum_probs=35.6

Q ss_pred             CCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHh
Q psy6333         208 HDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS  246 (371)
Q Consensus       208 ~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~  246 (371)
                      .....+++..|+||+++++||+|||+++|.|..||++++
T Consensus       109 ~~~~~W~f~~al~fs~tv~TTIGYG~i~P~T~~Gr~~~i  147 (433)
T KOG1418|consen  109 PDTQQWSFSSALLFSITVITTIGYGNIAPRTDAGRLFTI  147 (433)
T ss_pred             CCCcceecchhHhhhhheeeeccCCcccCCcCcchhHHH
Confidence            344457999999999999999999999999999999999

>PF01007 IRK: Inward rectifier potassium channel; InterPro: IPR013521 Potassium channels are the most diverse group of the ion channel family [, ]

Probab=97.88  E-value=2.5e-05  Score=72.68  Aligned_cols=40  Identities=28%  Similarity=0.399  Sum_probs=28.2

Q ss_pred             CcCChhhHHHHhhhhhcccccCC--cccCCcchhhHHhHHHH
Q psy6333         211 KFVSIPETFWWAGITMTTVGYGD--ICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       211 ~~~~~~~s~y~~~~t~tTvGyGd--i~p~t~~~~~~~~~~~~  250 (371)
                      +..+|.+||+|++.|+||||||.  ++|..+.+-++.+.++.
T Consensus        81 ~~~~f~~aF~FSveT~tTIGYG~~~~~~~c~~a~~l~~~q~~  122 (336)
T PF01007_consen   81 NVNSFTSAFLFSVETQTTIGYGSRYPTPECPYAIFLVTIQSL  122 (336)
T ss_dssp             T-TTHHHHHHHHHHHHTT---SSSEB-CSHHHHHHHHHHHHH
T ss_pred             cccchhhheeEEEEEEEEeccCCcccCCCcchhHHHHHHHHH
Confidence            34689999999999999999998  67888877776664433

They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. Inwardly-rectifying potassium channels (Kir) are the principal class of two-TM domain potassium channels. They are characterised by the property of inward-rectification, which is described as the ability to allow large inward currents and smaller outward currents. Inwardly rectifying potassium channels (Kir) are responsible for regulating diverse processes including: cellular excitability, vascular tone, heart rate, renal salt flow, and insulin release []. To date, around twenty members of this superfamily have been cloned, which can be grouped into six families by sequence similarity, and these are designated Kir1.x-6.x [, ]. Cloned Kir channel cDNAs encode proteins of between ~370-500 residues, both N- and C-termini are thought to be cytoplasmic, and the N terminus lacks a signal sequence. Kir channel alpha subunits possess only 2TM domains linked with a P-domain. Thus, Kir channels share similarity with the fifth and sixth domains, and P-domain of the other families. It is thought that four Kir subunits assemble to form a tetrameric channel complex, which may be hetero- or homomeric [].; PDB: 3AT9_A 3AUW_D 3SYA_A 3ATE_A 3SYQ_A 3SYO_A 3ATB_A 3SYC_A 3AT8_A 3ATA_A ....

>KOG3599|consensus

Probab=97.87  E-value=0.00054  Score=70.59  Aligned_cols=168  Identities=17%  Similarity=0.293  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCch-------------hhhhhhhhh
Q psy6333          73 IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNE-------------QEVQTRTDQ  139 (371)
Q Consensus        73 ~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~-------------~~~~~~~~~  139 (371)
                      ++-+++.++|+++-+.++.- ...++|+++.||++|+..+.-.++.+.+.........             -.+.....+
T Consensus       470 vvf~l~~~yf~~~e~~~i~~-~~~~~y~~s~wN~ld~~i~~ls~~~~~~~~~r~~l~~~~l~~~~~~~~~~f~~F~~~a~  548 (798)
T KOG3599|consen  470 VVFLLFVLYFAVAEGLKIWI-HRLGRYVRSKWNWLDLAIVLLSVVLLVLMITRTGLADGVLTGFERASPRTFIDFTEVAQ  548 (798)
T ss_pred             HHHHHHHHHHHHHHHHHHHH-hhHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccCHHHHHH
Confidence            33344455566666666553 2234899999999999998777665554322210000             000011111


Q ss_pred             hhhHHHHHH-HHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhH
Q psy6333         140 FQDVRRVVQ-VFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPET  218 (371)
Q Consensus       140 ~~~~~~~~~-~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  218 (371)
                      +..+.+.+. ++-++-.+++++.+++...++.+..++..+.+.++...+.++++.+.+|.+++++.+..-. +|.++.+ 
T Consensus       549 ~~~~~~~l~a~lvfl~tiK~~k~l~f~~t~~~~s~TL~ra~~~I~gf~l~~~I~~~aya~l~~llfG~~v~-~f~~f~~-  626 (798)
T KOG3599|consen  549 WNIAARNLLAFLVFLTTIKLWKVLRFNKTMSQFSSTLSRAWKEIVGFALMFLILFFAYAQLGYLLFGNQVS-DFRTFVA-  626 (798)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccC-ChHHHHH-
Confidence            111112111 2233345677778888888999999999999999999888888899999999988775322 2445544 


Q ss_pred             HHHhhhhhcccccCCcccCCc--chhhHHh
Q psy6333         219 FWWAGITMTTVGYGDICPTTP--LGKMIGS  246 (371)
Q Consensus       219 ~y~~~~t~tTvGyGdi~p~t~--~~~~~~~  246 (371)
                         +++|+...-.||..|.+.  .+++++.
T Consensus       627 ---s~~t~~~~~~G~~~~~~i~~~~r~LG~  653 (798)
T KOG3599|consen  627 ---SIVTLLRYILGDFCPAEIFHANRILGP  653 (798)
T ss_pred             ---HHHHHHHHHhccCCccccccCCchHHH
Confidence               455554433456666543  3666666

>TIGR00870 trp transient-receptor-potential calcium channel protein

Probab=97.49  E-value=0.0052  Score=64.29  Aligned_cols=45  Identities=9%  Similarity=0.054  Sum_probs=27.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHH
Q psy6333          70 KLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPY  115 (371)
Q Consensus        70 ~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~  115 (371)
                      +..++.......|.++-...++..+ ...|+++.||++|++....+
T Consensus       390 ~~e~~~~~~~~~~~~~e~~~~~~~g-~~~y~~~~wn~~d~~~~~~~  434 (743)
T TIGR00870       390 PLEMLIVTWVDGLRLGEEKLIWLGG-IFEYIHQLWNILDFGMNSFY  434 (743)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence            3344444444455555555555443 34799999999999655433

after chronic exposure to capsaicin. (McCleskey and Gold, 1999).

>KOG4404|consensus

Probab=97.47  E-value=8.2e-05  Score=66.79  Aligned_cols=35  Identities=31%  Similarity=0.518  Sum_probs=33.1

Q ss_pred             cCChhhHHHHhhhhhcccccCCcccCCcchhhHHh
Q psy6333         212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS  246 (371)
Q Consensus       212 ~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~  246 (371)
                      .+.+.-||||+.+.+||||||--+|.|..|++|++
T Consensus        78 qWkF~GaFYFa~TVItTIGyGhstP~T~~GK~Fcm  112 (350)
T KOG4404|consen   78 QWKFAGAFYFATTVITTIGYGHSTPSTDGGKAFCM  112 (350)
T ss_pred             ccccCcceEEEEEEEeeeccCCCCCCCcCceehhh
Confidence            46788999999999999999999999999999999

>KOG1418|consensus

Probab=96.70  E-value=5.8e-05  Score=73.17  Aligned_cols=31  Identities=45%  Similarity=0.846  Sum_probs=29.0

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhh
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKM  243 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~  243 (371)
                      .+|++|+||+++++|||||||++|.+..++.
T Consensus       241 w~f~~~~Yf~fisltTIG~GD~vp~~~~~~~  271 (433)
T KOG1418|consen  241 WSFIEAFYFSFISLTTIGFGDIVPRTLLGRF  271 (433)
T ss_pred             eeeEeeeeEEEEEeeeecCCccccCCCccee
Confidence            7899999999999999999999999998774

>KOG3609|consensus

Probab=96.46  E-value=0.18  Score=51.53  Aligned_cols=39  Identities=18%  Similarity=0.045  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHH
Q psy6333          80 TWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISL  119 (371)
Q Consensus        80 ~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~  119 (371)
                      +-++.+=+-.++..+ ...|++..||++|++.+.-+...+
T Consensus       395 ~G~iw~E~k~lw~~G-~~~y~~~~Wn~lDf~m~siyl~s~  433 (822)
T KOG3609|consen  395 MGLIWEEIKELWRVG-RDGYLAFWWNWLDFAMISIYLASF  433 (822)
T ss_pred             HHHHHHHHHHHHhcc-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            335555566666554 458999999999998876654443

>KOG3614|consensus

Probab=96.22  E-value=0.031  Score=59.43  Aligned_cols=50  Identities=24%  Similarity=0.240  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHHHHHHhhcccc------hhhhhcccchhhHHHHHHHHHHHHHH
Q psy6333          72 AIVEAVCITWFSVEYLLRLGASPE------KWKFFKGGLNVIDLLAIMPYYISLFL  121 (371)
Q Consensus        72 ~~i~~i~~~iF~~d~~lr~~~~~~------~~~y~~~~~~~iDli~vip~~i~~~~  121 (371)
                      .++-++..+-+.+|-+=..+....      -.-|+..+||++|+++++-+++.++.
T Consensus       825 Ew~~~~~iftl~~E~vRq~~~se~~~l~~kv~v~f~d~wN~~d~~ai~~F~vG~~~  880 (1381)
T KOG3614|consen  825 EWILFAWIFTLFLEEVRQIFISESGLLPQKVRVYFADFWNLIDLLAILLFLVGPVL  880 (1381)
T ss_pred             chhHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhhee
Confidence            333344444455676666655432      12489999999999999999887765

>KOG2572|consensus

Probab=95.68  E-value=0.05  Score=50.56  Aligned_cols=27  Identities=26%  Similarity=0.303  Sum_probs=17.7

Q ss_pred             hhHHHHhhhhh-cccccCCcccCCcchh
Q psy6333         216 PETFWWAGITM-TTVGYGDICPTTPLGK  242 (371)
Q Consensus       216 ~~s~y~~~~t~-tTvGyGdi~p~t~~~~  242 (371)
                      --|+|-+.-|= .|=+||=|+-.+.+|+
T Consensus       320 EKALFrALKtk~~TPKYGLIyhasLVgQ  347 (498)
T KOG2572|consen  320 EKALFRALKTKHDTPKYGLIYHASLVGQ  347 (498)
T ss_pred             HHHHHHHHhcccCCCCCcceeccchhcc
Confidence            35777777776 4678887765555444

>KOG0510|consensus

Probab=95.66  E-value=0.47  Score=48.45  Aligned_cols=118  Identities=13%  Similarity=0.100  Sum_probs=64.1

Q ss_pred             chhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHH
Q psy6333          95 EKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFT  174 (371)
Q Consensus        95 ~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~  174 (371)
                      .+.+|+.+.-|++|.+.....++........          .+..+.....  .+.-++--++++-+++.++........
T Consensus       587 qk~~Y~~~i~Nimew~iyts~li~v~~~~~~----------~~~~~Q~~la--a~aV~l~W~nllLmi~~~p~~gIfvvM  654 (929)
T KOG0510|consen  587 QKRHYFMDIENIMEWFIYTSALITVYPLFFE----------ITAHLQWVLA--AFAVLLGWMNLLLMIGRFPVFGIFVVM  654 (929)
T ss_pred             HHHHHHhhhHHHHHHHHHhhhhheeehhhhh----------hHHHHHHHHH--HHHHHHHHHHHHHHHccCCccceehHH
Confidence            3579999999999998877665544332110          0111111111  111222233444444444444444445


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhh
Q psy6333         175 LRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITM  226 (371)
Q Consensus       175 l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~  226 (371)
                      +......++....+..++++.|+..+|.+.+..++  |.+.+-|+--+++.|
T Consensus       655 ~~~I~ktflk~f~vfs~lliaF~lsFYVll~~~~e--Fs~p~ms~l~t~~MM  704 (929)
T KOG0510|consen  655 LEVILKTFLKSFMVFSILLIAFGLSFYVLLNKSSE--FSNPFMSKLETFVMM  704 (929)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhheeeecCCCC--cCCCcchhhhhHHHh
Confidence            55566666777777777788888888877654433  455555554444443

>KOG3533|consensus

Probab=95.44  E-value=0.83  Score=49.06  Aligned_cols=46  Identities=20%  Similarity=0.223  Sum_probs=29.5

Q ss_pred             HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy6333         159 LKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAE  204 (371)
Q Consensus       159 ~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~  204 (371)
                      +.++-.-..+.++..+...--+.+.+..++.++++++|+.++|++.
T Consensus      2399 FDliyrEETL~NVIkSVTRNgrSIvlTa~LALILvYlFSIiGflff 2444 (2706)
T KOG3533|consen 2399 FDLIYREETLQNVIKSVTRNGRSIVLTALLALILVYLFSILGFLFF 2444 (2706)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCceeHHHHHHHHHHHHHHHHHHHHhc
Confidence            3334334444555444444455667777788888899999998764

>KOG3827|consensus

Probab=95.04  E-value=0.051  Score=50.45  Aligned_cols=51  Identities=22%  Similarity=0.275  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHHHhhhhccc-------CCC-------CCcCChhhHHHHhhhhhcccccCCcccCC
Q psy6333         188 FLAMGVLIFSSLAYFAEKD-------EHD-------TKFVSIPETFWWAGITMTTVGYGDICPTT  238 (371)
Q Consensus       188 ~~~~~~~~~~~~~~~~~~~-------~~~-------~~~~~~~~s~y~~~~t~tTvGyGdi~p~t  238 (371)
                      -.++.+++||.++|.+...       .++       .+..++..||-|++-|=||+|||--.+..
T Consensus        72 sf~~SWl~Fg~iwwlIA~~hGDL~~~~~~~~~tpCV~nV~sf~sAFLFSiETQtTIGYG~R~vTe  136 (400)
T KOG3827|consen   72 SFVLSWLFFGVIWWLIAYAHGDLEPDPPGENHTPCVMNVHSFTSAFLFSIETQTTIGYGFRYVTE  136 (400)
T ss_pred             HHHHHHHHHHHHHHHHHHhhCCcccCCCCcCCCcceeeccchhhhheeeeeeeeeeeccccccCc
Confidence            3445577788888865311       111       24568899999999999999999755443

>PRK00247 putative inner membrane protein translocase component YidC; Validated

Probab=94.40  E-value=4.2  Score=39.27  Aligned_cols=14  Identities=14%  Similarity=0.373  Sum_probs=9.3

Q ss_pred             hHHHHhhhhhcccc
Q psy6333         217 ETFWWAGITMTTVG  230 (371)
Q Consensus       217 ~s~y~~~~t~tTvG  230 (371)
                      -.+||++.++.|+|
T Consensus       251 llLYWv~snlwtl~  264 (429)
T PRK00247        251 IALYWVANNLWTLI  264 (429)
T ss_pred             HHHHHHHhhHHHHH
Confidence            45677777776655

>KOG2573|consensus

Probab=94.02  E-value=0.15  Score=47.49  Aligned_cols=28  Identities=25%  Similarity=0.258  Sum_probs=20.2

Q ss_pred             hHHHHhhhhh-cccccCCcccCCcchhhH
Q psy6333         217 ETFWWAGITM-TTVGYGDICPTTPLGKMI  244 (371)
Q Consensus       217 ~s~y~~~~t~-tTvGyGdi~p~t~~~~~~  244 (371)
                      -|++-++-|= -|=-||=|.-.+..||.-
T Consensus       335 KALFRALKtrgnTPKYGLIyhSsfigrA~  363 (498)
T KOG2573|consen  335 KALFRALKTRGNTPKYGLIYHSSFIGRAG  363 (498)
T ss_pred             HHHHHHHHhcCCCCCceeEeecchhhhhh
Confidence            5777777666 356688888888887753

>KOG3676|consensus

Probab=93.88  E-value=8.9  Score=39.51  Aligned_cols=61  Identities=18%  Similarity=0.187  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccCCCC-----------CcCChhhHHHHhhhhh--cccccCCcccCCc
Q psy6333         179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDT-----------KFVSIPETFWWAGITM--TTVGYGDICPTTP  239 (371)
Q Consensus       179 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~s~y~~~~t~--tTvGyGdi~p~t~  239 (371)
                      ...+...+++-+++++.||..+|.+....+++           .-.+..+++..++.|+  .|+||||......
T Consensus       540 ~~DL~RF~~IY~Vfl~GFsqAfy~if~~~~~~~~~~~~~~~~~~m~~~~ds~~~~~l~lf~ftig~~dl~~~~~  613 (782)
T KOG3676|consen  540 FGDLFRFLLIYLVFLVGFSQAFYSIFQTCDRDSSPNDKNVESNPMCNPYDSFSTFLLTLFEFTIGMGDLEACEN  613 (782)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcccccccccccccccCChhhHHHHHHHHHHHHhhhhhhhhhccc
Confidence            34455666666677777887777654433222           2234556677667666  6999999665544

>PLN03223 Polycystin cation channel protein; Provisional

Probab=91.20  E-value=10  Score=41.61  Aligned_cols=49  Identities=20%  Similarity=0.310  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcc----cchhhhhcccchhhHHHHHHHHHHHH
Q psy6333          71 LAIVEAVCITWFSVEYLLRLGAS----PEKWKFFKGGLNVIDLLAIMPYYISL  119 (371)
Q Consensus        71 ~~~i~~i~~~iF~~d~~lr~~~~----~~~~~y~~~~~~~iDli~vip~~i~~  119 (371)
                      +.++-.++.++|++.=+.+++..    +.++.||+++||++|++.++-.+..+
T Consensus      1178 cEIIFVLFILYfIyrEIkEI~k~KK~RG~~laYFKSfWNwLEIl~IlLS~AAI 1230 (1634)
T PLN03223       1178 MEILLAIGAVYSVYEEAMDFGSSKKTRGSYLAYFLSGWNYVDFASIGLHLATI 1230 (1634)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhcccchhhHhccchHHHHHHHHHHHHHHH
Confidence            33444444555566666665532    35688999999999998876654443

>PF00520 Ion_trans: Ion transport protein calcium channel signature potassium channel signature sodium channel signature; InterPro: IPR005821 This group of proteins is found in sodium, potassium, and calcium ion channels proteins

Probab=90.95  E-value=5.7  Score=33.32  Aligned_cols=25  Identities=12%  Similarity=-0.005  Sum_probs=18.7

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHhhc
Q psy6333          68 NPKLAIVEAVCITWFSVEYLLRLGA   92 (371)
Q Consensus        68 ~~~~~~i~~i~~~iF~~d~~lr~~~   92 (371)
                      ...+.++|.+..+...+++++....
T Consensus        30 ~~~~~~~d~~~~~~~~~~~~~~~~~   54 (200)
T PF00520_consen   30 RSWWNWFDFISVIPSIVSVILRSYG   54 (200)
T ss_dssp             CSHHHHHHHHHHHHHCCHHCCHCSS
T ss_pred             cChhhcccccccccccccccccccc
Confidence            4677889988888877777777554

The proteins have 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some Na channels proteins the domain is repeated four times, whereas in others (e.g. K channels) the protein forms a tetramer in the membrane. A bacterial structure of the protein is known for the last two helices but is not included in the Pfam family due to it lacking the first four helices. ; GO: 0005216 ion channel activity, 0006811 ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3VMX_B 1QG9_A 1UJL_A 2LE7_A 2LCM_A 3A2A_A 3RW0_A 4EKW_A 3RVY_B 3RVZ_B ....

>KOG2573|consensus

Probab=89.59  E-value=0.089  Score=48.99  Aligned_cols=14  Identities=14%  Similarity=-0.050  Sum_probs=7.7

Q ss_pred             HHHHHHHHHHHHHH
Q psy6333          75 EAVCITWFSVEYLL   88 (371)
Q Consensus        75 ~~i~~~iF~~d~~l   88 (371)
                      ++++..++++|-+=
T Consensus       167 nmvIqaI~lLDqlD  180 (498)
T KOG2573|consen  167 NMVIQAIALLDQLD  180 (498)
T ss_pred             hHHHHHHHHHHHHh
Confidence            44555666666543

>COG4499 Predicted membrane protein [Function unknown]

Probab=88.58  E-value=0.68  Score=43.20  Aligned_cols=8  Identities=13%  Similarity=0.119  Sum_probs=3.3

Q ss_pred             CCcccCCc
Q psy6333         232 GDICPTTP  239 (371)
Q Consensus       232 Gdi~p~t~  239 (371)
                      .+..|...
T Consensus       272 e~ydp~kl  279 (434)
T COG4499         272 ENYDPEKL  279 (434)
T ss_pred             ccCChhhC
Confidence            34444433

>KOG3713|consensus

Probab=87.91  E-value=15  Score=35.86  Aligned_cols=59  Identities=20%  Similarity=0.245  Sum_probs=34.5

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcc
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGAS   93 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~   93 (371)
                      ...+.++-.++|+..++=+.+-.........     .....+.++|++..+-|-+|+++.....
T Consensus       239 ~p~l~~vE~vCi~WFT~E~llR~~~~P~k~~-----F~k~pLNIIDllAIlPFYielll~~~~~  297 (477)
T KOG3713|consen  239 HPILTYVETVCIAWFTFEYLLRFLVAPNKLE-----FFKSPLNIIDLLAILPFYLELLLTLFGG  297 (477)
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHcCchHHH-----HHhCcchHHHHHHHHHHHHHHHHHHhcc
Confidence            4555666666666555544333322211100     0035678999998888999998886654

>PRK00247 putative inner membrane protein translocase component YidC; Validated

Probab=87.73  E-value=17  Score=35.28  Aligned_cols=16  Identities=19%  Similarity=0.569  Sum_probs=8.2

Q ss_pred             hhHHHHHHHHHHHHHH
Q psy6333         106 VIDLLAIMPYYISLFL  121 (371)
Q Consensus       106 ~iDli~vip~~i~~~~  121 (371)
                      .+-+++-+|+++.++.
T Consensus       106 cLP~LIQiPIfigLy~  121 (429)
T PRK00247        106 CVPALIQIPVFLGLYQ  121 (429)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3444455666555544

>PLN03192 Voltage-dependent potassium channel; Provisional

Probab=87.23  E-value=11  Score=40.11  Aligned_cols=20  Identities=10%  Similarity=0.390  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHHHHHHhhhh
Q psy6333         145 RVVQVFRIMRILRILKLARH  164 (371)
Q Consensus       145 ~~~~~lrllRllri~~l~~~  164 (371)
                      +++|++|+.|+.+++.....
T Consensus       172 ~llrl~Rl~ri~~~~~~le~  191 (823)
T PLN03192        172 GLLRFWRLRRVKQLFTRLEK  191 (823)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            55667777777666665543

>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function

Probab=86.74  E-value=2.4  Score=39.60  Aligned_cols=6  Identities=33%  Similarity=0.711  Sum_probs=2.3

Q ss_pred             HHHHHH
Q psy6333         108 DLLAIM  113 (371)
Q Consensus       108 Dli~vi  113 (371)
                      |+++.+
T Consensus        93 dl~~~l   98 (321)
T PF07946_consen   93 DLFSWL   98 (321)
T ss_pred             CHHHHH
Confidence            443333

One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.

