Citrus Sinensis ID: 036340

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------58
Protein Sequence
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG
Secondary Structure (PSIPRED)
cHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHccccccHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccccEEHHHHHHHHHHcccHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHHccccccccHHHHHHHHHcccccHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEEEccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHccccccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccccccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHccccccHHHHHHHHHHHcccHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEcccc
Coil and Loop (DISEMBL)
MISGYVKRREMAKARKLfdempqrdvVSWNVMISGYIssrgsgflEEARYLfdimperdcvtWNTVISGYAKTGEMEEALRLFnsmparnvvSWNAMISGFLQNGDVANAIEffdrmpgrdsaSLSALVSGLIQNGELDEAARVLVKcgsrcdggeDLVRAYNTLIVGYGQRGRVEEARKLFdkipvncdrgegnvrfkRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEasnlfvkmphpdtltWNAMVSGYAQIGNLELALDFFkrmpqknlvswnsmiagcetnkDYEGAIKLFIQMQvegekpdrhtfSSILSMSSGIVDLHLGMQIHQMVTKtvipdvpinNALITMYARCGAIVEARIIFEEMKLLKNVVSWNamiggcashGFATEALELFKSmrsfkvlpTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLikgmpfepdkAVWGALLGACRVHNNVELAQVAAEALMkvepenstpyVLLYNMYadvgrwddaNEVRLLMKsnnikkptgyswvdfspcg
Flexible Loop (DISEMBL)
misgyvkrREMAKarklfdempqrdvVSWNVMISGYissrgsgfLEEARYLFDimperdcvTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGsrcdggedLVRAYNTLIVGYGQRGRVEEARKLfdkipvncdrgegnvrFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKsnnikkptgyswvdfspcg
Low Complexity Region (SEG)
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG
Disordered region (IsUnstruct)
**********************QRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGE***RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDF****
Disordered Region (DISOPRED)
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPC*
Disordered Region (DISEMBL)
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG
Disordered Region (DISPRO)
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG
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	579	2.2.26 [Sep-21-2011]
O04590	656	Pentatricopeptide repeat-	yes	no	0.994	0.878	0.628	0.0
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.953	0.706	0.443	1e-143
Q56XI1	705	Pentatricopeptide repeat-	no	no	0.937	0.770	0.388	1e-120
Q9FXB9	704	Pentatricopeptide repeat-	no	no	0.932	0.767	0.381	1e-113
O64766	627	Pentatricopeptide repeat-	no	no	0.886	0.818	0.379	1e-107
Q9M4P3	656	Pentatricopeptide repeat-	no	no	0.796	0.702	0.402	1e-104
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.903	0.750	0.354	1e-104
P0C7R0	761	Pentatricopeptide repeat-	no	no	0.965	0.734	0.358	1e-101
Q9C8L6	717	Pentatricopeptide repeat-	no	no	0.956	0.772	0.344	1e-100
O49287	695	Putative pentatricopeptid	no	no	0.962	0.801	0.327	3e-91

>sp|O04590|PPR88_ARATH Pentatricopeptide repeat-containing protein At1g62260, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E10 PE=2 SV=1

 Score =  754 bits (1946), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 364/579 (62%), Positives = 454/579 (78%), Gaps = 3/579 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MISGYVKRREM +ARKLFD MP+RDVV+WN MISGY+S  G  FLEEAR LFD MP RD 
Sbjct: 77  MISGYVKRREMNQARKLFDVMPKRDVVTWNTMISGYVSCGGIRFLEEARKLFDEMPSRDS 136

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
            +WNT+ISGYAK   + EAL LF  MP RN VSW+AMI+GF QNG+V +A+  F +MP +
Sbjct: 137 FSWNTMISGYAKNRRIGEALLLFEKMPERNAVSWSAMITGFCQNGEVDSAVVLFRKMPVK 196

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DS+ L ALV+GLI+N  L EAA VL + GS   G EDLV AYNTLIVGYGQRG+VE AR 
Sbjct: 197 DSSPLCALVAGLIKNERLSEAAWVLGQYGSLVSGREDLVYAYNTLIVGYGQRGQVEAARC 256

Query: 181 LFDKIPVNCDR---GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWN 237
           LFD+IP  C     GE   RF +N+VSWNSMI  Y K GDVVSAR +F+QM +RDT SWN
Sbjct: 257 LFDQIPDLCGDDHGGEFRERFCKNVVSWNSMIKAYLKVGDVVSARLLFDQMKDRDTISWN 316

Query: 238 TMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS 297
           TMI GY+HV  ME+A  LF +MP+ D  +WN MVSGYA +GN+ELA  +F++ P+K+ VS
Sbjct: 317 TMIDGYVHVSRMEDAFALFSEMPNRDAHSWNMMVSGYASVGNVELARHYFEKTPEKHTVS 376

Query: 298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT 357
           WNS+IA  E NKDY+ A+ LFI+M +EGEKPD HT +S+LS S+G+V+L LGMQ+HQ+V 
Sbjct: 377 WNSIIAAYEKNKDYKEAVDLFIRMNIEGEKPDPHTLTSLLSASTGLVNLRLGMQMHQIVV 436

Query: 358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
           KTVIPDVP++NALITMY+RCG I+E+R IF+EMKL + V++WNAMIGG A HG A+EAL 
Sbjct: 437 KTVIPDVPVHNALITMYSRCGEIMESRRIFDEMKLKREVITWNAMIGGYAFHGNASEALN 496

Query: 418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
           LF SM+S  + P++ITF+SVL+ACAHAGLV+E +  F SM++ Y IEP++EH++SLV++ 
Sbjct: 497 LFGSMKSNGIYPSHITFVSVLNACAHAGLVDEAKAQFVSMMSVYKIEPQMEHYSSLVNVT 556

Query: 478 GRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV 537
              G+ E+AM +I  MPFEPDK VWGALL ACR++NNV LA VAAEA+ ++EPE+STPYV
Sbjct: 557 SGQGQFEEAMYIITSMPFEPDKTVWGALLDACRIYNNVGLAHVAAEAMSRLEPESSTPYV 616

Query: 538 LLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS 576
           LLYNMYAD+G WD+A++VR+ M+S  IKK  G SWVD S
Sbjct: 617 LLYNMYADMGLWDEASQVRMNMESKRIKKERGSSWVDSS 655

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  510 bits (1313), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 255/575 (44%), Positives = 372/575 (64%), Gaps = 23/575 (4%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MISGY++  E   ARKLFDEMP+RD+VSWNVMI GY+ +R  G   +AR LF+IMPERD 
Sbjct: 101 MISGYLRNGEFELARKLFDEMPERDLVSWNVMIKGYVRNRNLG---KARELFEIMPERDV 157

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
            +WNT++SGYA+ G +++A  +F+ MP +N VSWNA++S ++QN  +  A   F      
Sbjct: 158 CSWNTMLSGYAQNGCVDDARSVFDRMPEKNDVSWNALLSAYVQNSKMEEACMLFKSRENW 217

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
              S + L+ G ++  ++ EA +       R     D+V ++NT+I GY Q G+++EAR+
Sbjct: 218 ALVSWNCLLGGFVKKKKIVEARQFFDSMNVR-----DVV-SWNTIITGYAQSGKIDEARQ 271

Query: 181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI 240
           LFD+ PV            +++ +W +M+  Y +   V  ARE+F++M ER+  SWN M+
Sbjct: 272 LFDESPV------------QDVFTWTAMVSGYIQNRMVEEARELFDKMPERNEVSWNAML 319

Query: 241 SGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS 300
           +GY+    ME A  LF  MP  +  TWN M++GYAQ G +  A + F +MP+++ VSW +
Sbjct: 320 AGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEAKNLFDKMPKRDPVSWAA 379

Query: 301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH-QMVTKT 359
           MIAG   +     A++LF+QM+ EG + +R +FSS LS  + +V L LG Q+H ++V   
Sbjct: 380 MIAGYSQSGHSFEALRLFVQMEREGGRLNRSSFSSALSTCADVVALELGKQLHGRLVKGG 439

Query: 360 VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELF 419
                 + NAL+ MY +CG+I EA  +F+EM   K++VSWN MI G + HGF   AL  F
Sbjct: 440 YETGCFVGNALLLMYCKCGSIEEANDLFKEMAG-KDIVSWNTMIAGYSRHGFGEVALRFF 498

Query: 420 KSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR 479
           +SM+   + P   T ++VLSAC+H GLV++GRQ+F +M  +YG+ P  +H+A +VD++GR
Sbjct: 499 ESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGR 558

Query: 480 HGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL 539
            G LEDA +L+K MPFEPD A+WG LLGA RVH N ELA+ AA+ +  +EPENS  YVLL
Sbjct: 559 AGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGNTELAETAADKIFAMEPENSGMYVLL 618

Query: 540 YNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
            N+YA  GRW D  ++R+ M+   +KK  GYSW++
Sbjct: 619 SNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIE 653

Arabidopsis thaliana (taxid: 3702)

>sp|Q56XI1|PPR25_ARATH Pentatricopeptide repeat-containing protein At1g09410 OS=Arabidopsis thaliana GN=PCMP-H18 PE=2 SV=2

 Score =  433 bits (1114), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 220/567 (38%), Positives = 353/567 (62%), Gaps = 24/567 (4%)

Query: 10  EMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISG 69
           ++ +ARKLFD    + + SWN M++GY ++       +AR LFD MP+R+ ++WN ++SG
Sbjct: 32  KIHEARKLFDSCDSKSISSWNSMVAGYFANL---MPRDARKLFDEMPDRNIISWNGLVSG 88

Query: 70  YAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALV 129
           Y K GE++EA ++F+ MP RNVVSW A++ G++ NG V  A   F +MP ++  S + ++
Sbjct: 89  YMKNGEIDEARKVFDLMPERNVVSWTALVKGYVHNGKVDVAESLFWKMPEKNKVSWTVML 148

Query: 130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNC 189
            G +Q+G +D+A ++      +    +++ R   ++I G  + GRV+EAR++FD++    
Sbjct: 149 IGFLQDGRIDDACKLYEMIPDK----DNIAR--TSMIHGLCKEGRVDEAREIFDEMS--- 199

Query: 190 DRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDM 249
                    +R++++W +M+  Y +   V  AR+IF+ M E+   SW +M+ GY+    +
Sbjct: 200 ---------ERSVITWTTMVTGYGQNNRVDDARKIFDVMPEKTEVSWTSMLMGYVQNGRI 250

Query: 250 EEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNK 309
           E+A  LF  MP    +  NAM+SG  Q G +  A   F  M ++N  SW ++I   E N 
Sbjct: 251 EDAEELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKIHERNG 310

Query: 310 DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH-QMVTKTVIPDVPINN 368
               A+ LFI MQ +G +P   T  SILS+ + +  LH G Q+H Q+V      DV + +
Sbjct: 311 FELEALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVDVYVAS 370

Query: 369 ALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMR-SFKV 427
            L+TMY +CG +V++++IF+     K+++ WN++I G ASHG   EAL++F  M  S   
Sbjct: 371 VLMTMYIKCGELVKSKLIFDRFPS-KDIIMWNSIISGYASHGLGEEALKVFCEMPLSGST 429

Query: 428 LPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAM 487
            P  +TF++ LSAC++AG+VEEG + ++SM + +G++P   H+A +VD++GR GR  +AM
Sbjct: 430 KPNEVTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGRFNEAM 489

Query: 488 DLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG 547
           ++I  M  EPD AVWG+LLGACR H+ +++A+  A+ L+++EPENS  Y+LL NMYA  G
Sbjct: 490 EMIDSMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEIEPENSGTYILLSNMYASQG 549

Query: 548 RWDDANEVRLLMKSNNIKKPTGYSWVD 574
           RW D  E+R LMK+  ++K  G SW +
Sbjct: 550 RWADVAELRKLMKTRLVRKSPGCSWTE 576

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FXB9|PPR84_ARATH Pentatricopeptide repeat-containing protein At1g56690, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H69 PE=2 SV=1

 Score =  409 bits (1052), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 215/563 (38%), Positives = 338/563 (60%), Gaps = 23/563 (4%)

Query: 13  KARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAK 72
           +ARK FD +  + + SWN ++SGY S+   G  +EAR LFD M ER+ V+WN ++SGY K
Sbjct: 35  EARKFFDSLQFKAIGSWNSIVSGYFSN---GLPKEARQLFDEMSERNVVSWNGLVSGYIK 91

Query: 73  TGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGL 132
              + EA  +F  MP RNVVSW AM+ G++Q G V  A   F RMP R+  S + +  GL
Sbjct: 92  NRMIVEARNVFELMPERNVVSWTAMVKGYMQEGMVGEAESLFWRMPERNEVSWTVMFGGL 151

Query: 133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRG 192
           I +G +D+A ++      +     D+V + N +I G  + GRV+EAR +FD++       
Sbjct: 152 IDDGRIDKARKLYDMMPVK-----DVVASTN-MIGGLCREGRVDEARLIFDEMR------ 199

Query: 193 EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEA 252
                 +RN+V+W +MI  Y +   V  AR++FE M E+   SW +M+ GY     +E+A
Sbjct: 200 ------ERNVVTWTTMITGYRQNNRVDVARKLFEVMPEKTEVSWTSMLLGYTLSGRIEDA 253

Query: 253 SNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYE 312
              F  MP    +  NAM+ G+ ++G +  A   F  M  ++  +W  MI   E      
Sbjct: 254 EEFFEVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKAYERKGFEL 313

Query: 313 GAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH-QMVTKTVIPDVPINNALI 371
            A+ LF QMQ +G +P   +  SILS+ + +  L  G Q+H  +V      DV + + L+
Sbjct: 314 EALDLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVLM 373