>KOG1545|consensus

Probab=86.25  E-value=4.1  Score=37.94  Aligned_cols=38  Identities=16%  Similarity=0.391  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Q psy6333         143 VRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKE  181 (371)
Q Consensus       143 ~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~  181 (371)
                      ...-+-++|++|+.|++|+.+.+..-..+ +.+-+.++.
T Consensus       319 qaMSlAILRViRLVRVFRIFKLSRHSkGL-QILGqTl~a  356 (507)
T KOG1545|consen  319 QAMSLAILRVIRLVRVFRIFKLSRHSKGL-QILGQTLRA  356 (507)
T ss_pred             hhhhHHHHHHHHHHHHhhheeeccccchH-HHHHHHHHH
Confidence            33446677777777777777665554433 344444433

>KOG3599|consensus

Probab=85.85  E-value=25  Score=37.06  Aligned_cols=26  Identities=12%  Similarity=0.105  Sum_probs=19.1

Q ss_pred             ChhHHHHHHHHHHHHHHHHHHHhhcc
Q psy6333          68 NPKLAIVEAVCITWFSVEYLLRLGAS   93 (371)
Q Consensus        68 ~~~~~~i~~i~~~iF~~d~~lr~~~~   93 (371)
                      ...+.++|.++.++.++-+++..+..
T Consensus       497 ~s~wN~ld~~i~~ls~~~~~~~~~r~  522 (798)
T KOG3599|consen  497 RSKWNWLDLAIVLLSVVLLVLMITRT  522 (798)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35678888888888777777776544

>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed

Probab=85.25  E-value=20  Score=30.43  Aligned_cols=21  Identities=10%  Similarity=0.233  Sum_probs=11.0

Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q psy6333         182 LGLLMLFLAMGVLIFSSLAYF  202 (371)
Q Consensus       182 l~~l~~~~~~~~~~~~~~~~~  202 (371)
                      +..+++++..++++.|.++.+
T Consensus         8 I~~vLLliG~~f~ligaIGLl   28 (197)
T PRK12585          8 IISIMILIGGLLSILAAIGVI   28 (197)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            334444555555555666654

>KOG2412|consensus

Probab=80.89  E-value=17  Score=35.85  Aligned_cols=16  Identities=25%  Similarity=0.125  Sum_probs=8.7

Q ss_pred             chhhHHHHHHHHHHHH
Q psy6333         104 LNVIDLLAIMPYYISL  119 (371)
Q Consensus       104 ~~~iDli~vip~~i~~  119 (371)
                      |++-|+.+.+....--
T Consensus        24 ~~fpdl~a~~as~~~~   39 (591)
T KOG2412|consen   24 WNFPDLVAEIASVEKK   39 (591)
T ss_pred             CCchhHHHHhhhhhhh
Confidence            4555666665554433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	371
2r9r_B	514	Shaker Family Voltage Dependent Potassium Channel (		1e-47
3lnm_B	514	F233w Mutant Of The Kv2.1 Paddle-Kv1.2 Chimera Chan		8e-47
2a79_B	499	Mammalian Shaker Kv1.2 Potassium Channel- Beta Subu		1e-43
3lut_B	499	A Structural Model For The Full-Length Shaker Potas		1e-43
3beh_A	355	Structure Of A Bacterial Cyclic Nucleotide Regulate		9e-10
1orq_C	223	X-Ray Structure Of A Voltage-Dependent Potassium Ch		9e-08
2a0l_A	241	Crystal Structure Of Kvap-33h1 Fv Complex Length =		1e-07
3stz_C	102	Kcsa Potassium Channel Mutant Y82c With Nitroxide S		3e-07
3stl_C	103	Kcsa Potassium Channel Mutant Y82c With Cadmium Bou		3e-07
3pjs_K	166	Mechanism Of Activation Gating In The Full-Length K		7e-07
4h33_A	137	Crystal Structure Of A Voltage-gated K+ Channel Por		9e-07
3ogc_C	131	Kcsa E71a Variant In Presence Of Na+ Length = 131		2e-06
3or7_C	103	On The Structural Basis Of Modal Gating Behavior In		2e-06
3eff_K	139	The Crystal Structure Of Full-Length Kcsa In Its Cl		2e-06
2atk_C	124	Structure Of A Mutant Kcsa K+ Channel Length = 124		4e-06
2a9h_A	155	Nmr Structural Studies Of A Potassium Channel Chary		5e-06
3ifx_A	129	Crystal Structure Of The Spin-Labeled Kcsa Mutant V		6e-06
3hpl_C	124	Kcsa E71h-F103a Mutant In The Closed State Length =		7e-06
1k4d_C	124	Potassium Channel Kcsa-Fab Complex In Low Concentra		9e-06
1zwi_C	103	Structure Of Mutant Kcsa Potassium Channel Length =		9e-06
1jvm_A	125	Kcsa Potassium Channel With Tba (Tetrabutylammonium		1e-05
2jk5_C	124	Potassium Channel Kcsa In Complex With Tetrabutylam		1e-05
1j95_A	125	Kcsa Potassium Channel With Tba (Tetrabutylammonium		1e-05
2p7t_C	103	Crystal Structure Of Kcsa Mutant Length = 103		1e-05
3or6_C	103	On The Structural Basis Of Modal Gating Behavior In		1e-05
1s5h_C	124	Potassium Channel Kcsa-Fab Complex T75c Mutant In K		1e-05
2ih1_C	122	Ion Selectivity In A Semi-Synthetic K+ Channel Lock		2e-05
2hjf_C	103	Potassium Channel Kcsa-Fab Complex With Tetrabutyla		2e-05
2nlj_C	124	Potassium Channel Kcsa(M96v)-Fab Complex In Kcl Len		2e-05
1bl8_A	97	Potassium Channel (Kcsa) From Streptomyces Lividans		2e-05
3f5w_C	104	Kcsa Potassium Channel In The Open-Inactivated Stat		3e-05
1f6g_A	160	Potassium Channel (Kcsa) Full-Length Fold Length =		5e-05

>pdb|2R9R|B Chain B, Shaker Family Voltage Dependent Potassium Channel (Kv1.2-Kv2.1 Paddle Chimera Channel) In Association With Beta Subunit Length = 514

Iteration: 1
 Score =  187 bits (474), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 92/174 (52%), Positives = 121/174 (69%), Gaps = 9/174 (5%)
Query: 73  IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 132
           IVE +CI WFS E+L+R  A P K  FF   +N+ID++AI+PYY+++FL ESN +  + +
Sbjct: 243 IVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYVTIFLTESNKSVLQFQ 302
Query: 133 VQTRTXXXXXXXXXXXXXXIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMG 192
              R               IMRILRI KL+RHS GLQ LG TL+ S +ELGLL+ FL +G
Sbjct: 303 NVRRVVQIFR---------IMRILRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIG 353
Query: 193 VLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
           V++FSS  YFAE DE D++F SIP+ FWWA ++MTTVGYGD+ PTT  GK++GS
Sbjct: 354 VILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 407

>pdb|3LNM|B Chain B, F233w Mutant Of The Kv2.1 Paddle-Kv1.2 Chimera Channel Length = 514

Iteration: 1
 Score =  184 bits (467), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 91/174 (52%), Positives = 121/174 (69%), Gaps = 9/174 (5%)
Query: 73  IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 132
           IVE +CI W+S E+L+R  A P K  FF   +N+ID++AI+PYY+++FL ESN +  + +
Sbjct: 243 IVETLCIIWWSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYVTIFLTESNKSVLQFQ 302
Query: 133 VQTRTXXXXXXXXXXXXXXIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMG 192
              R               IMRILRI KL+RHS GLQ LG TL+ S +ELGLL+ FL +G
Sbjct: 303 NVRRVVQIFR---------IMRILRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIG 353
Query: 193 VLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
           V++FSS  YFAE DE D++F SIP+ FWWA ++MTTVGYGD+ PTT  GK++GS
Sbjct: 354 VILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 407

>pdb|2A79|B Chain B, Mammalian Shaker Kv1.2 Potassium Channel- Beta Subunit Complex Length = 499

Iteration: 1
 Score =  173 bits (439), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 85/174 (48%), Positives = 116/174 (66%), Gaps = 5/174 (2%)
Query: 73  IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 132
           IVE +CI WFS E+L+R  A P K  FF   +N+ID++AI+PY+I+L    +    + Q+
Sbjct: 224 IVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYFITLGTELAEKPEDAQQ 283
Query: 133 VQTRTXXXXXXXXXXXXXXIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMG 192
            Q                 ++R+ RI KL+RHS GLQ LG TL+ S +ELGLL+ FL +G
Sbjct: 284 GQQ-----AMSLAILRVIRLVRVFRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIG 338
Query: 193 VLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
           V++FSS  YFAE DE D++F SIP+ FWWA ++MTTVGYGD+ PTT  GK++GS
Sbjct: 339 VILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 392

>pdb|3LUT|B Chain B, A Structural Model For The Full-Length Shaker Potassium Channel Kv1.2 Length = 499

Iteration: 1
 Score =  173 bits (439), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 85/174 (48%), Positives = 116/174 (66%), Gaps = 5/174 (2%)
Query: 73  IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 132
           IVE +CI WFS E+L+R  A P K  FF   +N+ID++AI+PY+I+L    +    + Q+
Sbjct: 224 IVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYFITLGTELAEKPEDAQQ 283
Query: 133 VQTRTXXXXXXXXXXXXXXIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMG 192
            Q                 ++R+ RI KL+RHS GLQ LG TL+ S +ELGLL+ FL +G
Sbjct: 284 GQQ-----AMSLAILRVIRLVRVFRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIG 338
Query: 193 VLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
           V++FSS  YFAE DE D++F SIP+ FWWA ++MTTVGYGD+ PTT  GK++GS
Sbjct: 339 VILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGS 392

>pdb|3BEH|A Chain A, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion Channel Length = 355

Iteration: 1
 Score = 61.2 bits (147), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 36/90 (40%), Positives = 51/90 (56%), Gaps = 6/90 (6%)
Query: 158 ILKLARHSTGLQSLGFTLRNSYKEL-GLLMLFLAMGVLIFSSL--AYFAEKDEHDTKFVS 214
           +LK  R ST    LG  L N  + L G+  LF   GV++F+    AY  E+D    KF S
Sbjct: 105 LLKPLRDSTFFPVLGRVLANEARNLIGVTTLF---GVVLFAVALAAYVIERDIQPEKFGS 161
Query: 215 IPETFWWAGITMTTVGYGDICPTTPLGKMI 244
           IP+  WWA +T++T GYGD  P +  G+++
Sbjct: 162 IPQAMWWAVVTLSTTGYGDTIPQSFAGRVL 191

>pdb|1ORQ|C Chain C, X-Ray Structure Of A Voltage-Dependent Potassium Channel In Complex With An Fab Length = 223

Iteration: 1
 Score = 54.7 bits (130), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 201 YFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIG 245
           Y  E  + ++   S+ +  WWA +T TTVGYGD+ P TP+GK+IG
Sbjct: 152 YIVEYPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIG 196

>pdb|2A0L|A Chain A, Crystal Structure Of Kvap-33h1 Fv Complex Length = 241

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 201 YFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIG 245
           Y  E  + ++   S+ +  WWA +T TTVGYGD+ P TP+GK+IG
Sbjct: 164 YIVEYPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIG 208

>pdb|3STZ|C Chain C, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin Label Length = 102

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+CP T
Sbjct: 4   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLCPVT 63
Query: 239 PLGKMIG 245
             G+++ 
Sbjct: 64  LWGRLVA 70

>pdb|3STL|C Chain C, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound Length = 103

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+CP T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLCPVT 64
Query: 239 PLGKMIG 245
             G+++ 
Sbjct: 65  LWGRLVA 71

>pdb|3PJS|K Chain K, Mechanism Of Activation Gating In The Full-Length Kcsa K+ Channel Length = 166

Iteration: 1
 Score = 51.6 bits (122), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + LQ         ++  G   + L + +L  S LA  AE+     + ++ P   WW
Sbjct: 24  GRHGSALQ---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWW 74
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T TTVGYGD+ P T  G+++
Sbjct: 75  SVETATTVGYGDLYPVTLWGRLV 97

>pdb|4H33|A Chain A, Crystal Structure Of A Voltage-gated K+ Channel Pore Module In A Closed State In Lipid Membranes, Tetragonal Crystal Form Length = 137

Iteration: 1
 Score = 51.2 bits (121), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 38/63 (60%), Gaps = 6/63 (9%)
Query: 184 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 243
            LM+F+ + V+I      F E + ++      P+  WWA +T TTVGYGDI P TP+G++
Sbjct: 19  FLMIFVLL-VIIIPVPMVFIEPEINNY-----PDALWWAIVTATTVGYGDIVPVTPIGRI 72
Query: 244 IGS 246
           + S
Sbjct: 73  LAS 75

>pdb|3OGC|C Chain C, Kcsa E71a Variant In Presence Of Na+ Length = 131

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 33  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVATATTVGYGDLYPVT 92
Query: 239 PLGKMI 244
             G+++
Sbjct: 93  LWGRLV 98

>pdb|3OR7|C Chain C, On The Structural Basis Of Modal Gating Behavior In K+channels - E71i Length = 103

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 23/67 (34%), Positives = 36/67 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+ IT TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVITATTVGYGDLYPVT 64
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 65  LWGRCVA 71

>pdb|3EFF|K Chain K, The Crystal Structure Of Full-Length Kcsa In Its Closed Conformation Length = 139

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 64
Query: 239 PLGKMI 244
             G+++
Sbjct: 65  LWGRLV 70

>pdb|2ATK|C Chain C, Structure Of A Mutant Kcsa K+ Channel Length = 124

Iteration: 1
 Score = 48.9 bits (115), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVATATTVGYGDLYPVT 85
Query: 239 PLGKMI 244
             G+ +
Sbjct: 86  LWGRCV 91

>pdb|2A9H|A Chain A, Nmr Structural Studies Of A Potassium Channel Charybdotoxin Complex Length = 155

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + L          ++  G   + L + +L  S LA  AE+       +S P+  WW
Sbjct: 41  GRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAALISYPDALWW 91
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T TTVGYGD+ P T  G+ +
Sbjct: 92  SVETATTVGYGDLYPVTLWGRCV 114

>pdb|3IFX|A Chain A, Crystal Structure Of The Spin-Labeled Kcsa Mutant V48r1 Length = 129

Iteration: 1
 Score = 48.5 bits (114), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + L          ++  G   + L + +L  S LA  AE+     + ++ P   WW
Sbjct: 18  GRHGSALH---------WRAAGAATVLLVIVLLAGSYLACLAERGAPGAQLITYPRALWW 68
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T TTVGYGD+ P T  G+++
Sbjct: 69  SVETATTVGYGDLYPVTLWGRLV 91

>pdb|3HPL|C Chain C, Kcsa E71h-F103a Mutant In The Closed State Length = 124

Iteration: 1
 Score = 48.1 bits (113), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVHTATTVGYGDLYPVT 85
Query: 239 PLGKMI 244
             G+ +
Sbjct: 86  LWGRCV 91

>pdb|1K4D|C Chain C, Potassium Channel Kcsa-Fab Complex In Low Concentration Of K+ Length = 124

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 85
Query: 239 PLGKMI 244
             G+ +
Sbjct: 86  LWGRCV 91

>pdb|1ZWI|C Chain C, Structure Of Mutant Kcsa Potassium Channel Length = 103

Iteration: 1
 Score = 47.8 bits (112), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVATATTVGYGDLYPVT 64
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 65  LWGRCVA 71

>pdb|1JVM|A Chain A, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And Rubidium Length = 125

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + L          ++  G   + L + +L  S LA  AE+     + ++ P   WW
Sbjct: 18  GRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWW 68
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T TTVGYGD+ P T  G+ +
Sbjct: 69  SVETATTVGYGDLYPVTLWGRCV 91

>pdb|2JK5|C Chain C, Potassium Channel Kcsa In Complex With Tetrabutylammonium In High K Length = 124

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 35/66 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 85
Query: 239 PLGKMI 244
             G+ +
Sbjct: 86  LWGRCV 91

>pdb|1J95|A Chain A, Kcsa Potassium Channel With Tba (Tetrabutylammonium) And Potassium Length = 125

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + L          ++  G   + L + +L  S LA  AE+     + ++ P   WW
Sbjct: 18  GRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWW 68
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T TTVGYGD+ P T  G+ +
Sbjct: 69  SVETATTVGYGDLYPVTLWGRCV 91

>pdb|2P7T|C Chain C, Crystal Structure Of Kcsa Mutant Length = 103

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVSTATTVGYGDLYPVT 64
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 65  LWGRCVA 71

>pdb|3OR6|C Chain C, On The Structural Basis Of Modal Gating Behavior In K+channels - E71q Length = 103

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVQTATTVGYGDLYPVT 64
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 65  LWGRCVA 71

>pdb|1S5H|C Chain C, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+ Length = 124

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 162 ARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWW 221
            RH + L          ++  G   + L + +L  S LA  AE+     + ++ P   WW
Sbjct: 18  GRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWW 68
Query: 222 AGITMTTVGYGDICPTTPLGKMI 244
           +  T T VGYGD+ P T  G+++
Sbjct: 69  SVETATCVGYGDLYPVTLWGRLV 91

>pdb|2IH1|C Chain C, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In The Conductive Conformation Length = 122

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WWA  T TTV YGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWACETATTVXYGDLYPVT 85
Query: 239 PLGKMIG 245
             G+++ 
Sbjct: 86  LWGRLVA 92

>pdb|2HJF|C Chain C, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium (Tba) Length = 103

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 64
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 65  LWGRCVA 71

>pdb|2NLJ|C Chain C, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl Length = 124

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 34/64 (53%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 26  WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 85
Query: 239 PLGK 242
             G+
Sbjct: 86  LWGR 89

>pdb|1BL8|A Chain A, Potassium Channel (Kcsa) From Streptomyces Lividans Length = 97

Iteration: 1
 Score = 46.6 bits (109), Expect = 2e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 4   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 63
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 64  LWGRCVA 70

>pdb|3F5W|C Chain C, Kcsa Potassium Channel In The Open-Inactivated State With 32 A Opening At T112 Length = 104

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 22/67 (32%), Positives = 35/67 (52%)
Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
           ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T
Sbjct: 6   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVT 65
Query: 239 PLGKMIG 245
             G+ + 
Sbjct: 66  LWGRCVA 72

>pdb|1F6G|A Chain A, Potassium Channel (Kcsa) Full-Length Fold Length = 160

Iteration: 1
 Score = 45.4 bits (106), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 32/58 (55%)
Query: 187 LFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMI 244
           + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P T  G+ +
Sbjct: 34  VLLVIVLLAGSYLAVLAERGAPGAQLITYPAALWWSVETATTVGYGDLYPVTLWGRCV 91