Query: 372 TMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY 431
           TMY +CG +V+A+++F+     K+++ WN++I G ASHG   EAL++F  M S   +P  
Sbjct: 374 TMYVKCGELVKAKLVFDRFSS-KDIIMWNSIISGYASHGLGEEALKIFHEMPSSGTMPNK 432

Query: 432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIK 491
           +T I++L+AC++AG +EEG + F+SM +++ + P +EH++  VD++GR G+++ AM+LI+
Sbjct: 433 VTLIAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIE 492

Query: 492 GMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD 551
            M  +PD  VWGALLGAC+ H+ ++LA+VAA+ L + EP+N+  YVLL ++ A   +W D
Sbjct: 493 SMTIKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDNAGTYVLLSSINASRSKWGD 552

Query: 552 ANEVRLLMKSNNIKKPTGYSWVD 574
              VR  M++NN+ K  G SW++
Sbjct: 553 VAVVRKNMRTNNVSKFPGCSWIE 575

Arabidopsis thaliana (taxid: 3702)

>sp|O64766|PP185_ARATH Pentatricopeptide repeat-containing protein At2g35030, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E15 PE=2 SV=1

 Score =  389 bits (1000), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 203/535 (37%), Positives = 324/535 (60%), Gaps = 22/535 (4%)

Query: 43  GFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPAR-NVVSWNAMISGF 101
           G + EAR LFD +PERD VTW  VI+GY K G+M EA  LF+ + +R NVV+W AM+SG+
Sbjct: 60  GKIAEARKLFDGLPERDVVTWTHVITGYIKLGDMREARELFDRVDSRKNVVTWTAMVSGY 119

Query: 102 LQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRA 161
           L++  ++ A   F  MP R+  S + ++ G  Q+G +D+A  +  +   R       + +
Sbjct: 120 LRSKQLSIAEMLFQEMPERNVVSWNTMIDGYAQSGRIDKALELFDEMPERN------IVS 173

Query: 162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSA 221
           +N+++    QRGR++EA  LF+++P            +R++VSW +M+   AK G V  A
Sbjct: 174 WNSMVKALVQRGRIDEAMNLFERMP------------RRDVVSWTAMVDGLAKNGKVDEA 221

Query: 222 REIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLE 281
           R +F+ M ER+  SWN MI+GY     ++EA  LF  MP  D  +WN M++G+ +   + 
Sbjct: 222 RRLFDCMPERNIISWNAMITGYAQNNRIDEADQLFQVMPERDFASWNTMITGFIRNREMN 281

Query: 282 LALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGE-KPDRHTFSSILSMS 340
            A   F RMP+KN++SW +MI G   NK+ E A+ +F +M  +G  KP+  T+ SILS  
Sbjct: 282 KACGLFDRMPEKNVISWTTMITGYVENKENEEALNVFSKMLRDGSVKPNVGTYVSILSAC 341

Query: 341 SGIVDLHLGMQIHQMVTKTVIPDVPI-NNALITMYARCGAIVEARIIFEE-MKLLKNVVS 398
           S +  L  G QIHQ+++K+V     I  +AL+ MY++ G ++ AR +F+  +   ++++S
Sbjct: 342 SDLAGLVEGQQIHQLISKSVHQKNEIVTSALLNMYSKSGELIAARKMFDNGLVCQRDLIS 401

Query: 399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMV 458
           WN+MI   A HG   EA+E++  MR     P+ +T++++L AC+HAGLVE+G + FK +V
Sbjct: 402 WNSMIAVYAHHGHGKEAIEMYNQMRKHGFKPSAVTYLNLLFACSHAGLVEKGMEFFKDLV 461

Query: 459 NEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELA 518
            +  +  R EH+  LVD+ GR GRL+D  + I        ++ +GA+L AC VHN V +A
Sbjct: 462 RDESLPLREEHYTCLVDLCGRAGRLKDVTNFINCDDARLSRSFYGAILSACNVHNEVSIA 521

Query: 519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
           +   + +++   +++  YVL+ N+YA  G+ ++A E+R+ MK   +KK  G SWV
Sbjct: 522 KEVVKKVLETGSDDAGTYVLMSNIYAANGKREEAAEMRMKMKEKGLKKQPGCSWV 576

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M4P3|PP316_ARATH Pentatricopeptide repeat-containing protein At4g16835, mitochondrial OS=Arabidopsis thaliana GN=DYW10 PE=2 SV=3

 Score =  380 bits (977), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 207/514 (40%), Positives = 304/514 (59%), Gaps = 53/514 (10%)

Query: 64  NTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQN-GDVANAIEFFDRMPGRDS 122
           N +I+   ++G+++ ALR+F+ M A+N ++WN+++ G  ++   +  A + FD +P  D+
Sbjct: 65  NKIIARCVRSGDIDGALRVFHGMRAKNTITWNSLLIGISKDPSRMMEAHQLFDEIPEPDT 124

Query: 123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLF 182
            S                                     YN ++  Y +    E+A+  F
Sbjct: 125 FS-------------------------------------YNIMLSCYVRNVNFEKAQSFF 147

Query: 183 DKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISG 242
           D++P             ++  SWN+MI  YA+ G++  ARE+F  M+E++  SWN MISG
Sbjct: 148 DRMPF------------KDAASWNTMITGYARRGEMEKARELFYSMMEKNEVSWNAMISG 195

Query: 243 YIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMP-QKNLVSWNSM 301
           YI   D+E+AS+ F   P    + W AM++GY +   +ELA   FK M   KNLV+WN+M
Sbjct: 196 YIECGDLEKASHFFKVAPVRGVVAWTAMITGYMKAKKVELAEAMFKDMTVNKNLVTWNAM 255

Query: 302 IAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTK-TV 360
           I+G   N   E  +KLF  M  EG +P+    SS L   S +  L LG QIHQ+V+K T+
Sbjct: 256 ISGYVENSRPEDGLKLFRAMLEEGIRPNSSGLSSALLGCSELSALQLGRQIHQIVSKSTL 315

Query: 361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFK 420
             DV    +LI+MY +CG + +A  +FE MK  K+VV+WNAMI G A HG A +AL LF+
Sbjct: 316 CNDVTALTSLISMYCKCGELGDAWKLFEVMKK-KDVVAWNAMISGYAQHGNADKALCLFR 374

Query: 421 SMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH 480
            M   K+ P +ITF++VL AC HAGLV  G  +F+SMV +Y +EP+ +H+  +VD++GR 
Sbjct: 375 EMIDNKIRPDWITFVAVLLACNHAGLVNIGMAYFESMVRDYKVEPQPDHYTCMVDLLGRA 434

Query: 481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY 540
           G+LE+A+ LI+ MPF P  AV+G LLGACRVH NVELA+ AAE L+++  +N+  YV L 
Sbjct: 435 GKLEEALKLIRSMPFRPHAAVFGTLLGACRVHKNVELAEFAAEKLLQLNSQNAAGYVQLA 494

Query: 541 NMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           N+YA   RW+D   VR  MK +N+ K  GYSW++
Sbjct: 495 NIYASKNRWEDVARVRKRMKESNVVKVPGYSWIE 528

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score =  380 bits (976), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 212/598 (35%), Positives = 320/598 (53%), Gaps = 75/598 (12%)

Query: 30  NVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPAR 89
           N +I  Y      G LE+ R +FD MP+R+  TWN+V++G  K G ++EA  LF SMP R
Sbjct: 59  NRLIDAY---SKCGSLEDGRQVFDKMPQRNIYTWNSVVTGLTKLGFLDEADSLFRSMPER 115

Query: 90  NVVSWNAMISGFLQNGDVANAIEFFDRMPGR-------DSASLSALVSGLIQNGELDEAA 142
           +  +WN+M+SGF Q+     A+ +F  M            AS+ +  SGL    +  +  
Sbjct: 116 DQCTWNSMVSGFAQHDRCEEALCYFAMMHKEGFVLNEYSFASVLSACSGLNDMNKGVQVH 175

Query: 143 RVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI 202
            ++ K     D     V   + L+  Y + G V +A+++FD++              RN+
Sbjct: 176 SLIAKSPFLSD-----VYIGSALVDMYSKCGNVNDAQRVFDEMG------------DRNV 218

Query: 203 VSWNSMIMCYAKAGDVVSAREIFEQMLE-------------------------------- 230
           VSWNS+I C+ + G  V A ++F+ MLE                                
Sbjct: 219 VSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIKVGQEVHGR 278

Query: 231 --------RDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLEL 282
                    D    N  +  Y     ++EA  +F  MP  + +   +M+SGYA   + + 
Sbjct: 279 VVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTKA 338

Query: 283 ALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG 342
           A   F +M ++N+VSWN++IAG   N + E A+ LF  ++ E   P  ++F++IL   + 
Sbjct: 339 ARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACAD 398

Query: 343 IVDLHLGMQIHQMVTKTVIP-------DVPINNALITMYARCGAIVEARIIFEEMKLLKN 395
           + +LHLGMQ H  V K           D+ + N+LI MY +CG + E  ++F +M + ++
Sbjct: 399 LAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKM-MERD 457

Query: 396 VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFK 455
            VSWNAMI G A +G+  EALELF+ M      P +IT I VLSAC HAG VEEGR +F 
Sbjct: 458 CVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFS 517

Query: 456 SMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNV 515
           SM  ++G+ P  +H+  +VD++GR G LE+A  +I+ MP +PD  +WG+LL AC+VH N+
Sbjct: 518 SMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLAACKVHRNI 577

Query: 516 ELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
            L +  AE L++VEP NS PYVLL NMYA++G+W+D   VR  M+   + K  G SW+
Sbjct: 578 TLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWI 635

Arabidopsis thaliana (taxid: 3702)

>sp|P0C7R0|PPR69_ARATH Pentatricopeptide repeat-containing protein At1g32415, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E56 PE=2 SV=1

 Score =  369 bits (946), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 221/616 (35%), Positives = 347/616 (56%), Gaps = 57/616 (9%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           M++GYVK R M +A  LF EMP ++VVSW VM++        G  E+A  LFD MPER+ 
Sbjct: 114 MLTGYVKCRRMNEAWTLFREMP-KNVVSWTVMLTALCDD---GRSEDAVELFDEMPERNV 169

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT+++G  + G+ME+A ++F++MP+R+VVSWNAMI G+++N  +  A   F  M  +
Sbjct: 170 VSWNTLVTGLIRNGDMEKAKQVFDAMPSRDVVSWNAMIKGYIENDGMEEAKLLFGDMSEK 229

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           +  + +++V G  + G++ EA R+       C+  E  + ++  +I G+       EA  
Sbjct: 230 NVVTWTSMVYGYCRYGDVREAYRLF------CEMPERNIVSWTAMISGFAWNELYREALM 283

Query: 181 LFDKIPVNCDRGEGN---------------VRFKR-------NIVS--W----------N 206
           LF ++  + D    N               V F+R        ++S  W           
Sbjct: 284 LFLEMKKDVDAVSPNGETLISLAYACGGLGVEFRRLGEQLHAQVISNGWETVDHDGRLAK 343

Query: 207 SMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLF--VKMPHPDT 264
           S++  YA +G + SA+ +  +    D  S N +I+ Y+   D+E A  LF  VK  H D 
Sbjct: 344 SLVHMYASSGLIASAQSLLNESF--DLQSCNIIINRYLKNGDLERAETLFERVKSLH-DK 400

Query: 265 LTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVE 324
           ++W +M+ GY + G++  A   F+++  K+ V+W  MI+G   N+ +  A  L   M   
Sbjct: 401 VSWTSMIDGYLEAGDVSRAFGLFQKLHDKDGVTWTVMISGLVQNELFAEAASLLSDMVRC 460

Query: 325 GEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVI---PDVPINNALITMYARCGAIV 381
           G KP   T+S +LS +    +L  G  IH ++ KT     PD+ + N+L++MYA+CGAI 
Sbjct: 461 GLKPLNSTYSVLLSSAGATSNLDQGKHIHCVIAKTTACYDPDLILQNSLVSMYAKCGAIE 520

Query: 382 EARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC 441
           +A  IF +M + K+ VSWN+MI G + HG A +AL LFK M      P  +TF+ VLSAC
Sbjct: 521 DAYEIFAKM-VQKDTVSWNSMIMGLSHHGLADKALNLFKEMLDSGKKPNSVTFLGVLSAC 579

Query: 442 AHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAV 501
           +H+GL+  G + FK+M   Y I+P I+H+ S++D++GR G+L++A + I  +PF PD  V
Sbjct: 580 SHSGLITRGLELFKAMKETYSIQPGIDHYISMIDLLGRAGKLKEAEEFISALPFTPDHTV 639

Query: 502 WGALLGAC----RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRL 557
           +GALLG C    R  +   +A+ AA  L++++P N+  +V L N+YA +GR D   E+R 
Sbjct: 640 YGALLGLCGLNWRDKDAEGIAERAAMRLLELDPVNAPGHVALCNVYAGLGRHDMEKEMRK 699

Query: 558 LMKSNNIKKPTGYSWV 573
            M    +KK  G SWV
Sbjct: 700 EMGIKGVKKTPGCSWV 715

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8L6|PPR80_ARATH Pentatricopeptide repeat-containing protein At1g53600, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E63 PE=2 SV=2

 Score =  367 bits (942), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 201/583 (34%), Positives = 344/583 (59%), Gaps = 29/583 (4%)

Query: 1   MISGYVKRR-EMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPE-- 57
           MI+  +K + ++ KA +LF ++P+++ VS+  MI+G++ +   G  +EA +L+   P   
Sbjct: 118 MITAMIKNKCDLGKAYELFCDIPEKNAVSYATMITGFVRA---GRFDEAEFLYAETPVKF 174