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	371
2r9r_B	514	Paddle chimera voltage gated potassium channel KV;	9e-91
3beh_A	355	MLL3241 protein; transmembrane protein, membrane p	3e-84
1orq_C	223	Potassium channel; voltage-dependent, KVAP, FAB co	3e-76
2a9h_A	155	Voltage-gated potassium channel; potassium channel	3e-42
2ih3_C	122	Voltage-gated potassium channel; ION channel D-ami	5e-41
3pjs_K	166	KCSA, voltage-gated potassium channel; ION channel	4e-39
3eff_K	139	Voltage-gated potassium channel; FULL length KCSA,	1e-31
2k1e_A	103	Water soluble analogue of potassium channel, KCSA;	7e-30
2qks_A	321	KIR3.1-prokaryotic KIR channel chimera; G-protein	4e-21
1ors_C	132	Potassium channel; voltage-dependent, voltage sens	4e-19
1p7b_A	333	Integral membrane channel and cytosolic domains; t	7e-18
1xl4_A	301	Inward rectifier potassium channel; integral membr	7e-18
2kyh_A	147	KVAP, voltage-gated potassium channel; ION channel	9e-18
4dxw_A	229	Navrh, ION transport protein; tetrameric, voltage-	1e-15
3ldc_A	82	Calcium-gated potassium channel MTHK; transmembran	2e-15
3rvy_A	285	ION transport protein; tetrameric ION channel, vol	2e-14
2q67_A	114	Potassium channel protein; inverted teepee, helix	2e-11
3ouf_A	97	Potassium channel protein; ION channel, membrane,	2e-11
1lnq_A	336	MTHK channels, potassium channel related protein;	3e-11
3vou_A	148	ION transport 2 domain protein, voltage-gated SOD	3e-10
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	9e-08
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	6e-05
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	1e-07
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	1e-07
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	7e-07
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	2e-06
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	4e-06
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	4e-06
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	8e-05
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	6e-04
2zkr_c	421	60S ribosomal protein L4; protein-RNA complex, 60S	6e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	1e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	6e-06
3lvh_D	205	LCB, clathrin light chain B; SELF assembly, coated	2e-06
3lvh_D	205	LCB, clathrin light chain B; SELF assembly, coated	2e-05
3lvh_D	205	LCB, clathrin light chain B; SELF assembly, coated	2e-04
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	3e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	4e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	6e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	6e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-06
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	1e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	1e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	1e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	6e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	7e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-05
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	1e-04
1kxf_A	264	Sindbis virus capsid protein; chymotrypsin-like se	8e-04
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	4e-06
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	2e-05
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	2e-04
4a17_T	158	RPL24, 60S ribosomal protein L21; eukaryotic ribos	2e-04
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	9e-06
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	5e-05
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	5e-05
3iz5_Z	162	60S ribosomal protein L24 (L24E); eukaryotic ribos	8e-04
2zkr_u	157	60S ribosomal protein L24; protein-RNA complex, 60	1e-05
3u5c_G	236	RP9, S10, YS4, 40S ribosomal protein S6-A; transla	2e-05
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	2e-05
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	3e-05
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	4e-05
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	9e-05
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	1e-04
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	2e-04
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	2e-04
4a17_C	410	RPL4, ribosomal protein L3; eukaryotic ribosome, r	3e-04
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	2e-05
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	7e-05
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	3e-04
3izc_e	244	60S ribosomal protein RPL7 (L30P); eukaryotic ribo	6e-04
3bbn_U	190	Ribosomal protein S21; small ribosomal subunit, sp	3e-05
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	3e-05
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	4e-05
3kio_B	332	Ribonuclease H2 subunit B; aicardi-goutieres syndr	2e-04
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	4e-05
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	2e-04
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	2e-04
4a17_V	239	RPL7, 60S ribosomal protein L7; eukaryotic ribosom	5e-04
2xzm_Y	293	RPS6E; ribosome, translation; 3.93A {Tetrahymena t	4e-05
2xzm_Y	293	RPS6E; ribosome, translation; 3.93A {Tetrahymena t	3e-04
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	7e-05
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	2e-04
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	3e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	7e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	8e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	7e-04
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	8e-05
1g8x_A	1010	Myosin II heavy chain fused to alpha-actinin 3; mo	3e-04
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	1e-04
1b6a_A	478	Methionine aminopeptidase; angiogenesis inhibitor;	7e-04
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	1e-04
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	2e-04
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	7e-04
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	7e-04
3iz5_e	244	60S ribosomal protein L7 (L30P); eukaryotic riboso	8e-04
2y9y_A	374	Imitation switch protein 1 (DEL_ATPase); transcrip	3e-04
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	3e-04
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	4e-04
2zkr_w	270	60S ribosomal protein L7; protein-RNA complex, 60S	5e-04
3izc_Z	155	60S ribosomal protein RPL24 (L24E); eukaryotic rib	3e-04
1a31_A	591	Protein (topoisomerase I); topoisomerase I/DNA, DN	4e-04
1a31_A	591	Protein (topoisomerase I); topoisomerase I/DNA, DN	5e-04
3qwe_A	279	GMIP, GEM-interacting protein; structural genomics	4e-04
2yew_A	253	Capsid protein, coat protein; alphavirus, molecula	7e-04

>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor, voltage dependent, ION CH shaker, membrane protein, eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 3lnm_B* 3lut_B* 2a79_B* Length = 514

 Score =  281 bits (719), Expect = 9e-91
 Identities = 122/331 (36%), Positives = 176/331 (53%), Gaps = 57/331 (17%)

Query: 31  QIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPID-------------------NPKL 71
           +IIAI+S+M I++S V+  L T+P  + +++  +                          
Sbjct: 182 RIIAIVSVMVILISIVSFCLETLPIFRDENEDMHGGGVTFHTYSQSTIGYQQSTSFTDPF 241

Query: 72  AIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQ 131
            IVE +CI WFS E+L+R  A P K  FF   +N+ID++AI+PYY+++FL ESN +    
Sbjct: 242 FIVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYVTIFLTESNKSV--- 298

Query: 132 EVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAM 191
                  QFQ+VRRVVQ+FRIMRILRI KL+RHS GLQ LG TL+ S +ELGLL+ FL +
Sbjct: 299 ------LQFQNVRRVVQIFRIMRILRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFI 352

Query: 192 GVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS----- 246
           GV++FSS  YFAE DE D++F SIP+ FWWA ++MTTVGYGD+ PTT  GK++GS     
Sbjct: 353 GVILFSSAVYFAEADERDSQFPSIPDAFWWAVVSMTTVGYGDMVPTTIGGKIVGSLCAIA 412

Query: 247 ---------------------NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKS 285
                                 +   E+  +  +     K   S             +KS
Sbjct: 413 GVLTIALPVPVIVSNFNYFYHRETEGEEQAQYLQVTSSPKIPSS-PDLKKSRSASTISKS 471

Query: 286 --MDLIDVIVDTEILIREKRERKRRKKKKKR 314
             M++ + + ++    RE+  +         
Sbjct: 472 DYMEIQEGVNNSNEDFREENLKTANSTLANT 502

>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA; 3.10A {Mesorhizobium loti} PDB: 2zd9_A* Length = 355

 Score =  259 bits (662), Expect = 3e-84
 Identities = 54/298 (18%), Positives = 98/298 (32%), Gaps = 56/298 (18%)

Query: 24  VSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFS 83
           +S+LP  +I A ++ +      +A+   TIP +  + +         LA + AV    + 
Sbjct: 1   MSVLPFLRIYAPLNAVLAAPGLLAVAALTIPDMSGRSRLA-------LAALLAVIWGAYL 53

Query: 84  VEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDV 143
           ++    L          +     ID+LA++    +  L                      
Sbjct: 54  LQLAATLLKRRAGVVRDRTPKIAIDVLAVLVPLAAFLLDG-------------------- 93

Query: 144 RRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFA 203
                 + +   + +LK  R ST    LG  L N  + L  +     + +   +  AY  
Sbjct: 94  ---SPDWSLYCAVWLLKPLRDSTFFPVLGRVLANEARNLIGVTTLFGVVLFAVALAAYVI 150

Query: 204 EKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS----------------- 246
           E+D    KF SIP+  WWA +T++T GYGD  P +  G+++                   
Sbjct: 151 ERDIQPEKFGSIPQAMWWAVVTLSTTGYGDTIPQSFAGRVLAGAVMMSGIGIFGLWAGIL 210

Query: 247 ---------NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDT 295
                                      K   +++      LR     +  +I  I + 
Sbjct: 211 ATGFYQEVRRGDFVRNWQLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEP 268

>1orq_C Potassium channel; voltage-dependent, KVAP, FAB complex, MEM protein; 3.20A {Aeropyrum pernix} SCOP: f.14.1.1 PDB: 2a0l_A Length = 223

 Score =  233 bits (597), Expect = 3e-76
 Identities = 42/222 (18%), Positives = 91/222 (40%), Gaps = 30/222 (13%)

Query: 27  LPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEY 86
           +    ++ +      +LS + + +     L  +          +L +V+ + +     +Y
Sbjct: 4   VMEHPLVELGVSYAALLSVIVVVVECTMQLSGEYL-------VRLYLVDLILVIILWADY 56

Query: 87  LLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRV 146
             R   S +   + K  L   ++ A++P  +                       +     
Sbjct: 57  AYRAYKSGDPAGYVKKTL--YEIPALVPAGLLAL-------------------IEGHLAG 95

Query: 147 VQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIF--SSLAYFAE 204
           + +FR++R+LR L++    +        + ++  ++    LF A+ + +   +   Y  E
Sbjct: 96  LGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKIRFYHLFGAVMLTVLYGAFAIYIVE 155

Query: 205 KDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
             + ++   S+ +  WWA +T TTVGYGD+ P TP+GK+IG 
Sbjct: 156 YPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGI 197

>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA, structure, membrane protein, metal transport; HET: PCA; NMR {Streptomyces lividans} SCOP: f.14.1.1 Length = 155

 Score =  143 bits (363), Expect = 3e-42
 Identities = 34/157 (21%), Positives = 55/157 (35%), Gaps = 41/157 (26%)

Query: 90  LGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQV 149
           +  S        G      L+  MP                                +  
Sbjct: 1   MSGSHHHHHHSSGIEGRGRLIKHMP-------------------------------PMLS 29

Query: 150 FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHD 209
             + R++++L L RH + L          ++  G   + L + +L  S LA  AE+    
Sbjct: 30  GLLARLVKLL-LGRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPG 79

Query: 210 TKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
              +S P+  WW+  T TTVGYGD+ P T  G+ +  
Sbjct: 80  AALISYPDALWWSVETATTVGYGDLYPVTLWGRCVAV 116

>2ih3_C Voltage-gated potassium channel; ION channel D-amino acid semi-synthetic, membrane protein; HET: 1EM; 1.72A {Streptomyces lividans} PDB: 2ih1_C* 1r3j_C* 1k4d_C* 1r3i_C* 1k4c_C* 1r3k_C* 1r3l_C* 2bob_C* 2boc_C* 2hvj_C* 2hvk_C* 2itc_C 2itd_C 3gb7_C* 3iga_C* 1jvm_A 1s5h_C* 3ifx_A* 1j95_A 2jk5_C* ... Length = 122

 Score =  139 bits (353), Expect = 5e-41
 Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 10/97 (10%)

Query: 150 FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHD 209
             + R++++L L RH + L          ++  G   + L + +L  S LA  AE+    
Sbjct: 7   GLLARLVKLL-LGRHGSALH---------WRAAGAATVLLVIVLLAGSYLAVLAERGAPG 56

Query: 210 TKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
            + ++ P   WWA  T TTV YGD+ P T  G+++  
Sbjct: 57  AQLITYPRALWWACETATTVAYGDLYPVTLWGRLVAV 93

>3pjs_K KCSA, voltage-gated potassium channel; ION channel, conducts K+ IONS, cell membrane, transport PROT; 3.80A {Streptomyces lividans} PDB: 1f6g_A Length = 166

 Score =  136 bits (343), Expect = 4e-39
 Identities = 29/108 (26%), Positives = 50/108 (46%), Gaps = 10/108 (9%)

Query: 139 QFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSS 198
                   +    + R++++L L RH + LQ         ++  G   + L + +L  S 
Sbjct: 2   HHHHHHPPMLSGLLARLVKLL-LGRHGSALQ---------WRAAGAATVLLVIVLLAGSY 51

Query: 199 LAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGS 246
           LA  AE+     + ++ P   WW+  T TTVGYGD+ P T  G+++  
Sbjct: 52  LAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAV 99

>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix, cell membrane, ION transport, ionic channel, membrane, transmembrane; 3.80A {Streptomyces lividans} Length = 139

 Score =  115 bits (290), Expect = 1e-31
 Identities = 30/166 (18%), Positives = 61/166 (36%), Gaps = 30/166 (18%)

Query: 178 SYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPT 237
            ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P 
Sbjct: 4   HWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPV 63

Query: 238 TPLGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEI 297
           T  G+++                         +V    +     F     L+   + T  
Sbjct: 64  TLWGRLV-----------------------AVVVMVAGITS---FG----LVTAALATWF 93

Query: 298 LIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKK 343
           + RE+  R    +  ++  +    +      ++  + +R     ++
Sbjct: 94  VGREQERRGHFVRHSEKAAEEAYTRTTRALHERFDRLERMLDDNRR 139

>2k1e_A Water soluble analogue of potassium channel, KCSA; homotetramer, ION transport, ionic channel, membrane, transmembrane, transport; NMR {Escherichia coli} PDB: 2kb1_A Length = 103

 Score =  109 bits (274), Expect = 7e-30
 Identities = 21/67 (31%), Positives = 29/67 (43%)

Query: 180 KELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTP 239
           +E       L   +   S  A  AE+       +S P+  WW+  T TTVGYGD  P T 
Sbjct: 6   REAQKAEEELQKVLEEASKKAVEAERGAPGAALISYPDAIWWSVETATTVGYGDRYPVTE 65

Query: 240 LGKMIGS 246
            G+ +  
Sbjct: 66  EGRKVAE 72

>2qks_A KIR3.1-prokaryotic KIR channel chimera; G-protein gated inward rectifier, potassium channel selectivity filter, metal transport; HET: BNG; 2.20A {Burkholderia xenovorans} Length = 321

 Score = 91.7 bits (227), Expect = 4e-21
 Identities = 22/112 (19%), Positives = 46/112 (41%), Gaps = 4/112 (3%)

Query: 141 QDVRRVVQV---FRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFS 197
           +  +R V       +       + +R+ + L +    L+  +  + L +LFL +    F+
Sbjct: 3   KKRQRFVDKNGRCNVQHGNLGSETSRYLSDLFTTLVDLKWRWFFVSLAVLFLLL-NTAFA 61

Query: 198 SLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM 249
           +L         +         F+++  T+ TVGYGD+ P T     I + ++
Sbjct: 62  TLYMLGSAPIANQFPAGFGGAFFFSVETLATVGYGDMHPQTVYAHWIATLEI 113

>1ors_C Potassium channel; voltage-dependent, voltage sensor, KVAP, FAB complex, membrane protein; 1.90A {Aeropyrum pernix} SCOP: f.14.1.1 Length = 132

 Score = 81.5 bits (201), Expect = 4e-19
 Identities = 20/155 (12%), Positives = 54/155 (34%), Gaps = 31/155 (20%)

Query: 28  PLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYL 87
           PL ++         +LS + + +     L       +     +L +V+ + +     +Y 
Sbjct: 6   PLVELGVSY---AALLSVIVVVVEYTMQL-------SGEYLVRLYLVDLILVIILWADYA 55

Query: 88  LRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVV 147
            R   S +   + K    + ++ A++P  +                       +     +
Sbjct: 56  YRAYKSGDPAGYVKK--TLYEIPALVPAGLLA-------------------LIEGHLAGL 94

Query: 148 QVFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL 182
            +FR++R+LR L++    +        + ++  +L
Sbjct: 95  GLFRLVRLLRFLRILLIISRGSKFLSAIADAADKL 129

>1p7b_A Integral membrane channel and cytosolic domains; transmembrane helices, ION conduction, immunoglobulin fold, assembly; 3.65A {Burkholderia pseudomallei} SCOP: b.1.18.16 f.14.1.1 PDB: 2wll_B* 2wll_A* Length = 333

 Score = 82.5 bits (203), Expect = 7e-18
 Identities = 19/131 (14%), Positives = 41/131 (31%), Gaps = 3/131 (2%)

Query: 122 LESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILR-ILKLARHSTGLQSLGFTLRNS-- 178
           +  +  S               +      RI    R ++     ++  + L +       
Sbjct: 1   MNVDPFSPHSSDSFAQAASPARKPPRGGRRIWSGTREVIAYGMPASVWRDLYYWALKVSW 60

Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTT 238
                 L     +   +F+ L    +    +         F+++  T+ TVGYGD+ P T
Sbjct: 61  PVFFASLAALFVVNNTLFALLYQLGDAPIANQSPPGFVGAFFFSVETLATVGYGDMHPQT 120

Query: 239 PLGKMIGSNQM 249
                I + ++
Sbjct: 121 VYAHAIATLEI 131

>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION channel, inwardly rectifying channel, metal transport; 2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16 f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A* 2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A* 2x6a_A* Length = 301

 Score = 82.4 bits (203), Expect = 7e-18
 Identities = 19/126 (15%), Positives = 37/126 (29%), Gaps = 21/126 (16%)

Query: 174 TLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGD 233
           T+        +  L+L     +F+           + +  S  + F+++  TM T+GYG 
Sbjct: 43  TVSWPVFITLITGLYLVTN-ALFALAYLACGDVIENARPGSFTDAFFFSVQTMATIGYGK 101

Query: 234 ICPTTPLGKMIGSNQM--------------------RREKALKRREAMERAKREGSIVSF 273
           + P  PL   + + +                          L     +         +  
Sbjct: 102 LIPIGPLANTLVTLEALCGMLGLAVAASLIYARFTRPTAGVLFSSRMVISDFEGKPTLMM 161

Query: 274 HHVNLR 279
              NLR
Sbjct: 162 RLANLR 167

>2kyh_A KVAP, voltage-gated potassium channel; ION channel, membrane protein; NMR {Aeropyrum pernix} Length = 147

 Score = 78.4 bits (193), Expect = 9e-18
 Identities = 20/155 (12%), Positives = 54/155 (34%), Gaps = 31/155 (20%)

Query: 28  PLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYL 87
           PL ++         +LS + + +     L       +     +L +V+ + +     +Y 
Sbjct: 21  PLVELGVSY---AALLSVIVVVVEYTMQL-------SGEYLVRLYLVDLILVIILWADYA 70

Query: 88  LRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVV 147
            R   S +   + K    + ++ A++P  +                       +     +
Sbjct: 71  YRAYKSGDPAGYVKK--TLYEIPALVPAGLLA-------------------LIEGHLAGL 109

Query: 148 QVFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL 182
            +FR++R+LR L++    +        + ++  +L
Sbjct: 110 GLFRLVRLLRFLRILLIISRGSKFLSAIADAADKL 144

>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium channel, sodium selective, gated ION channel; HET: BNG PX4; 3.05A {Alpha proteobacterium HIMB114} Length = 229

 Score = 74.3 bits (183), Expect = 1e-15
 Identities = 39/214 (18%), Positives = 83/214 (38%), Gaps = 47/214 (21%)

Query: 28  PLFQIIAIISIMF-IVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEY 86
            +FQ      ++  I+L+ V +   T        +         + +++     +F +E 
Sbjct: 12  RIFQFT----VVSIIILNAVLIGATTYELDPLFLET--------IHLLDYGITIFFVIEI 59

Query: 87  LLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRV 146
           L+R     +K  FFK G N+ D + +    ISL  + +NS+                   
Sbjct: 60  LIRFIGEKQKADFFKSGWNIFDTVIVA---ISLIPIPNNSS------------------- 97

Query: 147 VQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAY--FAE 204
             V R++RI R+L+L      L+ +   +  S + +  + L L + + I++++    F  
Sbjct: 98  FLVLRLLRIFRVLRLISVIPELKQIIEAILESVRRVFFVSLLLFIILYIYATMGAILFGN 157

Query: 205 KDEHDTKFVSIPETFWWAGIT----MTTVGYGDI 234
            D   +++         + IT    +T   +  +
Sbjct: 158 DDP--SRW----GDLGISLITLFQVLTLSSWETV 185

>3ldc_A Calcium-gated potassium channel MTHK; transmembrane, ION channel, open conformation, IO transport; 1.45A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3lde_A 3r65_A 3ous_A 3ldd_A Length = 82

 Score = 70.1 bits (172), Expect = 2e-15
 Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 6/63 (9%)

Query: 184 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 243
             +L L + V+I+ +  +   + E      S   + +W  +T+ TVGYGD  P TPLG  
Sbjct: 4   TRILLLVLAVIIYGTAGFHFIEGE------SWTVSLYWTFVTIATVGYGDYSPHTPLGMY 57

Query: 244 IGS 246
              
Sbjct: 58  FTC 60

>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated sodium-selective ION C membrane, metal transport; HET: PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 3rw0_A* Length = 285

 Score = 72.1 bits (177), Expect = 2e-14
 Identities = 50/333 (15%), Positives = 105/333 (31%), Gaps = 97/333 (29%)

Query: 28  PLFQIIAIISIMF-IVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEY 86
             F       I++ IVL+ + + L T  +                 +   + IT F++E 
Sbjct: 30  SFFTKF----IIYLIVLNGITMGLETSKTF-------MQSFGVYTTLFNQIVITIFTIEI 78

Query: 87  LLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRV 146
           +LR+     +  FFK   ++ D   +    ISL                           
Sbjct: 79  ILRIYV--HRISFFKDPWSLFDFFVVA---ISLV---------------------PTSSG 112

Query: 147 VQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAY--FAE 204
            ++ R++R+LR+ +L      ++ +   L +    +  ++  + +   IF+ +A   F E
Sbjct: 113 FEILRVLRVLRLFRLVTAVPQMRKIVSALISVIPGMLSVIALMTLFFYIFAIMATQLFGE 172

Query: 205 KDEHDTKFVSIPETFWWAGIT----MTTVGYGDICPTTPLGKMIGSNQMRREKALKRREA 260
           +      F     T   +  T    MT   +                             
Sbjct: 173 RFPE--WF----GTLGESFYTLFQVMTLESWSMG-------------------------- 200

Query: 261 MERAKREGS------------IVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRR 308
           + R   E              +V+F  +NL         ++ + VD   ++ +K E+   
Sbjct: 201 IVRPLMEVYPYAWVFFIPFIFVVTFVMINL---------VVAICVDAMAILNQKEEQHII 251

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRK 341
            + +  +        K +++    K+  K   K
Sbjct: 252 DEVQSHEDNINNEIIKLREEIVELKELIKTSLK 284

>2q67_A Potassium channel protein; inverted teepee, helix bundle, tetramer, central cavity, ION metal transport, membrane protein; 2.30A {Bacillus cereus} PDB: 2q68_A 2q6a_A 2q69_A 2ahy_A 2ahz_A Length = 114