Query: 58  RDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRM 117
           RD V  N ++SGY + G+  EA+R+F  M  + VVS ++M+ G+ + G + +A   FDRM
Sbjct: 175 RDSVASNVLLSGYLRAGKWNEAVRVFQGMAVKEVVSCSSMVHGYCKMGRIVDARSLFDRM 234

Query: 118 PGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEE 177
             R+  + +A++ G  + G  ++   + ++   R +G  D+    NTL V +        
Sbjct: 235 TERNVITWTAMIDGYFKAGFFEDGFGLFLRM--RQEG--DVKVNSNTLAVMFKACRDFVR 290

Query: 178 ARK------LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER 231
            R+      L  ++P+  D   GN           S++  Y+K G +  A+ +F  M  +
Sbjct: 291 YREGSQIHGLVSRMPLEFDLFLGN-----------SLMSMYSKLGYMGEAKAVFGVMKNK 339

Query: 232 DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMP 291
           D+ SWN++I+G +    + EA  LF KMP  D ++W  M+ G++  G +   ++ F  MP
Sbjct: 340 DSVSWNSLITGLVQRKQISEAYELFEKMPGKDMVSWTDMIKGFSGKGEISKCVELFGMMP 399

Query: 292 QKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQ 351
           +K+ ++W +MI+   +N  YE A+  F +M  +   P+ +TFSS+LS ++ + DL  G+Q
Sbjct: 400 EKDNITWTAMISAFVSNGYYEEALCWFHKMLQKEVCPNSYTFSSVLSATASLADLIEGLQ 459

Query: 352 IHQMVTK-TVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHG 410
           IH  V K  ++ D+ + N+L++MY +CG   +A  IF  +    N+VS+N MI G + +G
Sbjct: 460 IHGRVVKMNIVNDLSVQNSLVSMYCKCGNTNDAYKIFSCISE-PNIVSYNTMISGYSYNG 518

Query: 411 FATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF 470
           F  +AL+LF  + S    P  +TF+++LSAC H G V+ G ++FKSM + Y IEP  +H+
Sbjct: 519 FGKKALKLFSMLESSGKEPNGVTFLALLSACVHVGYVDLGWKYFKSMKSSYNIEPGPDHY 578

Query: 471 ASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEP 530
           A +VD++GR G L+DA +LI  MP +P   VWG+LL A + H  V+LA++AA+ L+++EP
Sbjct: 579 ACMVDLLGRSGLLDDASNLISTMPCKPHSGVWGSLLSASKTHLRVDLAELAAKKLIELEP 638

Query: 531 ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
           +++TPYV+L  +Y+ +G+  D + +  + KS  IKK  G SW+
Sbjct: 639 DSATPYVVLSQLYSIIGKNRDCDRIMNIKKSKRIKKDPGSSWI 681

Arabidopsis thaliana (taxid: 3702)

>sp|O49287|PP127_ARATH Putative pentatricopeptide repeat-containing protein At1g77010, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E5 PE=3 SV=1

 Score =  336 bits (861), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 211/644 (32%), Positives = 329/644 (51%), Gaps = 87/644 (13%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           ++  Y +  +M  AR LFDEMP R+  SWN MI GY++S   G    +   FD+MPERD 
Sbjct: 68  LLQMYSRSGKMGIARNLFDEMPDRNYFSWNTMIEGYMNSGEKG---TSLRFFDMMPERDG 124

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMP-G 119
            +WN V+SG+AK GE+  A RLFN+MP ++VV+ N+++ G++ NG    A+  F  +   
Sbjct: 125 YSWNVVVSGFAKAGELSVARRLFNAMPEKDVVTLNSLLHGYILNGYAEEALRLFKELNFS 184

Query: 120 RDSASLSALVSGLIQNGELDEA----ARVLVKCGSRCDG--GEDLVRAY----------- 162
            D+ +L+ ++    +   L       A++L+  G  CD      LV  Y           
Sbjct: 185 ADAITLTTVLKACAELEALKCGKQIHAQILIG-GVECDSKMNSSLVNVYAKCGDLRMASY 243

Query: 163 -------------NTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMI 209
                        + LI GY   GRV E+R LFD+            +  R ++ WNSMI
Sbjct: 244 MLEQIREPDDHSLSALISGYANCGRVNESRGLFDR------------KSNRCVILWNSMI 291

Query: 210 MCYAKAGDVVSAREIFEQM---LERDTFSWNTMISGYI---------------------- 244
             Y      + A  +F +M      D+ +   +I+  I                      
Sbjct: 292 SGYIANNMKMEALVLFNEMRNETREDSRTLAAVINACIGLGFLETGKQMHCHACKFGLID 351

Query: 245 ------HVLDME-------EASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMP 291
                  +LDM        EA  LF ++   DT+  N+M+  Y   G ++ A   F+R+ 
Sbjct: 352 DIVVASTLLDMYSKCGSPMEACKLFSEVESYDTILLNSMIKVYFSCGRIDDAKRVFERIE 411

Query: 292 QKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQ 351
            K+L+SWNSM  G   N      ++ F QM       D  + SS++S  + I  L LG Q
Sbjct: 412 NKSLISWNSMTNGFSQNGCTVETLEYFHQMHKLDLPTDEVSLSSVISACASISSLELGEQ 471

Query: 352 IHQMVTKTVI-PDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHG 410
           +    T   +  D  ++++LI +Y +CG +   R +F+ M +  + V WN+MI G A++G
Sbjct: 472 VFARATIVGLDSDQVVSSSLIDLYCKCGFVEHGRRVFDTM-VKSDEVPWNSMISGYATNG 530

Query: 411 FATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF 470
              EA++LFK M    + PT ITF+ VL+AC + GLVEEGR+ F+SM  ++G  P  EHF
Sbjct: 531 QGFEAIDLFKKMSVAGIRPTQITFMVVLTACNYCGLVEEGRKLFESMKVDHGFVPDKEHF 590

Query: 471 ASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEP 530
           + +VD++ R G +E+A++L++ MPF+ D ++W ++L  C  +    + + AAE ++++EP
Sbjct: 591 SCMVDLLARAGYVEEAINLVEEMPFDVDGSMWSSILRGCVANGYKAMGKKAAEKIIELEP 650

Query: 531 ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           ENS  YV L  ++A  G W+ +  VR LM+ NN+ K  G SW D
Sbjct: 651 ENSVAYVQLSAIFATSGDWESSALVRKLMRENNVTKNPGSSWTD 694

Arabidopsis thaliana (taxid: 3702)

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	579
255560453	662	pentatricopeptide repeat-containing prot	0.994	0.870	0.753	0.0
225428117	681	PREDICTED: pentatricopeptide repeat-cont	0.998	0.848	0.720	0.0
224103137	610	predicted protein [Populus trichocarpa]	0.991	0.940	0.708	0.0
356510733	649	PREDICTED: pentatricopeptide repeat-cont	0.991	0.884	0.685	0.0
356528072	647	PREDICTED: pentatricopeptide repeat-cont	0.982	0.879	0.686	0.0
449523934	664	PREDICTED: pentatricopeptide repeat-cont	0.981	0.855	0.679	0.0
449454362	664	PREDICTED: pentatricopeptide repeat-cont	0.981	0.855	0.677	0.0
147841850	761	hypothetical protein VITISV_039344 [Viti	0.922	0.701	0.727	0.0
297837203	1243	hypothetical protein ARALYDRAFT_338156 [	0.994	0.463	0.627	0.0
358346115	592	Pentatricopeptide repeat-containing prot	0.889	0.869	0.680	0.0

>gi|255560453|ref|XP_002521241.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539509|gb|EEF41097.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  902 bits (2330), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 435/577 (75%), Positives = 498/577 (86%), Gaps = 1/577 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MISGYVKR EM KARKLFDEMP+RDVVSWN++ISGY+S RG  F+EE R LFD MPER C
Sbjct: 84  MISGYVKRGEMTKARKLFDEMPERDVVSWNLIISGYVSCRGKRFIEEGRNLFDKMPERCC 143

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT+ISGYAK G M+EAL LFN+MP +N VSWNAM+SGFLQNGDV  AIEFF RMP R
Sbjct: 144 VSWNTMISGYAKNGRMDEALGLFNTMPEKNSVSWNAMVSGFLQNGDVVRAIEFFKRMPER 203

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           D  SLSALVSGLIQN ELD+A R+L+  G+     E LV AYNTLI GYGQRGRV+EA+ 
Sbjct: 204 DVTSLSALVSGLIQNSELDQAERILLDYGNNGGSKEYLVHAYNTLIAGYGQRGRVDEAQN 263

Query: 181 LFDKIPVNCDRGEGNV-RFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTM 239
           LFDKIP   D+G+G   RF+RN+VSWN+MIMCY KAGDV+SAR++F+QM +RD+FSWNTM
Sbjct: 264 LFDKIPFYNDQGKGRTGRFERNVVSWNTMIMCYVKAGDVISARKLFDQMPDRDSFSWNTM 323

Query: 240 ISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWN 299
           ISGY+HVLDMEEASNLF KMP PDTL+WN M+SGYAQ G+LELA DFF+RMPQKNLVSWN
Sbjct: 324 ISGYVHVLDMEEASNLFHKMPSPDTLSWNLMISGYAQSGSLELAHDFFERMPQKNLVSWN 383

Query: 300 SMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKT 359
           S+IAG E N DY GAI LFIQMQVEGEK DRHT SS+LS+SSGIVDL LGMQIHQ+V+KT
Sbjct: 384 SVIAGYEKNGDYIGAINLFIQMQVEGEKSDRHTLSSLLSVSSGIVDLQLGMQIHQLVSKT 443

Query: 360 VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELF 419
           VIPDVP+NNALITMY+RCGAI EAR IF EMKL K V+SWNAMIGG ASHG+ATEALELF
Sbjct: 444 VIPDVPLNNALITMYSRCGAIFEARTIFYEMKLQKEVISWNAMIGGYASHGYATEALELF 503

Query: 420 KSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR 479
           K MRSFKV PTYITFISVL+ACAHAGLVEEGR+ F+SMV++YG+EPR+EHFASLVDIVGR
Sbjct: 504 KLMRSFKVQPTYITFISVLNACAHAGLVEEGRRIFESMVSDYGVEPRVEHFASLVDIVGR 563

Query: 480 HGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL 539
            G+LE+A+DLI  M  EPDKAVWGALLGA RVHNNVE+A+VAAEALMK+EP++S PY+LL
Sbjct: 564 QGQLEEALDLINSMTIEPDKAVWGALLGASRVHNNVEMARVAAEALMKLEPDSSVPYILL 623

Query: 540 YNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS 576
           YNMY DVG+WD+A E+R +M+ NNIKK    SWVD S
Sbjct: 624 YNMYVDVGQWDNAAEIRSMMERNNIKKEAAISWVDSS 660

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428117|ref|XP_002278375.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62260, mitochondrial [Vitis vinifera]

 Score =  878 bits (2268), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 417/579 (72%), Positives = 490/579 (84%), Gaps = 1/579 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+GYV+RREMAKARKLFDEMP RDVVSWN+MISGY+S +G  ++EE R+LFD MPERDC
Sbjct: 104 MITGYVRRREMAKARKLFDEMPDRDVVSWNLMISGYVSCQGR-WVEEGRHLFDEMPERDC 162

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT+ISGY ++G M+EAL+LF+SM  RNVVSWNAM++GFLQNGDV  AIEFF RMP R
Sbjct: 163 VSWNTMISGYTRSGRMDEALQLFDSMQERNVVSWNAMVTGFLQNGDVERAIEFFMRMPER 222

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DSASLSALV+GLIQNGELDEA R+L+    + D   DLV AYN L+ GYGQ GRV++AR+
Sbjct: 223 DSASLSALVAGLIQNGELDEAKRILLTSRRQDDDKGDLVHAYNILLAGYGQNGRVDKARQ 282

Query: 181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI 240
           LFD+IP      +   RF+RN+VSWNSMIMCY KA D+ SAR +F+QM ERDT SWNTMI
Sbjct: 283 LFDQIPFYDGGQKDGGRFERNVVSWNSMIMCYVKARDIFSARVLFDQMKERDTISWNTMI 342

Query: 241 SGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS 300
           SGY+ + DMEEA  LF +MP+PDTLTWN+M+SG+AQ GNLELA   F  +PQKNLVSWNS
Sbjct: 343 SGYVRMSDMEEAWMLFQEMPNPDTLTWNSMISGFAQKGNLELARALFATIPQKNLVSWNS 402

Query: 301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV 360
           MIAG E N DY+GA +L+ QM ++GEKPDRHT SS+LS+ SG   LHLGMQIHQ +TKTV
Sbjct: 403 MIAGYENNGDYKGATELYRQMLLQGEKPDRHTLSSVLSVCSGFAALHLGMQIHQQITKTV 462

Query: 361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFK 420
           IPD+PINN+LITMY+RCGAIVEAR IF+E+KL K V+SWNAMIGG A HGFA +ALELF+
Sbjct: 463 IPDIPINNSLITMYSRCGAIVEARTIFDEVKLQKEVISWNAMIGGYAFHGFAADALELFE 522

Query: 421 SMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH 480
            M+  KV PTYITFISVL+ACAHAG V+EGR HFKSM  E+GIEPRIEHFASLVDIVGRH
Sbjct: 523 LMKRLKVRPTYITFISVLNACAHAGFVKEGRMHFKSMACEFGIEPRIEHFASLVDIVGRH 582

Query: 481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY 540
           G+LE+AMDLI  MPFEPDKAVWGALLGACRVHNNVELA+VAAEALMK+EPE+S PYVLL+
Sbjct: 583 GQLEEAMDLINSMPFEPDKAVWGALLGACRVHNNVELARVAAEALMKLEPESSAPYVLLH 642