 Score = 59.9 bits (145), Expect = 2e-11
 Identities = 16/70 (22%), Positives = 32/70 (45%), Gaps = 6/70 (8%)

Query: 175 LRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDI 234
           LR    +   ++  L +  LI  ++ Y   +       +   +  +++ +T+TTVG G+ 
Sbjct: 16  LRAWKDKEFQVLFVLTILTLISGTIFYSTVEG------LRPIDALYFSVVTLTTVGAGNF 69

Query: 235 CPTTPLGKMI 244
            P T  GK+ 
Sbjct: 70  SPQTDFGKIF 79

>3ouf_A Potassium channel protein; ION channel, membrane, membrane protein; 1.55A {Bacillus cereus} PDB: 3t4z_A 3tcu_A 3t1c_A 3tet_A 3t4d_A 3t2m_A 3e86_A 3e83_A 3e89_A 3e8b_A 3e8f_A 3e8g_A 3e8h_A 3k0d_A 3k0g_A 3k06_A 3k08_A 3k04_A 3k03_A Length = 97

 Score = 59.1 bits (143), Expect = 2e-11
 Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 6/61 (9%)

Query: 184 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 243
            ++  L +  LI  ++ Y   +       +   +  +++ +T+TTVGYGD  P T  GK+
Sbjct: 8   QVLFVLTILTLISGTIFYSTVEG------LRPIDALYFSVVTLTTVGYGDFSPQTDFGKI 61

Query: 244 I 244
            
Sbjct: 62  F 62

>1lnq_A MTHK channels, potassium channel related protein; rossman fold, helix bundle, membrane protein; 3.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A Length = 336

 Score = 62.9 bits (153), Expect = 3e-11
 Identities = 21/71 (29%), Positives = 33/71 (46%), Gaps = 6/71 (8%)

Query: 175 LRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDI 234
           L    K     +L L + V+I+ +  +   + E      S   + +W  +T+ TVGYGD 
Sbjct: 12  LPRVLKVPATRILLLVLAVIIYGTAGFHFIEGE------SWTVSLYWTFVTIATVGYGDY 65

Query: 235 CPTTPLGKMIG 245
            P+TPLG    
Sbjct: 66  SPSTPLGMYFT 76

>3vou_A ION transport 2 domain protein, voltage-gated SOD channel; 4-helical bundle, ION channel, membrane, transport protein; 3.20A {Bacillus weihenstephanensis} Length = 148

 Score = 57.3 bits (138), Expect = 3e-10
 Identities = 15/85 (17%), Positives = 37/85 (43%), Gaps = 5/85 (5%)

Query: 160 KLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETF 219
            +      L+ +      ++K+    +LF+   + + S   +++  +          +  
Sbjct: 3   SMLSFILTLKRMLKACLRAWKDKEFQVLFVLTFLTLTSGTIFYSTVEGL-----RPLDAL 57

Query: 220 WWAGITMTTVGYGDICPTTPLGKMI 244
           +++ +T+TTVG G+  P T  GK+ 
Sbjct: 58  YFSVVTLTTVGDGNFSPQTDFGKVF 82

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

 Score = 53.2 bits (127), Expect = 1e-08
 Identities = 12/58 (20%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 299 IRE-KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           IR+ + E+++R ++     K  +++ +EK KK  ++  +++  + +K K   R  ++ 
Sbjct: 87  IRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 144

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

 Score = 50.9 bits (121), Expect = 9e-08
 Identities = 13/74 (17%), Positives = 38/74 (51%), Gaps = 2/74 (2%)

Query: 300 REKRERKRRKKKKKRKRKRKKR-KEKEKKKKKRKKKKRKKKRK-KKKRKKKKRKKEEKKK 357
           +  R  +  +  +K + +++KR +E +   K  +++ R+K +K  ++  +++ ++ EK K
Sbjct: 76  QADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK 135

Query: 358 KKKKKKKKEKRKKR 371
              +   K   ++ 
Sbjct: 136 INNRIADKAFYQQP 149

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

 Score = 42.5 bits (99), Expect = 6e-05
 Identities = 13/108 (12%), Positives = 38/108 (35%), Gaps = 35/108 (32%)

Query: 247 NQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERK 306
           +++ +E    R+   E+ KR                                ++E     
Sbjct: 78  DRLTQEPESIRKWREEQRKR--------------------------------LQELDAAS 105

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEE 354
           +  +++ R+   K +K+ E+  +++ ++  K K   +   K   ++ +
Sbjct: 106 KVMEQEWRE---KAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPD 150

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 52.2 bits (124), Expect = 1e-07
 Identities = 21/72 (29%), Positives = 33/72 (45%)

Query: 298 LIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
           ++R+ +  K R  K     + K  ++    KK R+KK +K    KK +K    KK    K
Sbjct: 340 ILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAATK 399

Query: 358 KKKKKKKKEKRK 369
           K    KK  ++K
Sbjct: 400 KPAADKKPAEKK 411

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 52.2 bits (124), Expect = 1e-07
 Identities = 23/90 (25%), Positives = 33/90 (36%)

Query: 279 RDAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKK 338
                K       +    IL + K  + R  K       + + K    KK +RKK K+  
Sbjct: 322 LRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTV 381

Query: 339 KRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
             KK K+    +K    KK    KK  EK+
Sbjct: 382 GVKKPKKPVVGKKAAATKKPAADKKPAEKK 411

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 49.9 bits (118), Expect = 7e-07
 Identities = 20/76 (26%), Positives = 32/76 (42%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           + + R    R+ +  K +  +     + K ++K    KK R+KK KK    KK +K    
Sbjct: 333 KTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVG 392

Query: 356 KKKKKKKKKKEKRKKR 371
           KK    KK    +K  
Sbjct: 393 KKAAATKKPAADKKPA 408

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 47.9 bits (113), Expect = 2e-06
 Identities = 18/68 (26%), Positives = 31/68 (45%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            +K       K +++    KK + K+ KK    KK +K    KK    KK   ++K  +K
Sbjct: 351 MDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEK 410

Query: 360 KKKKKKEK 367
           K   +++K
Sbjct: 411 KPTTEEKK 418

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 47.6 bits (112), Expect = 4e-06
 Identities = 16/72 (22%), Positives = 31/72 (43%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
              R+ K  K +  +     + K +EK    +K +++K K+    +K KK    +K    
Sbjct: 339 TILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAAT 398

Query: 360 KKKKKKEKRKKR 371
           KK    +K  ++
Sbjct: 399 KKPAADKKPAEK 410

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 47.2 bits (111), Expect = 4e-06
 Identities = 18/72 (25%), Positives = 28/72 (38%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
                + +  K +  K       + E+K    KK +RKK +K    KK K+    KK   
Sbjct: 338 NTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAA 397

Query: 360 KKKKKKEKRKKR 371
            KK   +K+   
Sbjct: 398 TKKPAADKKPAE 409

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 43.3 bits (101), Expect = 8e-05
 Identities = 16/75 (21%), Positives = 31/75 (41%)

Query: 295 TEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEE 354
             I+++     K  ++    ++ +  +   +K     + K  +K    KK ++KK KK  
Sbjct: 322 LRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTV 381

Query: 355 KKKKKKKKKKKEKRK 369
             KK KK    +K  
Sbjct: 382 GVKKPKKPVVGKKAA 396

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 40.6 bits (94), Expect = 6e-04
 Identities = 17/63 (26%), Positives = 29/63 (46%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
             L  +  E+    KK +RK+ +K    K+ KK    KK    K+    +K  ++K   +
Sbjct: 356 AALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEKKPTTE 415

Query: 356 KKK 358
           +KK
Sbjct: 416 EKK 418

>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 421

 Score = 40.6 bits (94), Expect = 6e-04
 Identities = 21/94 (22%), Positives = 33/94 (35%), Gaps = 19/94 (20%)

Query: 297 ILIREKRERKRRKKKK-------------------KRKRKRKKRKEKEKKKKKRKKKKRK 337
            L   +++  RR  KK                   +R    ++ K  + +  K       
Sbjct: 301 ALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEA 360

Query: 338 KKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K  +K    KK R+K+ KK    KK KK    K+
Sbjct: 361 KSEEKGVPGKKPRRKKGKKTVGVKKPKKPVVGKK 394

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 50.6 bits (120), Expect = 6e-07
 Identities = 39/289 (13%), Positives = 86/289 (29%), Gaps = 52/289 (17%)

Query: 43  LSTVALTLNTIPS-LQHKDKAGNPIDNPKLAIVEAVC----ITWFSVEYLLRLGASPEKW 97
            S +   L+  P  L  +    NP    +L+I+         TW   +    +       
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPR---RLSIIAESIRDGLATW---DNWKHVNCDKLT- 356

Query: 98  KFFKGGLNVIDLLAIMPYYISLFLLESNS------------TSNEQEVQTRTDQFQDVRR 145
              +  LNV++       +  L +   ++               + +V    ++      
Sbjct: 357 TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK-YS 415

Query: 146 VVQ------VFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL------GLLMLFLAMGV 193
           +V+         I  I   L+L        +L  ++ + Y          L+  +L    
Sbjct: 416 LVEKQPKESTISIPSIY--LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ-- 471

Query: 194 LIFSSLAYFAEKDEHDTKFVSIPETFW---WAGITMTTVGYGDICPTTPLGKMIGSNQMR 250
             +S + +  +  EH  +       F    +    +           + L  +    Q++
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL---QQLK 528

Query: 251 REKALKRREAMERAKREGSIVSF---HHVNLRDAFAKSMDLIDVIVDTE 296
             K        +  +   +I+ F      NL    +K  DL+ + +  E
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIEENL--ICSKYTDLLRIALMAE 575

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 49.4 bits (118), Expect = 1e-06
 Identities = 20/128 (15%), Positives = 60/128 (46%), Gaps = 7/128 (5%)

Query: 248 QMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKR 307
           Q + E+  + +E  ++A+ E   +   H  L +      + +    +   L  E  E + 
Sbjct: 860 QAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETE---LYAEAEEMRV 916

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK----KKRKKEEKKKKKKKKK 363
           R   KK++ +    + + + +++ ++ ++ +  KKK +++    +++ +EE+  ++K + 
Sbjct: 917 RLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQL 976

Query: 364 KKEKRKKR 371
           +K     +
Sbjct: 977 EKVTADGK 984

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 47.5 bits (113), Expect = 6e-06
 Identities = 14/128 (10%), Positives = 52/128 (40%), Gaps = 6/128 (4%)

Query: 250 RREKALKRREAMERAKREGSIVSF--HHVNLRDAFAKSMDLIDVIVDTEILIREKRERKR 307
           R    +     M        ++        ++    +     +     E  ++E  ++  
Sbjct: 829 RSFMNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHT 888

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKK----KRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           +  ++K   + K + E E   +  + +     +K++ ++   + + R +EE+++ ++ + 
Sbjct: 889 QLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQA 948

Query: 364 KKEKRKKR 371
           +K+K +++
Sbjct: 949 EKKKMQQQ 956

>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 9.00A {Bos taurus} Length = 205

 Score = 46.8 bits (110), Expect = 2e-06
 Identities = 13/58 (22%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 299 IREKRE-RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           IR+ RE +++R ++     K  +++ +EK KK  ++  +++  + +K K   R  ++ 
Sbjct: 102 IRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKA 159

>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 9.00A {Bos taurus} Length = 205

 Score = 43.8 bits (102), Expect = 2e-05
 Identities = 13/67 (19%), Positives = 34/67 (50%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
             R  +  +  +K + +++KR ++     K  +++ ++K KK   +  +R+ E+ +K K 
Sbjct: 92  ADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKI 151

Query: 361 KKKKKEK 367
             +  +K
Sbjct: 152 NNRIADK 158

>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 9.00A {Bos taurus} Length = 205

 Score = 41.4 bits (96), Expect = 2e-04
 Identities = 12/67 (17%), Positives = 34/67 (50%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
           +R  ++ +  RK + ++RK  ++     K  +++ + K KK  ++  +++ ++ +K K  
Sbjct: 93  DRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN 152

Query: 364 KKEKRKK 370
            +   K 
Sbjct: 153 NRIADKA 159

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 47.5 bits (112), Expect = 3e-06
 Identities = 12/60 (20%), Positives = 31/60 (51%)

Query: 303 RERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
            +  R +  + R   R+K++  ++  K +K K ++KK+K+  + K  +++    K +  +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.7 bits (110), Expect = 4e-06
 Identities = 14/60 (23%), Positives = 31/60 (51%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            +  + +  + +   ++KK+  K+  K K+ K + KKK++  K K  KR++   K +  +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.3 bits (109), Expect = 6e-06
 Identities = 13/60 (21%), Positives = 31/60 (51%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
            +  + +  R R   ++K++  K+  + KK + +++KKK+  K K  K ++   K +  +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.3 bits (109), Expect = 6e-06
 Identities = 17/51 (33%), Positives = 29/51 (56%)

Query: 320 KRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
            +  + +  + R   ++KK+  K+  K KK K +EKKKK+  K K  KR++
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQR 105

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.0 bits (108), Expect = 8e-06
 Identities = 15/57 (26%), Positives = 29/57 (50%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKK 356
              +  + R   +++K+  K+  + +K K + KKKK+  K K  KR++   K E  +
Sbjct: 58  TRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.0 bits (108), Expect = 8e-06
 Identities = 13/52 (25%), Positives = 29/52 (55%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKR 350
           I +    +  + +   ++K++  K+  K KK + ++K+KK+  K K  K++R
Sbjct: 54  IGQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQR 105

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 46.0 bits (108), Expect = 8e-06
 Identities = 14/51 (27%), Positives = 28/51 (54%)

Query: 321 RKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            +    +  + +   R+KK+  K+  K K+ K ++KKKK+  K K  +++R
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQR 105

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 45.2 bits (106), Expect = 1e-05
 Identities = 12/51 (23%), Positives = 29/51 (56%)

Query: 317 KRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            +  R +  + +   ++KK+  K+  K +K K ++K++K+  K K  K+++
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQR 105

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 45.2 bits (106), Expect = 1e-05
 Identities = 13/57 (22%), Positives = 31/57 (54%)

Query: 313 KRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
            +  + +  + +   ++K++  K+  K KK K ++KK+K+  K K  K+++   K +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLE 111

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 45.2 bits (106), Expect = 1e-05
 Identities = 13/58 (22%), Positives = 31/58 (53%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKK 357
             + +  R +   ++K++  K+  K KK K ++KKK++  + K  ++++   K E  +
Sbjct: 57  ATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 43.3 bits (101), Expect = 6e-05
 Identities = 13/55 (23%), Positives = 27/55 (49%)

Query: 316 RKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
            +  + +    +   R+KK+  K+  K K+ K + KK+++  K K  K++    K
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALK 109

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 42.9 bits (100), Expect = 7e-05
 Identities = 13/60 (21%), Positives = 31/60 (51%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
            +  + +  + +   ++KK+  K+  K K+ K + KKKK+  + K  K+++   K +  +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 42.9 bits (100), Expect = 8e-05
 Identities = 13/60 (21%), Positives = 32/60 (53%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKR 368
            +  + +  R +   ++KK+  ++  K KK + ++K+KK+  K +  K+++   K +  R
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 42.1 bits (98), Expect = 1e-04
 Identities = 15/60 (25%), Positives = 31/60 (51%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
            +  R +  + R    +KK+  K+  + KK K +++KKK+  K +  K+++   K E  +
Sbjct: 55  GQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADR 114

>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase, wild type, viral protein; 2.38A {Sindbis virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A Length = 264

 Score = 39.8 bits (92), Expect = 8e-04
 Identities = 13/80 (16%), Positives = 34/80 (42%), Gaps = 8/80 (10%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKE--------KKKKKRKKKKRKKKRKKKKRKKKKRK 351
              R R+RR+      R     + ++           +  + +  + +   +++K+  ++
Sbjct: 19  AMWRPRRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQ 78

Query: 352 KEEKKKKKKKKKKKEKRKKR 371
             + KK K ++KKK++  K 
Sbjct: 79  PPKPKKPKPQEKKKKQPAKT 98

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 45.5 bits (107), Expect = 4e-06
 Identities = 17/76 (22%), Positives = 35/76 (46%)

Query: 290 DVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKK 349
            ++  +   I  ++      KK + ++  ++ K+K+    ++K+  RK + K  K  KK 
Sbjct: 83  AIVGISLEEINRRKNLDASHKKAEAEKAVRELKQKKANDIEKKRADRKLQGKDVKAAKKA 142

Query: 350 RKKEEKKKKKKKKKKK 365
             K+ K+    K  KK
Sbjct: 143 ETKKTKQPVGAKGGKK 158

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 43.6 bits (102), Expect = 2e-05
 Identities = 18/66 (27%), Positives = 32/66 (48%)

Query: 304 ERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKK 363
            R++      +K + +K   + K+KK    +K++  RK + +  K  KK E KK K+   
Sbjct: 93  NRRKNLDASHKKAEAEKAVRELKQKKANDIEKKRADRKLQGKDVKAAKKAETKKTKQPVG 152

Query: 364 KKEKRK 369
            K  +K
Sbjct: 153 AKGGKK 158

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 40.5 bits (94), Expect = 2e-04
 Identities = 17/66 (25%), Positives = 32/66 (48%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            R +      KK + ++  R+ K+KK    +KK+  +K + K  K  K+ + +K K+   
Sbjct: 93  NRRKNLDASHKKAEAEKAVRELKQKKANDIEKKRADRKLQGKDVKAAKKAETKKTKQPVG 152

Query: 362 KKKKEK 367
            K  +K
Sbjct: 153 AKGGKK 158

>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_T 4a1c_T 4a1e_T Length = 158

 Score = 40.5 bits (94), Expect = 2e-04
 Identities = 15/65 (23%), Positives = 32/65 (49%)

Query: 307 RRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
            R+K      K+ + ++  ++ K++K    +KKR  +K + K  K  +K + KK K+   
Sbjct: 93  NRRKNLDASHKKAEAEKAVRELKQKKANDIEKKRADRKLQGKDVKAAKKAETKKTKQPVG 152

Query: 367 KRKKR 371
            +  +
Sbjct: 153 AKGGK 157

>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 157

 Score = 44.3 bits (104), Expect = 1e-05
 Identities = 18/67 (26%), Positives = 30/67 (44%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
             +R ++ + +K +R++  R  KE KK K+  KK      K   K   ++K  K  K   
Sbjct: 91  MAKRNQKPEVRKAQREQAIRAAKEAKKAKQASKKTAMAAAKAPTKAAPKQKIVKPVKVSA 150

Query: 362 KKKKEKR 368
            +   KR
Sbjct: 151 PRVGGKR 157

>3u5c_G RP9, S10, YS4, 40S ribosomal protein S6-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3j16_C 3u5g_G Length = 236

 Score = 44.3 bits (104), Expect = 2e-05
 Identities = 20/91 (21%), Positives = 42/91 (46%)

Query: 280 DAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKK 339
              +K  D+ D ++  E+   EK   K  K ++    +R +RK  ++  K R  + +++ 
Sbjct: 145 FGLSKEDDVRDFVIRREVTKGEKTYTKAPKIQRLVTPQRLQRKRHQRALKVRNAQAQREA 204

Query: 340 RKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
             +  +   KR  E K +K + +K++    K
Sbjct: 205 AAEYAQLLAKRLSERKAEKAEIRKRRASSLK 235

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 45.2 bits (106), Expect = 2e-05
 Identities = 10/64 (15%), Positives = 24/64 (37%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           K + KK     K K++   +  +K  K  K+  +       K   +   K +++      
Sbjct: 341 KEQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFIA 400

Query: 366 EKRK 369
           + ++
Sbjct: 401 QGQE 404

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 44.8 bits (105), Expect = 3e-05
 Identities = 14/105 (13%), Positives = 38/105 (36%), Gaps = 20/105 (19%)

Query: 287 DLIDVIVDTEI--LIREKRERKRRKKKK------------------KRKRKRKKRKEKEK 326
           D+  +I   E+  +++     +  ++KK                   +++ +K  +  + 
Sbjct: 294 DIARIINSNEVQSVVKVAGTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKKAAEASKA 353

Query: 327 KKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           K++   K  RK  +  KK  +       K  ++   K +++    
Sbjct: 354 KRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADF 398

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 44.4 bits (104), Expect = 4e-05
 Identities = 10/65 (15%), Positives = 26/65 (40%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
            + + KK  +  + KR+   K  +K  K  +K  +       K  ++   K +++     
Sbjct: 340 VKEQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFI 399

Query: 366 EKRKK 370
            + ++
Sbjct: 400 AQGQE 404

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 43.3 bits (101), Expect = 9e-05
 Identities = 9/66 (13%), Positives = 27/66 (40%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
            + ++     K K++   +  RK  +  KK  +       +  ++   K R+++     +
Sbjct: 342 EQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFIAQ 401

Query: 360 KKKKKK 365
            ++ K+
Sbjct: 402 GQEIKE 407

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 42.5 bits (99), Expect = 1e-04
 Identities = 10/68 (14%), Positives = 30/68 (44%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           + K+  +  K K++   K  ++  K  KK  +       K  ++   K +++  +   + 
Sbjct: 343 QAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFIAQG 402

Query: 360 KKKKKKEK 367
           ++ K+ ++
Sbjct: 403 QEIKEGDE 410

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 42.1 bits (98), Expect = 2e-04
 Identities = 10/64 (15%), Positives = 25/64 (39%)

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           +++ KK     K +++   K  ++  K  KK  +       K  +E   K +++      
Sbjct: 341 KEQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFIA 400

Query: 368 RKKR 371
           + + 
Sbjct: 401 QGQE 404

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 42.1 bits (98), Expect = 2e-04
 Identities = 9/66 (13%), Positives = 27/66 (40%)