Query: 541 NMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFSPCG 579
           NMYADVG+WD+A E+R++M+ NNI+K  GYSWVD S  G
Sbjct: 643 NMYADVGQWDNATEMRMMMERNNIRKQPGYSWVDSSHSG 681

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103137|ref|XP_002312939.1| predicted protein [Populus trichocarpa] gi|222849347|gb|EEE86894.1| predicted protein [Populus trichocarpa]

 Score =  856 bits (2211), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/579 (70%), Positives = 495/579 (85%), Gaps = 5/579 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           +I  YVKRRE+AKARKLFDEMPQRD+VSWN+MISGY+S  G  FL+E R LFD MPERD 
Sbjct: 34  IIRAYVKRREIAKARKLFDEMPQRDIVSWNLMISGYVSCHGIRFLKEGRNLFDRMPERDI 93

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT+ISGYAK G M+EALR+F  MP  +VVSWNA+++GFLQNGDVA AIE+F+RMP R
Sbjct: 94  VSWNTMISGYAKNGRMDEALRMFKLMPEGDVVSWNAIVTGFLQNGDVARAIEYFERMPER 153

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGG--EDLVRAYNTLIVGYGQRGRVEEA 178
           D+ASLSALVSGLI+NGELDEAARV+V+     DGG  E+L++AYNTLI GYG+R RV+EA
Sbjct: 154 DAASLSALVSGLIRNGELDEAARVVVRFER--DGGRKENLLQAYNTLIAGYGRRDRVDEA 211

Query: 179 RKLFDKIPV-NCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWN 237
           RKLFD+IP  +     G+ RF RN+VSWN+MIMCY KAG++V ARE+F+QM+ERDT SWN
Sbjct: 212 RKLFDQIPFCDGKGKGGDGRFGRNVVSWNTMIMCYVKAGNIVFARELFDQMMERDTISWN 271

Query: 238 TMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS 297
           TMISGY+++LDM+EAS LF +MP+PD  +WN M++G+AQIG+L+   D F RMPQKNLVS
Sbjct: 272 TMISGYVNMLDMDEASRLFCEMPNPDIFSWNKMIAGHAQIGDLDRVNDLFGRMPQKNLVS 331

Query: 298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT 357
           WNS+I G E N DY GAIK+FIQMQVEGEKPDRHT SS+LS+S+GIVDL LGMQIHQ+VT
Sbjct: 332 WNSVITGYEKNDDYIGAIKIFIQMQVEGEKPDRHTLSSVLSVSAGIVDLQLGMQIHQLVT 391

Query: 358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
           KTVIPDVPINNALITMY+RCGAI+EA  IF+E+KL K V+SWNAMIGG ASHG+A EALE
Sbjct: 392 KTVIPDVPINNALITMYSRCGAIIEAGTIFDEVKLQKEVISWNAMIGGYASHGYAVEALE 451

Query: 418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
           +FK M+SF V PT+ITFISVL ACAHAGLVEEGR+ F+SM +E+GIEP +EH+ASLVDI+
Sbjct: 452 VFKLMKSFDVRPTHITFISVLHACAHAGLVEEGREIFESMADEFGIEPSVEHYASLVDIM 511

Query: 478 GRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV 537
            RHG+LE A+DLI  MPFEPDKAVWGALL A +VHN +E+A+VAAEAL+++EP++S PYV
Sbjct: 512 SRHGQLEQALDLINSMPFEPDKAVWGALLSAAKVHNKIEVARVAAEALIRLEPDSSAPYV 571

Query: 538 LLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS 576
           LLYNMYADVG+WD A EVR++M+ +NIKK   YSWVD S
Sbjct: 572 LLYNMYADVGQWDSAAEVRIMMERSNIKKQAAYSWVDSS 610

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510733|ref|XP_003524089.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62260, mitochondrial-like [Glycine max]

 Score =  853 bits (2204), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/575 (68%), Positives = 493/575 (85%), Gaps = 1/575 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MISGYV+RRE+A+AR+LFDEMP+RDVVSWN+++SGY S  GS F+EE R LF++MP+RDC
Sbjct: 75  MISGYVQRREIARARQLFDEMPRRDVVSWNLIVSGYFSCCGSRFVEEGRRLFELMPQRDC 134

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNTVISGYAK G M++AL+LFN+MP  N VS+NA+I+GFL NGDV +A+ FF  MP  
Sbjct: 135 VSWNTVISGYAKNGRMDQALKLFNAMPEHNAVSYNAVITGFLLNGDVESAVGFFRTMPEH 194

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DS SL AL+SGL++NGELD AA +L +CG+  DG +DLV AYNTLI GYGQRG VEEAR+
Sbjct: 195 DSTSLCALISGLVRNGELDLAAGILRECGNGDDGKDDLVHAYNTLIAGYGQRGHVEEARR 254

Query: 181 LFDKIPVNCDRG-EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTM 239
           LFD IP + D G EG  RF+RN+VSWNSM+MCY KAGD+V ARE+F++M+ERD  SWNT+
Sbjct: 255 LFDVIPDDDDDGNEGKRRFRRNVVSWNSMMMCYVKAGDIVFARELFDRMVERDNCSWNTL 314

Query: 240 ISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWN 299
           IS Y+ + +MEEAS LF +MP PD L+WN+++SG AQ G+L LA DFF+RMP KNL+SWN
Sbjct: 315 ISCYVQISNMEEASKLFREMPSPDVLSWNSIISGLAQKGDLNLAKDFFERMPHKNLISWN 374

Query: 300 SMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKT 359
           ++IAG E N+DY+GAIKLF +MQ+EGE+PD+HT SS++S+S+G+VDL+LG Q+HQ+VTKT
Sbjct: 375 TIIAGYEKNEDYKGAIKLFSEMQLEGERPDKHTLSSVISVSTGLVDLYLGKQLHQLVTKT 434

Query: 360 VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELF 419
           V+PD PINN+LITMY+RCGAIV+A  +F E+KL K+V++WNAMIGG ASHG A EALELF
Sbjct: 435 VLPDSPINNSLITMYSRCGAIVDACTVFNEIKLYKDVITWNAMIGGYASHGSAAEALELF 494

Query: 420 KSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR 479
           K M+  K+ PTYITFISVL+ACAHAGLVEEG + FKSM+N+YGIEPR+EHFASLVDI+GR
Sbjct: 495 KLMKRLKIHPTYITFISVLNACAHAGLVEEGWRQFKSMINDYGIEPRVEHFASLVDILGR 554

Query: 480 HGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL 539
            G+L++AMDLI  MPF+PDKAVWGALLGACRVHNNVELA VAA+AL+++EPE+S PYVLL
Sbjct: 555 QGQLQEAMDLINTMPFKPDKAVWGALLGACRVHNNVELALVAADALIRLEPESSAPYVLL 614

Query: 540 YNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           YNMYA++G+WDDA  VR+LM+  N+KK  GYSWVD
Sbjct: 615 YNMYANLGQWDDAESVRVLMEEKNVKKQAGYSWVD 649

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528072|ref|XP_003532629.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62260, mitochondrial-like [Glycine max]