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
            + +K  +  K KR+   +  +K  K  KK  +       +  ++   + +++      +
Sbjct: 342 EQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFIAQ 401

Query: 365 KEKRKK 370
            ++ K+
Sbjct: 402 GQEIKE 407

>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_C 4a1c_C 4a1e_C Length = 410

 Score = 41.7 bits (97), Expect = 3e-04
 Identities = 9/68 (13%), Positives = 27/68 (39%)

Query: 302 KRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK 361
            +E+ ++  +  + +++   K   K  K  KK  +       K  ++   K  ++     
Sbjct: 340 VKEQAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIAKARQEDADFI 399

Query: 362 KKKKEKRK 369
            + +E ++
Sbjct: 400 AQGQEIKE 407

>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 190

 Score = 43.3 bits (101), Expect = 3e-05
 Identities = 12/64 (18%), Positives = 33/64 (51%), Gaps = 4/64 (6%)

Query: 307 RRKKKKKRK----RKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKK 362
            R +++  +    ++ K+R+  E  +  RK+K R+  ++ ++R+ + R   + K+     
Sbjct: 112 NRFRREVMRAGVIQECKRRRFFENTQDVRKRKTREAAKRNRRRRPQARFTPQNKQDVPAT 171

Query: 363 KKKE 366
           K++ 
Sbjct: 172 KQEA 175

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 44.4 bits (104), Expect = 3e-05
 Identities = 18/90 (20%), Positives = 27/90 (30%), Gaps = 6/90 (6%)

Query: 285 SMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKK 344
             +L D +     L            KK +        +++  K   K  K  KK  K  
Sbjct: 242 PKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMT 301

Query: 345 RKKKKRKKEEKKKKK------KKKKKKEKR 368
             +K   K +K   K        K KK  +
Sbjct: 302 AAQKALAKVDKSGMKSIDAFFGAKNKKTGK 331

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 44.0 bits (103), Expect = 4e-05
 Identities = 18/95 (18%), Positives = 30/95 (31%)

Query: 270 IVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKK 329
           I  +    L D  +K + L +          +K +      + K    +   K+ +  KK
Sbjct: 237 ISDYIPKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKK 296

Query: 330 KRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
             K    +K   K  +   K        K KK  K
Sbjct: 297 NSKMTAAQKALAKVDKSGMKSIDAFFGAKNKKTGK 331

>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_B 3puf_B 3p56_B Length = 332

 Score = 41.7 bits (97), Expect = 2e-04
 Identities = 14/71 (19%), Positives = 21/71 (29%), Gaps = 9/71 (12%)

Query: 309 KKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKK------- 361
                  +K K   E  + K+   K   K  +  KK  K    ++   K  K        
Sbjct: 261 SLPNPPSKKLKLSDEPVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSGMKSIDA 320

Query: 362 --KKKKEKRKK 370
               K +K  K
Sbjct: 321 FFGAKNKKTGK 331

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 43.6 bits (102), Expect = 4e-05
 Identities = 16/60 (26%), Positives = 31/60 (51%)

Query: 312 KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
           KK  R  K RK K +++K    + +++K +   + +K   + E  +KK   +K++ RK  
Sbjct: 11  KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKARKTG 70

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 10/66 (15%), Positives = 32/66 (48%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           K+  + +K ++ + ++++    + K++K +   K +K   + +  +K+   +K+K +K  
Sbjct: 11  KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKARKTG 70

Query: 366 EKRKKR 371
                 
Sbjct: 71  AFYVPA 76

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 18/76 (23%), Positives = 33/76 (43%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
              + E  ++K  + +K RK K ++RK    + K+RK +   K +K     +   KK   
Sbjct: 2   SKFVPENVQKKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVD 61

Query: 356 KKKKKKKKKKEKRKKR 371
           +K+K +K         
Sbjct: 62  EKRKARKTGAFYVPAE 77

>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_V 4a1c_V 4a1e_V Length = 239

 Score = 40.1 bits (93), Expect = 5e-04
 Identities = 13/73 (17%), Positives = 31/73 (42%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           E + ++    ++ +K K  +RK    + K++K +   K ++     +   KK   +K + 
Sbjct: 7   ENVQKKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKAQKYAAEYEAAEKKIVDEKRKA 66

Query: 356 KKKKKKKKKKEKR 368
           +K        E +
Sbjct: 67  RKTGAFYVPAEAK 79

>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Y Length = 293

 Score = 44.1 bits (103), Expect = 4e-05
 Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 3/73 (4%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKK---KRKKKKRKKKRKKKKRKKKKRKKEEKK 356
            E+  RK+  K +K +R  K    KE+ +K   + KK++  K         +  KK E  
Sbjct: 185 PERILRKKVYKAEKTQRYVKTNAAKEEYEKFLSEWKKQRAAKAHAASAPVVEAPKKVEAP 244

Query: 357 KKKKKKKKKEKRK 369
           KK   K  K    
Sbjct: 245 KKVDPKAAKTTPA 257

>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Y Length = 293

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 12/71 (16%), Positives = 21/71 (29%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           +++R  K            KK +  +K   K  K      +      K   K +  K   
Sbjct: 220 KKQRAAKAHAASAPVVEAPKKVEAPKKVDPKAAKTTPAATKATPAATKVAPKTQAAKTTT 279

Query: 360 KKKKKKEKRKK 370
                K+ +K 
Sbjct: 280 PAPAVKDAKKT 290

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score = 44.0 bits (103), Expect = 7e-05
 Identities = 14/56 (25%), Positives = 32/56 (57%)

Query: 312 KKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            + K + KK K+++   ++ KKK+ ++K K+++  KK  K+ ++  ++  K K   
Sbjct: 819 ARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNKYSS 874

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score = 42.5 bits (99), Expect = 2e-04
 Identities = 16/53 (30%), Positives = 31/53 (58%)

Query: 319 KKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKKR 371
            + K + KK KK K    ++K+K+ + K+K+R+  +K  K+ K+  +E  K +
Sbjct: 819 ARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNK 871

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} Length = 963

 Score = 42.1 bits (98), Expect = 3e-04
 Identities = 13/54 (24%), Positives = 33/54 (61%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKK 364
            + + R +K +KEK   ++++KK+  +K+++++  KK  ++ +E  ++  K K 
Sbjct: 819 ARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNKY 872

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.9 bits (104), Expect = 7e-05
 Identities = 20/143 (13%), Positives = 41/143 (28%), Gaps = 20/143 (13%)

Query: 248 QMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKR 307
           Q      L R +     +   SI+   HV    A       +  IV  +   R    ++ 
Sbjct: 846 QALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRE 905

Query: 308 RKK--------------------KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKK 347
            KK                    K  + +++   + KE K    K    +     +  K 
Sbjct: 906 LKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKL 965

Query: 348 KKRKKEEKKKKKKKKKKKEKRKK 370
           +   +  +  +++ K    +   
Sbjct: 966 RSDVERLRMSEEEAKNATNRVLS 988

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.6 bits (103), Expect = 8e-05
 Identities = 17/122 (13%), Positives = 39/122 (31%)

Query: 248 QMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKR 307
           Q      L R       K    +   +   +     K + +    V+    +    E K 
Sbjct: 871 QKHVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKI 930

Query: 308 RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            + ++K   + K+ K   +K    +     +  K +   ++ R  EE+ K    +    +
Sbjct: 931 MQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQ 990

Query: 368 RK 369
            +
Sbjct: 991 EE 992

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 40.9 bits (96), Expect = 7e-04
 Identities = 16/133 (12%), Positives = 44/133 (33%), Gaps = 7/133 (5%)

Query: 245 GSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRE 304
                +R + ++      +A   G +V   +  +       + +   +      +   R 
Sbjct: 828 MYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSII-IQKHVRGWLARVHYHRT 886

Query: 305 RKRRKKKKKRKRKRKKRKEKEKKKK------KRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
            K     +   R+   ++E +K K       + KK     + K  + ++K  ++ ++ K 
Sbjct: 887 LKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKS 946

Query: 359 KKKKKKKEKRKKR 371
             +K    +    
Sbjct: 947 LLEKMNNLEITYS 959

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 43.9 bits (104), Expect = 8e-05
 Identities = 19/122 (15%), Positives = 42/122 (34%), Gaps = 1/122 (0%)

Query: 250 RREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKRRK 309
            RE+ L   E  +    + +      +N + A  +S D  D I   +  +   +E K+ +
Sbjct: 757 AREQRL-GSEQTKSDYLKRANELVQWINDKQASLESRDFGDSIESVQSFMNAHKEYKKTE 815

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRK 369
           K  K +   +        + K +  KR+           +        +K +++  E  +
Sbjct: 816 KPPKGQEVSELEAIYNSLQTKLRLIKREPFVAPAGLTPNEIDSTWSALEKAEQEHAEALR 875

Query: 370 KR 371
             
Sbjct: 876 IE 877

>1g8x_A Myosin II heavy chain fused to alpha-actinin 3; motor, lever ARM, protein engineering, structural protein; HET: ADP; 2.80A {Dictyostelium discoideum} SCOP: k.1.1.1 Length = 1010

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 10/119 (8%), Positives = 31/119 (26%), Gaps = 6/119 (5%)

Query: 248  QMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILIREKRERKR 307
              + E     +     +   G  ++     L++  A   +         +  +   +   
Sbjct: 895  LKKLENWATTKSVYLGSNETGDSITAVQAKLKNLEAFDGEC------QSLEGQSNSDLLS 948

Query: 308  RKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKE 366
               +          +  E+K     ++    K   +  K     + E+ +K +      
Sbjct: 949  ILAQLTELNYNGVPELTERKDTFFAQQWTGVKSSAETYKNTLLAELERLQKIEDLHHHH 1007

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 43.0 bits (101), Expect = 1e-04
 Identities = 17/77 (22%), Positives = 35/77 (45%)

Query: 295 TEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEE 354
            E   ++KR +K++ K      +++  KE      +  ++  +   + K+R +     + 
Sbjct: 31  AEEAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERDEDDEDGDG 90

Query: 355 KKKKKKKKKKKEKRKKR 371
                  KKKK+K+KKR
Sbjct: 91  DGDGATGKKKKKKKKKR 107

>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A {Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A* 1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A* 1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A* 2ga2_A* 2oaz_A* Length = 478

 Score = 40.7 bits (95), Expect = 7e-04
 Identities = 18/76 (23%), Positives = 35/76 (46%), Gaps = 6/76 (7%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKK------KRKKKKRKKKKRKKEE 354
           E  ++KRRKKKK +       +E +K+      +  ++      + K++    +    + 
Sbjct: 33  EAAKKKRRKKKKSKGPSAAGEQEPDKESGASVDEVARQLERSALEDKERDEDDEDGDGDG 92

Query: 355 KKKKKKKKKKKEKRKK 370
                KKKKKK+K++ 
Sbjct: 93  DGATGKKKKKKKKKRG 108

>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear protein complex, chromatin remodeling nucleosome remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A Length = 374

 Score = 41.7 bits (97), Expect = 3e-04
 Identities = 15/80 (18%), Positives = 28/80 (35%), Gaps = 1/80 (1%)

Query: 293 VDTEILIREKRERKRRKKKKKRKRKRKKRKEKEKKKK-KRKKKKRKKKRKKKKRKKKKRK 351
            +T +   EK            K + KK  E  K+ + +   +   +K      + KK K
Sbjct: 285 GNTLLQCLEKEFNAGIVLDDATKDRMKKEDENGKRIREEFADQTANEKENVDGVESKKAK 344

Query: 352 KEEKKKKKKKKKKKEKRKKR 371
            E+      ++   EK  + 
Sbjct: 345 IEDTSNVGTEQLVAEKIPEN 364

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 13/66 (19%), Positives = 30/66 (45%)

Query: 306 KRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKK 365
           K+R+   + K KR ++K   K  +K ++K   +K K   ++ ++  + E +  +  +K  
Sbjct: 42  KKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHYHKEYRQMYRTEIRMARMARKAG 101

Query: 366 EKRKKR 371
                 
Sbjct: 102 NFYVPA 107

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 40.6 bits (94), Expect = 4e-04
 Identities = 15/71 (21%), Positives = 33/71 (46%)

Query: 301 EKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKK 360
              +  ++K     +  +KKR+   + K KR +KK   K  +K R+K   +K +   K+ 
Sbjct: 24  AGPKTLKKKVPAVPETLKKKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHYHKEY 83

Query: 361 KKKKKEKRKKR 371
           ++  + + +  
Sbjct: 84  RQMYRTEIRMA 94

>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 270

 Score = 40.6 bits (94), Expect = 5e-04
 Identities = 11/61 (18%), Positives = 30/61 (49%)

Query: 311 KKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           KKKR+   + + ++ +KK   K  ++ +++   ++ K   K+  +  + + +  +  RK 
Sbjct: 41  KKKRRNFAELKVKRLRKKFALKTLRKARRKLIYEKAKHYHKEYRQMYRTEIRMARMARKA 100

Query: 371 R 371
            
Sbjct: 101 G 101

>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591

 Score = 41.3 bits (96), Expect = 4e-04
 Identities = 13/73 (17%), Positives = 33/73 (45%)

Query: 299 IREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKK 358
             +     + K   K+++    R++ +  K   K  K  K +K  + KKK  ++ E++  
Sbjct: 466 FEKSMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLM 525

Query: 359 KKKKKKKEKRKKR 371
           K + +  ++ + +
Sbjct: 526 KLEVQATDREENK 538

>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A* Length = 591

 Score = 40.9 bits (95), Expect = 5e-04
 Identities = 20/128 (15%), Positives = 41/128 (32%), Gaps = 2/128 (1%)

Query: 240 LGKMIGSNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSMDLIDVIVDTEILI 299
           L ++   ++    K L    A        +           +       ID     E L 
Sbjct: 428 LKELTAPDENIPAKILSYNRANRAVAILCNHQRAPPKTFEKSMMNLQTKIDAK--KEQLA 485

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             +R+ K  K   K  +  K +K  E KKK  ++ + +  + + +   ++  K+      
Sbjct: 486 DARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATDREENKQIALGTS 545

Query: 360 KKKKKKEK 367
           K      +
Sbjct: 546 KLNYLDPR 553

>3qwe_A GMIP, GEM-interacting protein; structural genomics consortium, SGC, protein binding; 2.40A {Homo sapiens} Length = 279

 Score = 41.0 bits (95), Expect = 4e-04
 Identities = 10/72 (13%), Positives = 36/72 (50%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
           R + E+ R++ K++  +++K+  E  +  ++ + +  ++    + R +   +    +   
Sbjct: 107 RTEIEKWRKEFKEQWMKEQKRMNEAVQALRRAQLQYVQRSEDLRARSQGSPEDSAPQASP 166

Query: 360 KKKKKKEKRKKR 371
              K++E+R++ 
Sbjct: 167 GPSKQQERRRRS 178

>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A {Barmah forest virus} Length = 253

 Score = 39.6 bits (92), Expect = 7e-04
 Identities = 17/43 (39%), Positives = 27/43 (62%)

Query: 328 KKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEKRKK 370
           + K+K+K+ +KK KK    K K+ ++ KK  +KKK K  KR +
Sbjct: 54  QPKQKQKRAQKKPKKTPPPKPKKTQKPKKPTQKKKSKPGKRMR 96

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	371
2r9r_B	514	Paddle chimera voltage gated potassium channel KV;	100.0
1orq_C	223	Potassium channel; voltage-dependent, KVAP, FAB co	99.97
3beh_A	355	MLL3241 protein; transmembrane protein, membrane p	99.96
3rvy_A	285	ION transport protein; tetrameric ION channel, vol	99.95
4dxw_A	229	Navrh, ION transport protein; tetrameric, voltage-	99.9
2a9h_A	155	Voltage-gated potassium channel; potassium channel	99.8
2ih3_C	122	Voltage-gated potassium channel; ION channel D-ami	99.75
1ors_C	132	Potassium channel; voltage-dependent, voltage sens	99.74
2kyh_A	147	KVAP, voltage-gated potassium channel; ION channel	99.6
3eff_K	139	Voltage-gated potassium channel; FULL length KCSA,	99.56
2k1e_A	103	Water soluble analogue of potassium channel, KCSA;	99.55
4h33_A	137	LMO2059 protein; bilayers, KVLM, lipidic cubic pha	99.47
2q67_A	114	Potassium channel protein; inverted teepee, helix	99.38
3ldc_A	82	Calcium-gated potassium channel MTHK; transmembran	99.37
3ouf_A	97	Potassium channel protein; ION channel, membrane,	99.34
3vou_A	148	ION transport 2 domain protein, voltage-gated SOD	99.34
1p7b_A	333	Integral membrane channel and cytosolic domains; t	99.3
3pjs_K	166	KCSA, voltage-gated potassium channel; ION channel	99.27
1xl4_A	301	Inward rectifier potassium channel; integral membr	99.23
1lnq_A	336	MTHK channels, potassium channel related protein;	99.22
4gx0_A	565	TRKA domain protein; membrane protein, ION channel	99.17
2qks_A	321	KIR3.1-prokaryotic KIR channel chimera; G-protein	99.15
3um7_A	309	Potassium channel subfamily K member 4; potassium	98.88
3ukm_A	280	Potassium channel subfamily K member 1; membrane p	98.86
3sya_A	340	G protein-activated inward rectifier potassium CH;	98.86
3um7_A	309	Potassium channel subfamily K member 4; potassium	98.84
3ukm_A	280	Potassium channel subfamily K member 1; membrane p	98.84
3spc_A	343	Inward-rectifier K+ channel KIR2.2; PIP, membrane	98.74
4f4l_A	112	ION transport protein; alpha helical membrane prot	96.13
2r9r_B	514	Paddle chimera voltage gated potassium channel KV;	91.26
4dxw_A	229	Navrh, ION transport protein; tetrameric, voltage-	88.25

>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor, voltage dependent, ION CH shaker, membrane protein, eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 3lnm_B* 3lut_B* 2a79_B*

Probab=100.00  E-value=2e-37  Score=303.46  Aligned_cols=260  Identities=46%  Similarity=0.751  Sum_probs=199.0

Q ss_pred             cchhHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCC-------------------CCC
Q psy6333           5 SHIDIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKA-------------------GNP   65 (371)
Q Consensus         5 ~~~~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~-------------------~~~   65 (371)
                      ++.++|+++|.++++|.||.+    +++|+++++++|++|++++++++++++......                   ...
T Consensus       160 p~~~~r~~lw~l~e~p~sS~~----a~~f~~~~i~~Illsii~~~leT~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (514)
T 2r9r_B          160 PENEFQRQVWLLFEYPESSGP----ARIIAIVSVMVILISIVSFCLETLPIFRDENEDMHGGGVTFHTYSQSTIGYQQST  235 (514)
T ss_dssp             CSCSSHHHHHHTTTCTTSCHH----HHHHHHHHHHHHHHHHHHHHHTTCHHHHTCSTTTTSCCCCHHHHHHHHHSSCCCT
T ss_pred             chHHHHHHHHHHhcCCCCcHH----HHHHHHHHHHHHHHHHHHhhhhccccccccccccccccccccccccccccccccc
Confidence            456789999999999999988    999999999999999999999999876443100                   001


Q ss_pred             CCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHH
Q psy6333          66 IDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRR  145 (371)
Q Consensus        66 ~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (371)
                      .....+.++|.++.++|++|+++|+++++.+.+|++++||++|+++++|+++.+........         ...+...+.
T Consensus       236 ~~~~~l~~ie~i~~~iFtiE~ilR~~~~~~k~~Y~ks~wniiDli~iip~~i~l~~~~~~~~---------~~~~~~~~~  306 (514)
T 2r9r_B          236 SFTDPFFIVETLCIIWFSFEFLVRFFACPSKAGFFTNIMNIIDIVAIIPYYVTIFLTESNKS---------VLQFQNVRR  306 (514)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHHHHHHHHSSCSSSSTTSHHHHHHHHTTHHHHHHHHHHHTSCS---------HHHHHTTHH
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHhchhHHHHHHHHHHHHHHHHhhhcccc---------chhhhhHHH
Confidence            13567889999999999999999999999989999999999999999999988776433211         001222246


Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhh
Q psy6333         146 VVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGIT  225 (371)
Q Consensus       146 ~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t  225 (371)
                      +++++|++|++|++|+.++..+++.+..++..+...+..+++++++++++||+++|+.++..++++|.++++|+||+++|
T Consensus       307 ~lrvlRllRvlRilkL~r~~~~l~~l~~tl~~s~~~l~~ll~~l~i~~~if~~~~~~~e~~~~~~~F~s~~~a~y~~~vT  386 (514)
T 2r9r_B          307 VVQIFRIMRILRIFKLSRHSKGLQILGQTLKASMRELGLLIFFLFIGVILFSSAVYFAEADERDSQFPSIPDAFWWAVVS  386 (514)
T ss_dssp             HHHHHHHHGGGGGGGGGGSCHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHTTCTTCSCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhheeeccCCCccccchhhhhheeeeE
Confidence            78999999999999999999999999999999999998888888888999999999998888888999999999999999


Q ss_pred             hcccccCCcccCCcchhhHHhHHHHH----------------HHHHHHHHHHHHHhhCCCeEEecccc
Q psy6333         226 MTTVGYGDICPTTPLGKMIGSNQMRR----------------EKALKRREAMERAKREGSIVSFHHVN  277 (371)
Q Consensus       226 ~tTvGyGdi~p~t~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~  277 (371)
                      ||||||||++|.|+.|+++++..+..                ....++++........+|+++||+..
T Consensus       387 ~TTvGYGDi~P~t~~gr~f~~~~~l~G~~~l~l~iavI~~~f~~~~~~~~~~~~~~l~~h~iicg~~~  454 (514)
T 2r9r_B          387 MTTVGYGDMVPTTIGGKIVGSLCAIAGVLTIALPVPVIVSNFNYFYHRETEGEEQAQYLQVTSSPKIP  454 (514)
T ss_dssp             HTTCCCSSSCCCSHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHC------------------
T ss_pred             EEecccCCCCCCCcchHhhehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCEEEeCCCc
Confidence            99999999999999999988822211                11112222333345578999998866

>1orq_C Potassium channel; voltage-dependent, KVAP, FAB complex, MEM protein; 3.20A {Aeropyrum pernix} SCOP: f.14.1.1 PDB: 2a0l_A

Probab=99.97  E-value=2.4e-30  Score=228.08  Aligned_cols=196  Identities=22%  Similarity=0.342  Sum_probs=148.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      ++.|++++++++++|++.+++++.+......       ...+.++|.+++++|++|+++|+++++++++|+++  |++|+
T Consensus         7 ~~~f~~~i~~lil~~~~~~~~~~~~~~~~~~-------~~~l~~~d~~~~~iF~~e~~lr~~~~~~~~~y~~~--~iiDl   77 (223)
T 1orq_C            7 HPLVELGVSYAALLSVIVVVVECTMQLSGEY-------LVRLYLVDLILVIILWADYAYRAYKSGDPAGYVKK--TLYEI   77 (223)
T ss_dssp             SHHHHTHHHHHHHHHHHHHHHHHHHHHTTCT-------TTHHHHHHHHHHHHHHHHHHHHHHTTSCHHHHHHH--HHHHC
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHhcccChhh-------hhHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHH--hHHHH
Confidence            5568889999999999999999876654433       57889999999999999999999999999999998  89999


Q ss_pred             HHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhh-hhHHHHHHHHHHHHHHHHHHHHH
Q psy6333         110 LAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHS-TGLQSLGFTLRNSYKELGLLMLF  188 (371)
Q Consensus       110 i~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~-~~l~~l~~~l~~~~~~l~~l~~~  188 (371)
                      ++++|+++...... .            .+...   .++++|++|++|++|+.+.. ...+.+...+..  ..+..++++
T Consensus        78 lailP~~~~~~~~~-~------------~~~~~---~lr~lRllRllR~~r~~~~~~~~~~~l~~~~~~--~~l~~~~~~  139 (223)
T 1orq_C           78 PALVPAGLLALIEG-H------------LAGLG---LFRLVRLLRFLRILLIISRGSKFLSAIADAADK--IRFYHLFGA  139 (223)
T ss_dssp             TTHHHHHHHHHHHH-H------------HHTTT---CHHHHHHHHHHHHHHHHHSCSSHHHHHHHHHHH--HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-c------------hhHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHH
Confidence            99999987664210 0            00111   24444444444444444422 223334333332  235556666


Q ss_pred             HHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         189 LAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++++++++|++.|..|++++++++.+|++|+||+++|+|||||||++|.|+.||++++..|..+
T Consensus       140 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~P~t~~~~~~~~~~~~~G  203 (223)
T 1orq_C          140 VMLTVLYGAFAIYIVEYPDPNSSIKSVFDALWWAVVTATTVGYGDVVPATPIGKVIGIAVMLTG  203 (223)
T ss_dssp             HHHHHHHHHHHHHHTTSSSTTCSCCSHHHHHHHHHHHHTTCCCCSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCcCCCcCcchhHHHhHHhHHhccCCCCCCCCCHhHHHHHHHHHHHH
Confidence            6777788888889998877778889999999999999999999999999999999999777643

>3beh_A MLL3241 protein; transmembrane protein, membrane protein; HET: LDA; 3.10A {Mesorhizobium loti} PDB: 2zd9_A*

Probab=99.96  E-value=1.7e-29  Score=238.10  Aligned_cols=189  Identities=25%  Similarity=0.343  Sum_probs=153.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      +++|++++++++++|+++++++++++.....       ...+.+++.++.++|++|+++|++.++.+..|++++||++|+
T Consensus         7 s~~f~~~~~~~i~ls~~~~~~~t~~~~~~~~-------~~~~~~~~~~~~~~f~~e~~~r~~~~~~~~~~~~~~~~i~Dl   79 (355)
T 3beh_A            7 LRIYAPLNAVLAAPGLLAVAALTIPDMSGRS-------RLALAALLAVIWGAYLLQLAATLLKRRAGVVRDRTPKIAIDV   79 (355)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHHTSSSCCHHH-------HHHHHHHHHHHHHHHHHHHHHHHHCCCSCSSCCCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHcccchhhhH-------HHHHHHHHhHHHHHHHHHHHHhcccccccceeccCcchHHHH
Confidence            3347889999999999999999988764433       245666777777789999999999888877899999999999


Q ss_pred             HHH-HHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q psy6333         110 LAI-MPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLF  188 (371)
Q Consensus       110 i~v-ip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~  188 (371)
                      +++ +|++..+..     .                   ++.+|++|++|++|+.|+...++.+...+..+...+..++++
T Consensus        80 ~~i~~p~~~~~~~-----~-------------------~~~~r~lr~~R~lrl~r~~~~~~~l~~~l~~~~~~l~~~~~~  135 (355)
T 3beh_A           80 LAVLVPLAAFLLD-----G-------------------SPDWSLYCAVWLLKPLRDSTFFPVLGRVLANEARNLIGVTTL  135 (355)
T ss_dssp             HHHHHHHHHHHSC-----C-------------------SGGGGGGGGGGGSHHHHTCSSHHHHHHHHHHTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-----c-------------------chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999 587654321     0                   123455555666666667778888888887778888888888


Q ss_pred             HHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHH
Q psy6333         189 LAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM  249 (371)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~  249 (371)
                      ++++++++|+++|..++..++++|.+|++|+||+++|||||||||++|.|+.|+++++..|
T Consensus       136 ~~~~~~~~a~~~~~~e~~~~~~~f~~~~~s~y~~~~t~ttvGygd~~p~t~~~~~~~~~~~  196 (355)
T 3beh_A          136 FGVVLFAVALAAYVIERDIQPEKFGSIPQAMWWAVVTLSTTGYGDTIPQSFAGRVLAGAVM  196 (355)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHSSHHHHHHHHHHHHTTCCCSSSCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhcCCCCcccccHHHHHHHHHhheeecCCCCCCCCChhHHHHHHHHH
Confidence            8888999999999999988888899999999999999999999999999999999988333

>3rvy_A ION transport protein; tetrameric ION channel, voltage-gated sodium-selective ION C membrane, metal transport; HET: PX4; 2.70A {Arcobacter butzleri} PDB: 3rvz_A* 4ekw_A* 3rw0_A*

Probab=99.95  E-value=6.8e-28  Score=220.20  Aligned_cols=199  Identities=17%  Similarity=0.246  Sum_probs=167.3

Q ss_pred             hHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q psy6333           8 DIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYL   87 (371)
Q Consensus         8 ~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~   87 (371)
                      .+|++++.++++           +.|++++++++++|++++++++++......       ...+.++|.++.++|++|++
T Consensus        18 ~~r~~~~~i~~~-----------~~f~~~i~~li~l~~i~~~~~~~~~~~~~~-------~~~l~~~e~~~~~iF~~E~~   79 (285)
T 3rvy_A           18 HMYLRITNIVES-----------SFFTKFIIYLIVLNGITMGLETSKTFMQSF-------GVYTTLFNQIVITIFTIEII   79 (285)
T ss_dssp             -CHHHHHHHHTS-----------HHHHHHHHHHHHHHHHHHHHTTCTTHHHHS-------HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-----------HHHHHHHHHHHHHHHHHHHHhcCcccchHH-------HHHHHHHHHHHHHHHHHHHH
Confidence            368889998654           468899999999999999999987444333       47789999999999999999


Q ss_pred             HHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q psy6333          88 LRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTG  167 (371)
Q Consensus        88 lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~  167 (371)
                      +|+++++  .+|++++||++|+++++|+++...     .                   .++++|++|++|++|+.+...+
T Consensus        80 lrl~~~~--~~y~~~~wn~~Dl~~v~~~~i~~~-----~-------------------~~~~lr~~RilR~lrl~~~~~~  133 (285)
T 3rvy_A           80 LRIYVHR--ISFFKDPWSLFDFFVVAISLVPTS-----S-------------------GFEILRVLRVLRLFRLVTAVPQ  133 (285)
T ss_dssp             HHHHTTG--GGGGGCHHHHHHHHHHHHHHSCSS-----S-------------------SCTHHHHHGGGGGGHHHHSSTT
T ss_pred             HHHHHHh--HHHHcCChHHhHHHHHHHHHHccc-----c-------------------hHHHHHHHHHHHHHHHHHHHHH
Confidence            9999988  689999999999999999875321     0                   1346777778888888888899


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccC-Ccc-cCCcch----
Q psy6333         168 LQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYG-DIC-PTTPLG----  241 (371)
Q Consensus       168 l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyG-di~-p~t~~~----  241 (371)
                      ++.+..++..+.+.+..+++++++++++||++++.++++.++++|+++++|+||+++|+||+||| |+. |.+..|    
T Consensus       134 l~~l~~~l~~~~~~l~~~~~~~~~~~~~fa~~g~~~f~~~~~~~F~s~~~a~~~~~~~~T~~g~~~di~~p~~~~~~~~~  213 (285)
T 3rvy_A          134 MRKIVSALISVIPGMLSVIALMTLFFYIFAIMATQLFGERFPEWFGTLGESFYTLFQVMTLESWSMGIVRPLMEVYPYAW  213 (285)
T ss_dssp             HHHHHHHHHHHGGGGHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHSSHHHHHHHHHHHHTTTTCCCCCHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCCHHHHHHHHHHHHHhCCCcHHHHHHHHHcCChHH
Confidence            99999999999999999999999999999999998888888888999999999999999999999 986 888876    


Q ss_pred             hhHHhHHHH
Q psy6333         242 KMIGSNQMR  250 (371)
Q Consensus       242 ~~~~~~~~~  250 (371)
                      +++++..+.
T Consensus       214 ~~f~~~~~i  222 (285)
T 3rvy_A          214 VFFIPFIFV  222 (285)
T ss_dssp             HHHHHHHHH
T ss_pred             hhHHHHHHH
Confidence            444444433

>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium channel, sodium selective, gated ION channel; HET: BNG PX4; 3.05A {Alpha proteobacterium HIMB114}

Probab=99.90  E-value=7.3e-24  Score=187.24  Aligned_cols=176  Identities=17%  Similarity=0.256  Sum_probs=143.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      ++.|++++.++|++|++.+++++++.....        ...+..+|.++.++|++|+++|+++.+.+.+|++++||++|+
T Consensus        11 ~~~f~~~i~~~I~ln~i~l~~~~~~~~~~~--------~~~l~~~e~~~~~iF~~E~~lri~~~~~~~~y~~~~wni~D~   82 (229)
T 4dxw_A           11 NRIFQFTVVSIIILNAVLIGATTYELDPLF--------LETIHLLDYGITIFFVIEILIRFIGEKQKADFFKSGWNIFDT   82 (229)
T ss_dssp             CHHHHHHHHHHHHHHHHSTTTCCSSSCHHH--------HHHHHHHHHHHHHHHHHHHHHHHHC---------CHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHccCCCChHH--------HHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHhcCCcHHHHH
Confidence            678999999999999999999997643322        367899999999999999999999998888999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Q psy6333         110 LAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFL  189 (371)
Q Consensus       110 i~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~  189 (371)
                      ++++|+++....     .                 ..++++|++|++|++|+.++.++++.+..++..+.+.+..+.+++
T Consensus        83 ~~v~~~~i~~~~-----~-----------------~~~~~lr~~RilR~lrl~~~~~~l~~l~~~l~~s~~~l~~~~~~l  140 (229)
T 4dxw_A           83 VIVAISLIPIPN-----N-----------------SSFLVLRLLRIFRVLRLISVIPELKQIIEAILESVRRVFFVSLLL  140 (229)
T ss_dssp             HHHHHTTCC------------------------------CCTTHHHHHHTTHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCc-----c-----------------HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999987653311     0                 124566778888888888888999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcc
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDIC  235 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~  235 (371)
                      ++++++||.+++..+++.++++|+++++|+||.++++||.||+|+.
T Consensus       141 ~~~~~ifa~~g~~lf~~~~~~~F~~~~~a~~~lf~~~t~~~w~~i~  186 (229)
T 4dxw_A          141 FIILYIYATMGAILFGNDDPSRWGDLGISLITLFQVLTLSSWETVM  186 (229)
T ss_dssp             HHHHHHHHHHHHHHTTTTSCTTTSSHHHHHHHHHHHHTTSSTHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCcccccCHHHHHHHHHHHHccCCHHHHH
Confidence            9999999999999998888899999999999999999999999974

>2a9h_A Voltage-gated potassium channel; potassium channel, KCSA, structure, membrane protein, metal transport; HET: PCA; NMR {Streptomyces lividans} SCOP: f.14.1.1

Probab=99.80  E-value=6.1e-20  Score=150.56  Aligned_cols=66  Identities=35%  Similarity=0.601  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         187 LFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +++++++++++.+.|..|+..+++.+.+|++|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        57 ~~~~~~i~~~a~~~~~~E~~~~~~~~~s~~~a~y~s~vTltTVGYGDi~P~t~~gr~~~~~~~l~G  122 (155)
T 2a9h_A           57 VLLVIVLLAGSYLAVLAERGAPGAALISYPDALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAG  122 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTSSCSSTTSHHHHHHHHHHHHTTCCCSSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCCCCccCcccceeheeeeeeecccCCCCCCCChhHHHHHHHHHHHH
Confidence            344455667777888888887788899999999999999999999999999999999999777744

>2ih3_C Voltage-gated potassium channel; ION channel D-amino acid semi-synthetic, membrane protein; HET: 1EM; 1.72A {Streptomyces lividans} PDB: 2ih1_C* 1r3j_C* 1k4d_C* 1r3i_C* 1k4c_C* 1r3k_C* 1r3l_C* 2bob_C* 2boc_C* 2hvj_C* 2hvk_C* 2itc_C 2itd_C 3gb7_C* 3iga_C* 1jvm_A 1s5h_C* 3ifx_A* 1j95_A 2jk5_C* ...

Probab=99.75  E-value=2.3e-18  Score=135.91  Aligned_cols=97  Identities=30%  Similarity=0.515  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhh
Q psy6333         146 VVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGIT  225 (371)
Q Consensus       146 ~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t  225 (371)
                      ++|++|++|++|++ +.|+..       .+...  .+...+..+++++++++++.|..|++.+++.+.+|.+|+||+++|
T Consensus         3 ~lr~lRl~Ri~ri~-L~R~~~-------~l~~~--~~~~~~~~~~~~~~~~a~~~~~~E~~~~~~~~~~~~~a~y~~~~T   72 (122)
T 2ih3_C            3 PMLSGLLARLVKLL-LGRHGS-------ALHWR--AAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWACET   72 (122)
T ss_dssp             -----------------------------CHHH--HHHHHHHHHHHHHHHHHHHHHHHHTTSTTCCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-HHHhHH-------HHHHH--HHHHHHHHHHHHHHHHHHhhheeeecCCCCccCccccchhheeee
Confidence            35666777777766 555511       11111  122233334445566777778888887788889999999999999


Q ss_pred             hcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         226 MTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       226 ~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +|||||||++|.|+.||++++..+...
T Consensus        73 ~tTvGyGDi~P~t~~gr~~~~~~~~~G   99 (122)
T 2ih3_C           73 ATTVAYGDLYPVTLWGRLVAVVVMVAG   99 (122)
T ss_dssp             HTTCCCSSSCCCSHHHHHHHHHHHHHH
T ss_pred             eeeeecCCCCCCCccHHHHHHHHHHHH
Confidence            999999999999999999999666533

>1ors_C Potassium channel; voltage-dependent, voltage sensor, KVAP, FAB complex, membrane protein; 1.90A {Aeropyrum pernix} SCOP: f.14.1.1

Probab=99.74  E-value=3.9e-18  Score=136.58  Aligned_cols=125  Identities=15%  Similarity=0.223  Sum_probs=109.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      ++.|++.+++++++|+++++++++++.....       ...+.++|.++.++|++|+++|+++++++.+|++  ||++|+
T Consensus         5 ~~~f~~~i~~lIlls~~~~~~et~~~~~~~~-------~~~l~~~d~~~~~iFt~E~~lRl~~~~~~~~y~~--~niiDl   75 (132)
T 1ors_C            5 HPLVELGVSYAALLSVIVVVVEYTMQLSGEY-------LVRLYLVDLILVIILWADYAYRAYKSGDPAGYVK--KTLYEI   75 (132)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHSCCCSHH-------HHHHHHHHHHHHHHHHHHHHHHHHHTTSTTTTTT--TCGGGT
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhchhhhHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH--HHHHHH
Confidence            6789999999999999999999988765433       4678899999999999999999999999999999  999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q psy6333         110 LAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL  182 (371)
Q Consensus       110 i~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l  182 (371)
                      ++++|+++.... +                  ..++.+|++|++|++|++|+.++..+++.+..++.++.+.+
T Consensus        76 lailp~~~~~~~-~------------------~~l~~lr~lRllRv~Rvlkl~r~~~~l~~l~~~l~~s~~~l  129 (132)
T 1ors_C           76 PALVPAGLLALI-E------------------GHLAGLGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKL  129 (132)
T ss_dssp             GGGSCHHHHHHH-H------------------HHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-c------------------chHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHh
Confidence            999999887765 1                  11256788999999999999999999999999999888775

>2kyh_A KVAP, voltage-gated potassium channel; ION channel, membrane protein; NMR {Aeropyrum pernix}

Probab=99.60  E-value=1.2e-15  Score=123.66  Aligned_cols=131  Identities=13%  Similarity=0.167  Sum_probs=99.6

Q ss_pred             hHHHHHHhhhcCCCCccCccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHH
Q psy6333           8 DIRTFAATLSNVSTTSVSLLPLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYL   87 (371)
Q Consensus         8 ~~r~~~~~~~~~p~s~~~~~~~~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~   87 (371)
                      ..|+++++++++|           .|++.+.+++++|++++++++.+......       ...+..+|.++.++|++|++
T Consensus         9 ~~~~~~~~~~e~~-----------~f~~~i~~lil~sv~~v~~et~~~i~~~~-------~~~~~~id~~~~~iF~~Ey~   70 (147)
T 2kyh_A            9 GRVRNIGDVMEHP-----------LVELGVSYAALLSVIVVVVEYTMQLSGEY-------LVRLYLVDLILVIILWADYA   70 (147)
T ss_dssp             HHHHHHHHHHTCH-----------HHHHHHHHHHHHHHHHHHHHHHCCCCHHH-------HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCc-----------hHHHHHHHHHHHHHHHHHHHHhHhhchhH-------HHHHHHHHHHHHHHHHHHHH
Confidence            4688899997776           36677899999999999999887654433       46788999999999999999


Q ss_pred             HHhhcccchhhhhcccchhhHHHHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q psy6333          88 LRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTG  167 (371)
Q Consensus        88 lr~~~~~~~~~y~~~~~~~iDli~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~  167 (371)
                      +|++.++++.+|+++  |++|+++++|++..+...                   ..++++|++|++|++|++++.+....
T Consensus        71 lRl~~a~~k~~f~~~--~iiDllailP~~~~~~~~-------------------~~lr~lRvlRllRv~Rllrl~r~~~~  129 (147)
T 2kyh_A           71 YRAYKSGDPAGYVKK--TLYEIPALVPAGLLALIE-------------------GHLAGLGLFRLVRLLRFLRILLIISR  129 (147)
T ss_dssp             HHHHHHTCHHHHHHH--STTTHHHHCCHHHHHHHH-------------------HHHHHHTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCcHHHHHHH--HHHHHHHHHHHHHHHHHH-------------------hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998  899999999998765431                   11255666666666666666666555


Q ss_pred             HHHHHHHHHH
Q psy6333         168 LQSLGFTLRN  177 (371)
Q Consensus       168 l~~l~~~l~~  177 (371)
                      ...+..++..
T Consensus       130 ~~~l~~al~~  139 (147)
T 2kyh_A          130 GSKFLSAIAD  139 (147)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>3eff_K Voltage-gated potassium channel; FULL length KCSA, bulge helix, cell membrane, ION transport, ionic channel, membrane, transmembrane; 3.80A {Streptomyces lividans}

Probab=99.56  E-value=4.5e-14  Score=114.17  Aligned_cols=73  Identities=32%  Similarity=0.579  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         180 KELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       180 ~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +.+...++++++++++++++++..++..+++.+.+|.+|+||+++|+|||||||++|.|+.||++++..+..+
T Consensus         6 r~~~~~~~~~~~~~~~~a~~~~~~e~~~~~~~~~~~~~a~yf~~~T~tTvGyGd~~P~t~~~r~~~~~~~~~G   78 (139)
T 3eff_K            6 RAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAG   78 (139)
T ss_dssp             HTHHHHHHHHHHHHHHHHHHHHHTTSSCTTCCCCCHHHHHHHHHHHHTTCCCSSSCCCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCHHHHHHHHheeeecccCCCCcCCCcCHHHHHHHHHHHH
Confidence            3444455566666777888888888887888889999999999999999999999999999999999887744

>2k1e_A Water soluble analogue of potassium channel, KCSA; homotetramer, ION transport, ionic channel, membrane, transmembrane, transport; NMR {Escherichia coli} PDB: 2kb1_A

Probab=99.55  E-value=9.8e-15  Score=111.54  Aligned_cols=68  Identities=31%  Similarity=0.428  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         185 LMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       185 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      .++++++++++++++.+..|+..+++.+.+|.+|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        11 ~~~~~~~~~~~~a~~~~~~E~~~~~~~~~~~~~a~y~~~~T~tTvGyGDi~P~t~~gr~~~~~~~l~G   78 (103)
T 2k1e_A           11 AEEELQKVLEEASKKAVEAERGAPGAALISYPDAIWWSVETATTVGYGDRYPVTEEGRKVAEQVMKAG   78 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTSTTCCCCCGGGTTTTTTGGGGCCSCCSSCCCSSSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhhccCCCCcccccHHHHHHHHHHHHhcccCCCCCCCChhHHHHHHHHHHHH
Confidence            44445555667788888888887788889999999999999999999999999999999999777644

>4h33_A LMO2059 protein; bilayers, KVLM, lipidic cubic phase (LCP), pore module, ION membrane protein; HET: OLC; 3.10A {Listeria monocytogenes} PDB: 4h37_A

Probab=99.47  E-value=6.1e-14  Score=112.71  Aligned_cols=58  Identities=40%  Similarity=0.748  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +++++++++..++.+.+     +.+|++|+||+++|+|||||||++|.|+.||++++..+..+
T Consensus        24 ~~~~~~~~~~~~~~e~~-----~~~~~~a~y~~~~T~tTvGyGDi~P~t~~gr~~~~~~~~~g   81 (137)
T 4h33_A           24 VLLVIIIPVPMVFIEPE-----INNYPDALWWAIVTATTVGYGDIVPVTPIGRILASIMMLFG   81 (137)
T ss_dssp             HHHHHHTHHHHHHHCSS-----CCSHHHHHHHHHHHHTTCCCSSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcC-----CCCHHHHHHHHHHHHHcccCCCCCCCCHhHHHHHHHHHHHH
Confidence            33344555556665543     57899999999999999999999999999999999888754

>2q67_A Potassium channel protein; inverted teepee, helix bundle, tetramer, central cavity, ION metal transport, membrane protein; 2.30A {Bacillus cereus} PDB: 2q68_A 2q6a_A 2q69_A 2ahy_A 2ahz_A

Probab=99.38  E-value=1.3e-12  Score=101.49  Aligned_cols=58  Identities=24%  Similarity=0.385  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         189 LAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++++++++++++|....+      .+|.+|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        30 ~~~~~~~~g~~~~~~~e~------~~~~~a~y~~~~T~tTvGyGdi~P~t~~gr~~~~~~~~~G   87 (114)
T 2q67_A           30 LTILTLISGTIFYSTVEG------LRPIDALYFSVVTLTTVGAGNFSPQTDFGKIFTILYIFIG   87 (114)
T ss_dssp             HHHHHHHHHHHHHHHHSC------CCHHHHHHHHHHHHTSCCCSSCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcC------CCHHHHHHHHHHHhcceeCCCCccCCHhHHHHHHHHHHHH
Confidence            333445556666654332      6899999999999999999999999999999999776643

>3ldc_A Calcium-gated potassium channel MTHK; transmembrane, ION channel, open conformation, IO transport; 1.45A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3lde_A 4hyo_A 4hz3_D 3r65_A 3ous_A 3ldd_A

Probab=99.37  E-value=1.2e-12  Score=95.42  Aligned_cols=53  Identities=34%  Similarity=0.671  Sum_probs=42.8

Q ss_pred             HHHHHHHhh-hhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         193 VLIFSSLAY-FAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       193 ~~~~~~~~~-~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +++++.++| ..|+       .++.+|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        13 ~~~~g~~~~~~~e~-------~~~~~a~yf~~~T~tTvGyGdi~P~t~~~r~~~~~~~~~G   66 (82)
T 3ldc_A           13 VIIYGTAGFHFIEG-------ESWTVSLYWTFVTIATVGYGDYSPHTPLGMYFTCTLIVLG   66 (82)
T ss_dssp             HHHHHHHHHHHHHC-------CCHHHHHHHHHHHHTTCCCCSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-------CCHHHHHHHHHHHhcccCCCCCCCCCccHHHHHHHHHHHH
Confidence            334444444 5565       5999999999999999999999999999999999776533

>3ouf_A Potassium channel protein; ION channel, membrane, membrane protein; 1.55A {Bacillus cereus} PDB: 3t4z_A 3tcu_A 3t1c_A 3tet_A 3t4d_A 3t2m_A 3e86_A 3e83_A 3e89_A 3e8b_A 3e8f_A 3e8g_A 3e8h_A 3k0d_A 3k0g_A 3k06_A 3k08_A 3k04_A 3k03_A

Probab=99.34  E-value=1.6e-12  Score=97.87  Aligned_cols=61  Identities=26%  Similarity=0.461  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         186 MLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      +++++++++++++++|....+      .+|.+|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        10 ~~~~~~~~~~~g~~~~~~~e~------~~~~~a~yf~~~T~tTvGyGdi~P~t~~gr~~~~~~~~~G   70 (97)
T 3ouf_A           10 LFVLTILTLISGTIFYSTVEG------LRPIDALYFSVVTLTTVGYGDFSPQTDFGKIFTILYIFIG   70 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSC------CCHHHHHHHHHHHHTTCCCCSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcC------CCHHHHHHHHHHHHHccCCCCCCCCCccHHHHHHHHHHHH
Confidence            333444455556666654332      6899999999999999999999999999999999666533

>3vou_A ION transport 2 domain protein, voltage-gated SOD channel; 4-helical bundle, ION channel, membrane, transport protein; 3.20A {Bacillus weihenstephanensis}

Probab=99.34  E-value=2.6e-12  Score=104.85  Aligned_cols=60  Identities=22%  Similarity=0.347  Sum_probs=47.1

Q ss_pred             HHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         187 LFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       187 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++++++++++++++|....+      .+|.+|+||+++|+|||||||++|.|+.||++++..+..+
T Consensus        31 ~~~~~~~~~~g~~~~~~~e~------~~~~~a~y~~~~t~tTvGyGd~~p~t~~~r~~~~~~~~~g   90 (148)
T 3vou_A           31 FVLTFLTLTSGTIFYSTVEG------LRPLDALYFSVVTLTTVGDGNFSPQTDFGKVFTILYIFIG   90 (148)
T ss_dssp             HHHHHHHHHHHHHHHHHTSC------CCHHHHHHHHHHHHTTCCCSSCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcC------CCHHHHHHHHHHHHHccCCCCCCCCCccHHHHHHHHHHHH
Confidence            33444455566666653332      6899999999999999999999999999999999888744

>1p7b_A Integral membrane channel and cytosolic domains; transmembrane helices, ION conduction, immunoglobulin fold, assembly; 3.65A {Burkholderia pseudomallei} SCOP: b.1.18.16 f.14.1.1 PDB: 2wll_B* 2wll_A*

Probab=99.30  E-value=1.9e-12  Score=118.74  Aligned_cols=101  Identities=15%  Similarity=0.096  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccc-CCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHHHH
Q psy6333         176 RNSYKELGLLMLFLAMGVLIFSSLAYFAEKD-EHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRREKA  254 (371)
Q Consensus       176 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~~~  254 (371)
                      ..+...++.+++++++++.++++++|+++++ .++..+.+|.+|+||+++|+|||||||++|.|+.|+++++.++..+..
T Consensus        57 ~~~~~~ll~~~~~~~l~~~l~fally~~e~~~~~~~~~~s~~~a~yfs~vT~tTVGYGDi~P~t~~gr~~~~~~~l~G~~  136 (333)
T 1p7b_A           57 KVSWPVFFASLAALFVVNNTLFALLYQLGDAPIANQSPPGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVGMS  136 (333)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHHHHTTTSSSSSCCCCSSSSSTHHHHHHHTTTTTTCCCSCCCCCSHHHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCCCcHHHhHhhhheeeeecCCCCCcCCCHHHHHHHHHHHHHHHH
Confidence            3344455545555444444444555766654 233446799999999999999999999999999999999855543321


Q ss_pred             HHHH----------HHHHHHhhCCCeEEeccc
Q psy6333         255 LKRR----------EAMERAKREGSIVSFHHV  276 (371)
Q Consensus       255 ~~~~----------~~~~~~~~~~~~~~~~~~  276 (371)
                      .-.-          +...+....+|+++|++.
T Consensus       137 ~~a~~ig~i~~~~~~~~~r~~fs~~~VI~~~~  168 (333)
T 1p7b_A          137 GIALSTGLVFARFARPRAKIMFARHAIVRPFN  168 (333)
T ss_dssp             HHHHHHHHHHHHHTSCCCCCEECSCEEEEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCCEEEcCCC
Confidence            1100          000113347899999763

>3pjs_K KCSA, voltage-gated potassium channel; ION channel, conducts K+ IONS, cell membrane, transport PROT; 3.80A {Streptomyces lividans} PDB: 1f6g_A

Probab=99.27  E-value=7.4e-14  Score=116.24  Aligned_cols=63  Identities=33%  Similarity=0.603  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++++++++++.|..+++.+++.+.+|.+|+||+++|+|||||||++|.|+.||++++..+..+
T Consensus        43 ~~~~~~~a~~~~~~e~~~~~~~~~~~~~a~yf~~~T~tTvGyGDi~P~t~~~r~~~~~~~l~G  105 (166)
T 3pjs_K           43 VIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRLVAVVVMVAG  105 (166)
T ss_dssp             TTTTTTTSSSSSSTTSSSTTCCCCSTTTTTTTTHHHHSCCCCSSSCCCSSTTTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCCcccCCHHHHHHHHHHHhccccCCCCCCCCHhHHHHHHHHHHHH
Confidence            344455566667778777777889999999999999999999999999999999999888744

>1xl4_A Inward rectifier potassium channel; integral membrane protein, ION channel, inwardly rectifying channel, metal transport; 2.60A {Magnetospirillum magnetotacticum} SCOP: b.1.18.16 f.14.1.1 PDB: 1xl6_A* 2wlh_A 2wli_B 2wlj_A* 2wlk_A* 2wlm_A 2wlo_A 2wln_A 3zrs_A 2wli_A 2x6c_A* 2x6b_A* 2x6a_A*

Probab=99.23  E-value=1.4e-11  Score=111.91  Aligned_cols=61  Identities=20%  Similarity=0.331  Sum_probs=47.7

Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                      ++.+++||++.+..++..++..+.++++|+||+++|+|||||||++|.|+.|+++++..+.
T Consensus        58 ~~~~l~fa~ly~~~~~~~~~~~~~s~~~a~yfs~vT~tTvGYGDi~P~t~~gr~~~~~~~l  118 (301)
T 1xl4_A           58 LVTNALFALAYLACGDVIENARPGSFTDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEAL  118 (301)
T ss_dssp             HHHHHHHHHHHHHTCSCSTTSCTTCHHHHHHHHHHHHTTCCCSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhccccCCCCcCCHHHHHHHhhhheeccCCCCCcCCCHHHHHHHHHHHH
Confidence            3445677877444433344556789999999999999999999999999999999984443

>1lnq_A MTHK channels, potassium channel related protein; rossman fold, helix bundle, membrane protein; 3.30A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.2.1.9 d.286.1.1 f.14.1.1 PDB: 3rbz_A

Probab=99.22  E-value=5.6e-13  Score=124.13  Aligned_cols=92  Identities=22%  Similarity=0.425  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHHHhh-hhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHH-----------------
Q psy6333         188 FLAMGVLIFSSLAY-FAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM-----------------  249 (371)
Q Consensus       188 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~-----------------  249 (371)
                      +++++++++++++| +.++       .+|.+|+||+++|+|||||||++|.|+.||++++..+                 
T Consensus        25 ~~~~~~~~~~~~~~~~~e~-------~~~~~a~y~~~~t~tTvGyGd~~p~t~~~r~~~~~~~~~g~~~~~~~~~~~~~~   97 (336)
T 1lnq_A           25 LLVLAVIIYGTAGFHFIEG-------ESWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIVLGIGTFAVAVERLLEF   97 (336)
T ss_dssp             TTTTTSHHHHTTTTTTSSS-------CCSSTTHHHHHHHHTTCCCSSCCCCCSSHHHHHTHHHHTTSTTTTTHHHHHTTT
T ss_pred             HHHHHHHHHHHHHHHHHhC-------CCHHHHHHHHHHHhhcccCCCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344556666666 4443       5899999999999999999999999999999998211                 


Q ss_pred             HHHHHHHHHHHHHHHhhCCCeEEecccchhhHhhhhc
Q psy6333         250 RREKALKRREAMERAKREGSIVSFHHVNLRDAFAKSM  286 (371)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  286 (371)
                      ..+...++..........+|+++||.++++...++..
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~viI~G~G~~g~~l~~~L  134 (336)
T 1lnq_A           98 LINREQMKLMGLIDVAKSRHVVICGWSESTLECLREL  134 (336)
T ss_dssp             C-----------------CEEEEESCCHHHHHHHTTG
T ss_pred             HHHHHHHHHHhhhhhcccCCEEEECCcHHHHHHHHHH
Confidence            1111111111222233367999999998888876655

>4gx0_A TRKA domain protein; membrane protein, ION channel, ADP binding, NAD binding, MEM transport protein; HET: MAL GLC; 2.60A {Geobacter sulfurreducens} PDB: 4gx1_A* 4gx2_A* 4gx5_A 4gvl_A*

Probab=99.17  E-value=4.3e-11  Score=119.18  Aligned_cols=74  Identities=22%  Similarity=0.339  Sum_probs=53.9

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH------------------HHHHHHHHHHH-----HhhCCC
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE------------------KALKRREAMER-----AKREGS  269 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~------------------~~~~~~~~~~~-----~~~~~~  269 (371)
                      .+|++|+||+++|+|||||||++|.|+.||++++..+...                  ...+++.....     ....+|
T Consensus        50 ~~~~~~~y~~~~t~tTvGygd~~p~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h  129 (565)
T 4gx0_A           50 YSFMAGIYWTITVMTTLGFGDITFESDAGYLFASIVTVSGVIFLDIILPFGFVSMFLAPWIERRLRYHPTIELPDDTRGH  129 (565)
T ss_dssp             CCHHHHHHHHHHHHTTCCCCSSCCCSHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTSCCCBCCCCTTCCSC
T ss_pred             CchhhhhheeeeeeeeecCCCcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccCCe
Confidence            5899999999999999999999999999999998332211                  11111111111     234789


Q ss_pred             eEEecccchhhHhhhhc
Q psy6333         270 IVSFHHVNLRDAFAKSM  286 (371)
Q Consensus       270 ~~~~~~~~l~~~~~~~~  286 (371)
                      +++||.++++...++.+
T Consensus       130 viI~G~g~~g~~la~~L  146 (565)
T 4gx0_A          130 ILIFGIDPITRTLIRKL  146 (565)
T ss_dssp             EEEESCCHHHHHHHHHT
T ss_pred             EEEECCChHHHHHHHHH
Confidence            99999999888876655

>2qks_A KIR3.1-prokaryotic KIR channel chimera; G-protein gated inward rectifier, potassium channel selectivity filter, metal transport; HET: BNG; 2.20A {Burkholderia xenovorans}

Probab=99.15  E-value=6.2e-11  Score=108.37  Aligned_cols=58  Identities=21%  Similarity=0.339  Sum_probs=44.6

Q ss_pred             HHHHHHHHHhhhhcccCCCCCcC--ChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         191 MGVLIFSSLAYFAEKDEHDTKFV--SIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                      +.+++||.  ++.+++....++.  +|.+|+||+++|+|||||||++|.|..|+++++..+.
T Consensus        55 ~~~~~fa~--~~~eg~~~~~~~~~~s~~~a~y~s~vT~tTVGYGDi~P~t~~gr~~~~~~~l  114 (321)
T 2qks_A           55 LLNTAFAT--LYMLGSAPIANQFPAGFGGAFFFSVETLATVGYGDMHPQTVYAHWIATLEIF  114 (321)
T ss_dssp             HHHHHHHH--HHHTSSSCBTTCSSTTHHHHHHHHHHHHTTCCCCSSCBCSHHHHHHHHHHHH
T ss_pred             HHHHHHHH--HHHcCCccccCcCCcchhheeeeeeEEeccccCCCcCcccHHHHHHHHHHHH
Confidence            34455552  2455554455666  9999999999999999999999999999988884443

>3um7_A Potassium channel subfamily K member 4; potassium ION channel, metal transport; 3.31A {Homo sapiens}

Probab=98.88  E-value=4e-09  Score=95.32  Aligned_cols=36  Identities=25%  Similarity=0.562  Sum_probs=33.8

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhhHHhHH
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQ  248 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~  248 (371)
                      ++|.+|+||+++|+|||||||++|.|..||++++..
T Consensus       114 w~~~~a~yf~~~t~tTvGYGdi~P~T~~gk~~~i~~  149 (309)
T 3um7_A          114 WDLGSAFFFSGTIITTIGYGNVALRTDAGRLFCIFY  149 (309)
T ss_dssp             CSHHHHHHHHHHHHTSCCCCSSCCCSHHHHHHHHHH
T ss_pred             CChhhhhHhhheeeeecccCCCCCCCccchhHHHHH
Confidence            589999999999999999999999999999999933

>3ukm_A Potassium channel subfamily K member 1; membrane protein, eukaryotic, two-pore DO potassium channel, K2P channel, membrane; HET: UND; 3.40A {Homo sapiens}

Probab=98.86  E-value=4.4e-09  Score=93.65  Aligned_cols=40  Identities=23%  Similarity=0.316  Sum_probs=35.3

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcc-------hhhHHhHHHHHH
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPL-------GKMIGSNQMRRE  252 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~-------~~~~~~~~~~~~  252 (371)
                      .+|+||+||+++|+|||||||++|.|+.       ||++++.++..+
T Consensus       200 ~s~~da~y~~~iTltTvGyGD~~p~t~~~~~~~~l~r~~~~~~il~G  246 (280)
T 3ukm_A          200 WNFLESFYFCFISLSTIGLGDYVPGEGYNQKFRELYKIGITCYLLLG  246 (280)
T ss_dssp             CCHHHHHHHHHHHHTTCCCCSCCSSCSSSCTTHHHHHHHHHHHHHHH
T ss_pred             CchhhhhhheeeeeecccCCCCCCCCCcccccchhHHHHHHHHHHHH
Confidence            7899999999999999999999999996       488888776644

>3sya_A G protein-activated inward rectifier potassium CH; ION channel, potassium channel, inward rectification, sodium PIP2 binding, G protein binding; HET: PIO; 2.98A {Mus musculus} PDB: 3syo_A 3syc_A 3syp_A 3syq_A*

Probab=98.86  E-value=3.1e-09  Score=97.23  Aligned_cols=39  Identities=28%  Similarity=0.302  Sum_probs=33.9

Q ss_pred             CcCChhhHHHHhhhhhcccccCCcccC--CcchhhHHhHHH
Q psy6333         211 KFVSIPETFWWAGITMTTVGYGDICPT--TPLGKMIGSNQM  249 (371)
Q Consensus       211 ~~~~~~~s~y~~~~t~tTvGyGdi~p~--t~~~~~~~~~~~  249 (371)
                      +..++.+|+||+++|+|||||||++|.  ++.|+++++.++
T Consensus        88 ~~~sf~~af~fSv~T~TTvGYGd~~p~~~~~~g~~l~~~~~  128 (340)
T 3sya_A           88 NLNGFVSAFLFSIETETTIGYGYRVITDKCPEGIILLLIQS  128 (340)
T ss_dssp             CCCSTTHHHHHHHHHHSCCCCSSSCBCTTCHHHHHHHHHHH
T ss_pred             cccCHHHHHhhhheeeeeecCCCccCcCcCHHHHHHHHHHH
Confidence            467899999999999999999999997  678998888444

>3um7_A Potassium channel subfamily K member 4; potassium ION channel, metal transport; 3.31A {Homo sapiens}

Probab=98.84  E-value=5e-09  Score=94.71  Aligned_cols=40  Identities=23%  Similarity=0.208  Sum_probs=34.7

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhh------HHhHHHHHH
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKM------IGSNQMRRE  252 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~------~~~~~~~~~  252 (371)
                      .+|.||+||+++|+|||||||++|.+..|+.      +++..+..+
T Consensus       223 ~~~~da~y~~~vTltTvGyGd~~p~t~~g~~~~~y~~~~~~~il~G  268 (309)
T 3um7_A          223 WSKLEAIYFVIVTLTTVGFGDYVAGADPRQDSPAYQPLVWFWILLG  268 (309)
T ss_dssp             CCHHHHHHHHHHHHTTCCCSSCCTTCCTTCCCSTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhheeccccCCCCCCCccccccchHHHHHHHHHHHH
Confidence            6899999999999999999999999999984      777555533

>3ukm_A Potassium channel subfamily K member 1; membrane protein, eukaryotic, two-pore DO potassium channel, K2P channel, membrane; HET: UND; 3.40A {Homo sapiens}

Probab=98.84  E-value=5.1e-09  Score=93.21  Aligned_cols=38  Identities=21%  Similarity=0.342  Sum_probs=34.8

Q ss_pred             cCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHH
Q psy6333         212 FVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM  249 (371)
Q Consensus       212 ~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~  249 (371)
                      -+++.+|+||+++|+|||||||++|.|+.||++++..+
T Consensus        91 ~w~~~~a~yf~~~t~tTvGyGd~~P~T~~Gk~f~~~~~  128 (280)
T 3ukm_A           91 NWDFTSALFFASTVLSTTGYGHTVPLSDGGKAFCIIYS  128 (280)
T ss_dssp             CSSHHHHHHHHHHHHTTCCCCSSCCCSHHHHHHHHHHH
T ss_pred             CCChhcchhheeeeeeccccCCcCCCCchhHHHHHHHH
Confidence            35899999999999999999999999999999999443

>3spc_A Inward-rectifier K+ channel KIR2.2; PIP, membrane protein, lipid, receptor, metal transport; HET: P8P; 2.45A {Gallus gallus} PDB: 3jyc_A* 3spi_A* 3sph_A* 3spj_A 3spg_A*

Probab=98.74  E-value=9.4e-09  Score=94.15  Aligned_cols=40  Identities=30%  Similarity=0.382  Sum_probs=34.4

Q ss_pred             CcCChhhHHHHhhhhhcccccCCcccC--CcchhhHHhHHHH
Q psy6333         211 KFVSIPETFWWAGITMTTVGYGDICPT--TPLGKMIGSNQMR  250 (371)
Q Consensus       211 ~~~~~~~s~y~~~~t~tTvGyGdi~p~--t~~~~~~~~~~~~  250 (371)
                      ++.++.+|+||+++|+|||||||++|.  ++.|+++++.++.
T Consensus        91 ~~~sf~~af~fSv~T~TTvGYGd~~p~~~~~~~~~l~~~~~l  132 (343)
T 3spc_A           91 QVNGFVAAFLFSIETQTTIGYGFRCVTEECPLAVFMVVVQSI  132 (343)
T ss_dssp             TCCSHHHHHHHHHHHHSCCCCSSSEECSSCHHHHHHHHHHHH
T ss_pred             ccCCHHHHhheeeeeeEeecCCCccCCCCCHHHHHHHHHHHH
Confidence            467999999999999999999999974  8899988884443

>4f4l_A ION transport protein; alpha helical membrane protein, voltage-gated sodium channel membrane, metal transport; 3.49A {Magnetococcus marinus}

Probab=96.13  E-value=0.0033  Score=47.90  Aligned_cols=56  Identities=13%  Similarity=0.029  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCc
Q psy6333         179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDI  234 (371)
Q Consensus       179 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi  234 (371)
                      ...++.+++++++++++||.++..+.++..+.+|++++.|+.-.++.+|+-||.|+
T Consensus         3 ~~g~~nv~~ll~l~~~ifAi~G~~lFg~~~~~~F~~~~~s~ltLF~i~T~e~W~~~   58 (112)
T 4f4l_A            3 HMGVGSVAALLTVVFYIAAVMATNLYGATFPEWFGDLSKSLYTLFQVMTLESWSMG   58 (112)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHHHHTTTCHHHHSSHHHHHHHHHHHHTTTTCCCC
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHCCCccccccCHHHHHHHHHHHHHccccHHH
Confidence            34466677788888899999999888888888899999999999999999998753

>2r9r_B Paddle chimera voltage gated potassium channel KV; voltage sensor, voltage dependent, ION CH shaker, membrane protein, eukaryotic; HET: NAP PGW; 2.40A {Rattus norvegicus} PDB: 3lnm_B* 3lut_B* 2a79_B*

Probab=91.26  E-value=4.3  Score=39.23  Aligned_cols=21  Identities=10%  Similarity=0.339  Sum_probs=14.9

Q ss_pred             cccchhhHHHHHHHHHHHHHH
Q psy6333         101 KGGLNVIDLLAIMPYYISLFL  121 (371)
Q Consensus       101 ~~~~~~iDli~vip~~i~~~~  121 (371)
                      ...+.++|.++++-+.+.++.
T Consensus       238 ~~~l~~ie~i~~~iFtiE~il  258 (514)
T 2r9r_B          238 TDPFFIVETLCIIWFSFEFLV  258 (514)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHH
Confidence            344668888888877766655

>4dxw_A Navrh, ION transport protein; tetrameric, voltage-gated sodium channel, sodium selective, gated ION channel; HET: BNG PX4; 3.05A {Alpha proteobacterium HIMB114}

Probab=88.25  E-value=4.8  Score=34.07  Aligned_cols=85  Identities=15%  Similarity=0.086  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcc
Q psy6333         149 VFRIMRILRILKLARHSTGLQSLGFTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTT  228 (371)
Q Consensus       149 ~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tT  228 (371)
                      .++.+|++|++|..|..+..+.+..........+..+..+++++.+++.......-.-.+... ....+++..++.|+..
T Consensus        97 ~~~~lr~~RilR~lrl~~~~~~l~~l~~~l~~s~~~l~~~~~~l~~~~~ifa~~g~~lf~~~~-~~~F~~~~~a~~~lf~  175 (229)
T 4dxw_A           97 SFLVLRLLRIFRVLRLISVIPELKQIIEAILESVRRVFFVSLLLFIILYIYATMGAILFGNDD-PSRWGDLGISLITLFQ  175 (229)
T ss_dssp             ---CCTTHHHHHHTTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTS-CTTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-cccccCHHHHHHHHHH
Confidence            446668888888888776666555444444444444443333322222222222233334433 3445778888888877


Q ss_pred             cccCCc
Q psy6333         229 VGYGDI  234 (371)
Q Consensus       229 vGyGdi  234 (371)
                      +-.||-
T Consensus       176 ~~t~~~  181 (229)
T 4dxw_A          176 VLTLSS  181 (229)
T ss_dssp             HHTTSS
T ss_pred             HHccCC
Confidence            777663

---

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	371
d2h8pc1	57	f.14.1.1 (C:22-78) Potassium channel protein {Stre	2e-23
d1r3jc_	103	f.14.1.1 (C:) Potassium channel protein {Streptomy	3e-18
d1xl4a2	116	f.14.1.1 (A:23-138) Inward rectifier potassium cha	8e-18
d1orsc_	132	f.14.1.1 (C:) Potassium channel KVAP {Archaeon Aer	2e-15
d1lnqa2	80	f.14.1.1 (A:19-98) Potassium channel-related prote	2e-14
d1p7ba2	116	f.14.1.1 (A:36-151) Inward rectifier potassium cha	1e-12
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-04
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	0.001
d1zroa2	314	a.264.1.1 (A:283-596) Erythrocyte binding antigen	0.003
d1zroa1	275	a.264.1.1 (A:8-282) Erythrocyte binding antigen re	0.003
d1oisa_	223	e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-te	0.004
d1k4ta3	230	e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase	0.004
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	0.004

>d2h8pc1 f.14.1.1 (C:22-78) Potassium channel protein {Streptomyces coelicolor [TaxId: 1902]} Length = 57

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel protein
species: Streptomyces coelicolor [TaxId: 1902]

 Score = 89.9 bits (223), Expect = 2e-23
 Identities = 18/53 (33%), Positives = 27/53 (50%)

Query: 179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGY 231
           ++  G   + L + +L  S LA  AE+     + ++ P   WWA  T TTVGY
Sbjct: 5   WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWACETATTVGY 57

>d1r3jc_ f.14.1.1 (C:) Potassium channel protein {Streptomyces coelicolor [TaxId: 1902]} Length = 103

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel protein
species: Streptomyces coelicolor [TaxId: 1902]

 Score = 77.3 bits (190), Expect = 3e-18
 Identities = 23/72 (31%), Positives = 36/72 (50%)

Query: 178 SYKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPT 237
            ++  G   + L + +L  S LA  AE+     + ++ P   WW+  T TTVGYGD+ P 
Sbjct: 4   HWRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPV 63

Query: 238 TPLGKMIGSNQM 249
           T  G+ +    M
Sbjct: 64  TLWGRCVAVVVM 75

>d1xl4a2 f.14.1.1 (A:23-138) Inward rectifier potassium channel kirbac3.1 {Magnetospirillum magnetotacticum [TaxId: 188]} Length = 116

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Inward rectifier potassium channel kirbac3.1
species: Magnetospirillum magnetotacticum [TaxId: 188]

 Score = 76.6 bits (188), Expect = 8e-18
 Identities = 23/95 (24%), Positives = 40/95 (42%), Gaps = 3/95 (3%)

Query: 158 ILKLARHSTGLQSLGFT--LRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDE-HDTKFVS 214
           I +L     G     +   L  S+     L+  L +      +LAY A  D   + +  S
Sbjct: 1   ITRLGLEKRGWLDDHYHDLLTVSWPVFITLITGLYLVTNALFALAYLACGDVIENARPGS 60

Query: 215 IPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQM 249
             + F+++  TM T+GYG + P  PL   + + + 
Sbjct: 61  FTDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEA 95

>d1orsc_ f.14.1.1 (C:) Potassium channel KVAP {Archaeon Aeropyrum pernix [TaxId: 56636]} Length = 132

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel KVAP
species: Archaeon Aeropyrum pernix [TaxId: 56636]

 Score = 70.0 bits (171), Expect = 2e-15
 Identities = 20/155 (12%), Positives = 53/155 (34%), Gaps = 31/155 (20%)

Query: 28  PLFQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYL 87
           PL ++         +LS + + +     L             +L +V+ + +     +Y 
Sbjct: 6   PLVELGVSY---AALLSVIVVVVEYTMQLSG-------EYLVRLYLVDLILVIILWADYA 55

Query: 88  LRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVV 147
            R   S +   + K    + ++ A++P  +                       +     +
Sbjct: 56  YRAYKSGDPAGYVK--KTLYEIPALVPAGLLAL-------------------IEGHLAGL 94

Query: 148 QVFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL 182
            +FR++R+LR L++    +        + ++  +L
Sbjct: 95  GLFRLVRLLRFLRILLIISRGSKFLSAIADAADKL 129

>d1lnqa2 f.14.1.1 (A:19-98) Potassium channel-related protein MthK {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]} Length = 80

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel-related protein MthK
species: Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]

 Score = 65.9 bits (161), Expect = 2e-14
 Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 6/63 (9%)

Query: 184 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 243
             +L L + V+I+ +  +   + E      S   + +W  +T+ TVGYGD  P+TPLG  
Sbjct: 3   TRILLLVLAVIIYGTAGFHFIEGE------SWTVSLYWTFVTIATVGYGDYSPSTPLGMY 56

Query: 244 IGS 246
              
Sbjct: 57  FTV 59

>d1p7ba2 f.14.1.1 (A:36-151) Inward rectifier potassium channel Kirbac1.1 {Burkholderia pseudomallei [TaxId: 28450]} Length = 116

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Inward rectifier potassium channel Kirbac1.1
species: Burkholderia pseudomallei [TaxId: 28450]

 Score = 61.5 bits (149), Expect = 1e-12
 Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 1/78 (1%)

Query: 173 FTLRNSYKELGLLMLFLAMGVLIFSSLAYFAEKDEH-DTKFVSIPETFWWAGITMTTVGY 231
           + L+ S+      +  L +      +L Y        +         F+++  T+ TVGY
Sbjct: 19  WALKVSWPVFFASLAALFVVNNTLFALLYQLGDAPIANQSPPGFVGAFFFSVETLATVGY 78

Query: 232 GDICPTTPLGKMIGSNQM 249
           GD+ P T     I + ++
Sbjct: 79  GDMHPQTVYAHAIATLEI 96

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.3 bits (89), Expect = 3e-04
 Identities = 12/71 (16%), Positives = 30/71 (42%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             +  RK ++ +  +    K+  E+E  +K  ++     K  K+K  +K    +E ++  
Sbjct: 53  AAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAH 112

Query: 360 KKKKKKEKRKK 370
                +  ++K
Sbjct: 113 LAAMLERLQEK 123

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 13/70 (18%), Positives = 32/70 (45%)

Query: 300 REKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKK 359
             ++    R+  +K   +     +  K+K  +K +  K+ R+       +R +E+ K  +
Sbjct: 69  LAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAE 128

Query: 360 KKKKKKEKRK 369
           + +K KE ++
Sbjct: 129 EVRKNKELKE 138

>d1oisa_ e.15.1.1 (A:) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 223

class: Multi-domain proteins (alpha and beta)
fold: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
superfamily: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
family: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
domain: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 10/58 (17%), Positives = 27/58 (46%)

Query: 310 KKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
            +  ++        + K+  +    K     + +K +KK+   +EKK+ + +++K E+
Sbjct: 71  LQVLKESGGPLNGIEIKEFSRCDFTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEE 128

>d1k4ta3 e.15.1.1 (A:201-430) Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment {Human (Homo sapiens) [TaxId: 9606]} Length = 230

class: Multi-domain proteins (alpha and beta)
fold: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
superfamily: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
family: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
domain: Eukaryotic DNA topoisomerase I, N-terminal DNA-binding fragment
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (83), Expect = 0.004
 Identities = 14/54 (25%), Positives = 23/54 (42%)

Query: 314 RKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEKKKKKKKKKKKEK 367
           RK    + K       K    +  +  K +   +K+  KEEK K K++ +K  K
Sbjct: 83  RKEMTNEEKNIITNLSKCDFTQMSQYFKAQTEARKQMSKEEKLKIKEENEKLLK 136

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 0.004
 Identities = 10/65 (15%), Positives = 31/65 (47%)

Query: 296 EILIREKRERKRRKKKKKRKRKRKKRKEKEKKKKKRKKKKRKKKRKKKKRKKKKRKKEEK 355
           E   R  +E  ++  +K    + +  KE+E+    + +++ +  ++  +++ +  K E +
Sbjct: 235 EQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQ 294

Query: 356 KKKKK 360
             + K
Sbjct: 295 DLQTK 299

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	371
d1orsc_	132	Potassium channel KVAP {Archaeon Aeropyrum pernix	99.67
d1r3jc_	103	Potassium channel protein {Streptomyces coelicolor	99.65
d1xl4a2	116	Inward rectifier potassium channel kirbac3.1 {Magn	99.41
d2h8pc1	57	Potassium channel protein {Streptomyces coelicolor	99.41
d1p7ba2	116	Inward rectifier potassium channel Kirbac1.1 {Burk	99.38
d1lnqa2	80	Potassium channel-related protein MthK {Archaeon M	99.23

>d1orsc_ f.14.1.1 (C:) Potassium channel KVAP {Archaeon Aeropyrum pernix [TaxId: 56636]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel KVAP
species: Archaeon Aeropyrum pernix [TaxId: 56636]

Probab=99.67  E-value=9.2e-17  Score=126.35  Aligned_cols=125  Identities=14%  Similarity=0.208  Sum_probs=104.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccccccCCCCCCCCChhHHHHHHHHHHHHHHHHHHHhhcccchhhhhcccchhhHH
Q psy6333          30 FQIIAIISIMFIVLSTVALTLNTIPSLQHKDKAGNPIDNPKLAIVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDL  109 (371)
Q Consensus        30 ~~~~~~~~~~liil~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~iF~~d~~lr~~~~~~~~~y~~~~~~~iDl  109 (371)
                      ++.+++.+.+++++|++.++++++++....+       ...+.++|.++.++|++|+++|+++++++..|.+  ||++|+
T Consensus         5 ~p~~e~~i~~lillnvi~~~let~~~~~~~~-------~~~l~~~e~v~~~iF~~E~~lrl~~~~~~~~~~~--~~~iDl   75 (132)
T d1orsc_           5 HPLVELGVSYAALLSVIVVVVEYTMQLSGEY-------LVRLYLVDLILVIILWADYAYRAYKSGDPAGYVK--KTLYEI   75 (132)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHSCCCSHH-------HHHHHHHHHHHHHHHHHHHHHHHHHTTSTTTTTT--TCGGGT
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhccccchhh-------hHHHHHHHHHHHHHHHHHHHHHHHhCCccceeCC--cchHHH
Confidence            4568889999999999999999988765544       5778999999999999999999999998888875  589999


Q ss_pred             HHHHHHHHHHHHhhcCCCCchhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q psy6333         110 LAIMPYYISLFLLESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRNSYKEL  182 (371)
Q Consensus       110 i~vip~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lrllRllri~~l~~~~~~l~~l~~~l~~~~~~l  182 (371)
                      ++++|+++.......                   ...++++|++|++|++|+.+..+..+.+..++.++...+
T Consensus        76 ~ai~p~~~~~~~~~~-------------------~~~lr~lR~~R~~R~lrl~~~~~~~~~ll~ai~~s~~~l  129 (132)
T d1orsc_          76 PALVPAGLLALIEGH-------------------LAGLGLFRLVRLLRFLRILLIISRGSKFLSAIADAADKL  129 (132)
T ss_dssp             GGGSCHHHHHHHHHH-------------------HHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhh-------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999987765321                   245778888888888888888888888888888887765

>d1r3jc_ f.14.1.1 (C:) Potassium channel protein {Streptomyces coelicolor [TaxId: 1902]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel protein
species: Streptomyces coelicolor [TaxId: 1902]

Probab=99.65  E-value=1.7e-16  Score=119.49  Aligned_cols=72  Identities=32%  Similarity=0.558  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         181 ELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       181 ~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      .+...++++++++++++.+.++.|++.+++.+.+|++|+||+++|+|||||||++|.|+.||++++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~s~~~~~~e~~~~~~~~~s~~~aly~~~vT~tTvGYGDi~P~t~~gr~~~~~~~~~G   78 (103)
T d1r3jc_           7 AAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWSVETATTVGYGDLYPVTLWGRCVAVVVMVAG   78 (103)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTSTTCCCCSHHHHHHHHHHHHTTCCCSSSCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCcccCchhhhhhhheeeecccccCccccCChhHHHHHHHHHHHH
Confidence            334444555555667778888889888888899999999999999999999999999999999999776633

>d1xl4a2 f.14.1.1 (A:23-138) Inward rectifier potassium channel kirbac3.1 {Magnetospirillum magnetotacticum [TaxId: 188]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Inward rectifier potassium channel kirbac3.1
species: Magnetospirillum magnetotacticum [TaxId: 188]

Probab=99.41  E-value=2.3e-13  Score=104.50  Aligned_cols=62  Identities=19%  Similarity=0.316  Sum_probs=49.6

Q ss_pred             HHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         191 MGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       191 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ...++|+++.+..++..++....+|.+|+||+++|+|||||||++|.|+.||++++..+...
T Consensus        37 ~~~~~fa~~y~~~~~~~~~~~~~~~~~a~yfs~~T~tTvGYGDi~P~t~~~r~~~~~~~~~G   98 (116)
T d1xl4a2          37 VTNALFALAYLACGDVIENARPGSFTDAFFFSVQTMATIGYGKLIPIGPLANTLVTLEALCG   98 (116)
T ss_dssp             HHHHHHHHHHHHTCSCSTTSCTTCHHHHHHHHHHHHTTCCCSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHccCCCCccccCCcHHHHHHHHHHHHH
Confidence            33445555555555555566678999999999999999999999999999999999777644

>d2h8pc1 f.14.1.1 (C:22-78) Potassium channel protein {Streptomyces coelicolor [TaxId: 1902]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel protein
species: Streptomyces coelicolor [TaxId: 1902]

Probab=99.41  E-value=2.1e-13  Score=88.38  Aligned_cols=53  Identities=34%  Similarity=0.634  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhccccc
Q psy6333         179 YKELGLLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGY  231 (371)
Q Consensus       179 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGy  231 (371)
                      .+.++..++++++++++++.+.|+.|++.+++.|.++++|+||+++|||||||
T Consensus         5 ~R~~~~~~~~~~i~i~~~s~~~y~~E~~~~~~~f~sip~a~WWaivT~TTVGY   57 (57)
T d2h8pc1           5 WRAAGAATVLLVIVLLAGSYLAVLAERGAPGAQLITYPRALWWACETATTVGY   57 (57)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTSTTCCCCSHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCccccccchhhhhheeeeecccC
Confidence            35667777888888889999999999999999999999999999999999998

>d1p7ba2 f.14.1.1 (A:36-151) Inward rectifier potassium channel Kirbac1.1 {Burkholderia pseudomallei [TaxId: 28450]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Inward rectifier potassium channel Kirbac1.1
species: Burkholderia pseudomallei [TaxId: 28450]

Probab=99.38  E-value=2.8e-13  Score=103.91  Aligned_cols=63  Identities=21%  Similarity=0.330  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHhhhhcccCCCCCcCChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHHHH
Q psy6333         190 AMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMRRE  252 (371)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~~~  252 (371)
                      ++..++||++.+..++..++....+|.+|+||+++|+|||||||++|.|+.|+++++.++...
T Consensus        37 ~~~~~~fa~~y~~~~~~~~~~~~~~~~~a~yfs~~T~tTvGYGDi~P~t~~~~~~~~~~~~~g   99 (116)
T d1p7ba2          37 VVNNTLFALLYQLGDAPIANQSPPGFVGAFFFSVETLATVGYGDMHPQTVYAHAIATLEIFVG   99 (116)
T ss_dssp             HHHHHHHHTTTSSSSSCCCCSSSSSTHHHHHHHTTTTTTCCCSCCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCCCHHHHHHHHHHHHHhccccccccCCcHHHHHHHHHHHHH
Confidence            334455555555444444555567999999999999999999999999999999999777644

>d1lnqa2 f.14.1.1 (A:19-98) Potassium channel-related protein MthK {Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]}

class: Membrane and cell surface proteins and peptides
fold: Voltage-gated potassium channels
superfamily: Voltage-gated potassium channels
family: Voltage-gated potassium channels
domain: Potassium channel-related protein MthK
species: Archaeon Methanothermobacter thermautotrophicus [TaxId: 145262]

Probab=99.23  E-value=5.3e-13  Score=94.96  Aligned_cols=38  Identities=37%  Similarity=0.703  Sum_probs=35.4

Q ss_pred             CChhhHHHHhhhhhcccccCCcccCCcchhhHHhHHHH
Q psy6333         213 VSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSNQMR  250 (371)
Q Consensus       213 ~~~~~s~y~~~~t~tTvGyGdi~p~t~~~~~~~~~~~~  250 (371)
                      .++.+|+||+++|+||+||||++|.|+.||++++..+.
T Consensus        26 ~s~~dalyf~~~T~tTiGyGD~~P~t~~~r~~~~~~~l   63 (80)
T d1lnqa2          26 ESWTVSLYWTFVTIATVGYGDYSPSTPLGMYFTVTLIV   63 (80)
T ss_dssp             CCSSTTHHHHHHHHTTCCCSSCCCCCSSHHHHHTHHHH
T ss_pred             CCHHHHHHHHhhheeeccCCCCCCCCcchHHHHHHHHH
Confidence            58899999999999999999999999999999997665