 Score =  850 bits (2196), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 396/577 (68%), Positives = 492/577 (85%), Gaps = 8/577 (1%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+GYV RRE+A+AR+LFDEMP+RDVVSWN+++SGY S RGS F+EE R LF++MP+RDC
Sbjct: 76  MITGYVHRREIARARQLFDEMPRRDVVSWNLIVSGYFSCRGSRFVEEGRRLFELMPQRDC 135

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNTVISGYAK G M++AL+LFN+MP RN VS NA+I+GFL NGDV +A++FF  MP  
Sbjct: 136 VSWNTVISGYAKNGRMDQALKLFNAMPERNAVSSNALITGFLLNGDVDSAVDFFRTMPEH 195

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
            S SLSAL+SGL++NGELD AA +L +CG   +G +DLV AYNTLI GYGQRG VEEAR+
Sbjct: 196 YSTSLSALISGLVRNGELDMAAGILCECG---NGDDDLVHAYNTLIAGYGQRGHVEEARR 252

Query: 181 LFDKIPVNCDRG---EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWN 237
           LFD IP   DRG   EG  RF+RN+VSWNSM+MCY KAGD+VSARE+F++M+E+DT SWN
Sbjct: 253 LFDGIPD--DRGDGDEGQRRFRRNVVSWNSMMMCYVKAGDIVSARELFDRMVEQDTCSWN 310

Query: 238 TMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS 297
           TMISGY+ + +MEEAS LF +MP PD L+WN +VSG+AQ G+L LA DFF+RMP KNL+S
Sbjct: 311 TMISGYVQISNMEEASKLFREMPIPDVLSWNLIVSGFAQKGDLNLAKDFFERMPLKNLIS 370

Query: 298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT 357
           WNS+IAG E N+DY+GAI+LF +MQ EGE+PDRHT SS++S+ +G+V+L+LG QIHQ+VT
Sbjct: 371 WNSIIAGYEKNEDYKGAIQLFSRMQFEGERPDRHTLSSVMSVCTGLVNLYLGKQIHQLVT 430

Query: 358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
           K VIPD PINN+LITMY+RCGAIV+A  +F E+KL K+V++WNAMIGG ASHG A EALE
Sbjct: 431 KIVIPDSPINNSLITMYSRCGAIVDACTVFNEIKLYKDVITWNAMIGGYASHGLAAEALE 490

Query: 418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
           LFK M+  K+ PTYITFISV++ACAHAGLVEEGR+ FKSM+N+YGIE R+EHFASLVDI+
Sbjct: 491 LFKLMKRLKIHPTYITFISVMNACAHAGLVEEGRRQFKSMINDYGIERRVEHFASLVDIL 550

Query: 478 GRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV 537
           GR G+L++AMDLI  MPF+PDKAVWGALL ACRVHNNVELA VAA+AL+++EPE+S PYV
Sbjct: 551 GRQGQLQEAMDLINTMPFKPDKAVWGALLSACRVHNNVELALVAADALIRLEPESSAPYV 610

Query: 538 LLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           LLYN+YA++G+WDDA  VR+LM+  N+KK  GYSWVD
Sbjct: 611 LLYNIYANLGQWDDAESVRVLMEEKNVKKQAGYSWVD 647

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449523934|ref|XP_004168978.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62260, mitochondrial-like [Cucumis sativus]

 Score =  841 bits (2172), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 390/574 (67%), Positives = 484/574 (84%), Gaps = 6/574 (1%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+ YVKRREM KAR+LF+EMP RD+VSWN+M+SGYIS  G  F+E AR +FD MPE DC
Sbjct: 94  MITAYVKRREMLKARQLFEEMPNRDIVSWNLMLSGYISC-GGKFVERARNMFDQMPETDC 152

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT++SGYAK+G M++A  LFN MP RNVVSWNAM+SG+L NG V  AIEFF  MP R
Sbjct: 153 VSWNTMLSGYAKSGTMDKAEELFNEMPERNVVSWNAMVSGYLMNGHVEKAIEFFKLMPKR 212

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DSASL ALVSGLIQN +L EA R+L++ G     G DLV AYNTLI GYGQ+G   EARK
Sbjct: 213 DSASLRALVSGLIQNDKLVEAERILLQYGGNVGKG-DLVDAYNTLIAGYGQKGMAYEARK 271

Query: 181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI 240
           LFD+IP+ CD G      +RN++SWNSMIMCY +AGD+VSARE+F++M+ERDTFSWNTMI
Sbjct: 272 LFDRIPLCCDCGYS----RRNVISWNSMIMCYVRAGDIVSARELFDKMVERDTFSWNTMI 327

Query: 241 SGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS 300
           SGY+ +LDM+EASNLF +MP PDTL+WN M+SG+++IG+L+LA D FKR+P+K+LVSWNS
Sbjct: 328 SGYVQILDMKEASNLFSRMPEPDTLSWNMMISGFSEIGSLKLAHDLFKRIPEKSLVSWNS 387

Query: 301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV 360
           MI+G E N+DY+GA+ +F+QMQ+EG+KPDRHT SSILS  +G+VDL LG QIHQ+VTK  
Sbjct: 388 MISGYEKNEDYKGAMNIFLQMQLEGKKPDRHTLSSILSACAGLVDLVLGTQIHQLVTKAF 447

Query: 361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFK 420
           I D+PINN+L+TMY+RCGAIVEAR++F+EM L ++V+SWNAMIGG A HGFATEAL+LF 
Sbjct: 448 IADLPINNSLVTMYSRCGAIVEARMVFDEMNLQRDVISWNAMIGGYAYHGFATEALQLFD 507

Query: 421 SMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH 480
            M+   V P+YITFISVL+ACAHAGL+EEGR+ F SMVN +GI+P++EH+A+LVDI+GRH
Sbjct: 508 LMKQCNVQPSYITFISVLNACAHAGLIEEGRREFNSMVNTHGIKPQVEHYAALVDIIGRH 567

Query: 481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY 540
           G+LE+AM LI  MP EPDKAVWGALLGAC+VHNNVE+A+ AAEALMK++PE+S PYVLL+
Sbjct: 568 GQLEEAMSLINSMPCEPDKAVWGALLGACKVHNNVEMARAAAEALMKLQPESSAPYVLLH 627

Query: 541 NMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           NMYADVGRWDDA E+R +M+ NN++K  GYS VD
Sbjct: 628 NMYADVGRWDDAAEMRTMMEKNNVQKDAGYSRVD 661

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454362|ref|XP_004144924.1| PREDICTED: pentatricopeptide repeat-containing protein At1g62260, mitochondrial-like [Cucumis sativus]

 Score =  840 bits (2169), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/574 (67%), Positives = 484/574 (84%), Gaps = 6/574 (1%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+ YVKRREM KAR+LF+EMP RD+VSWN+M+SGYIS  G  F+E AR +FD MPE DC
Sbjct: 94  MITAYVKRREMLKARQLFEEMPNRDIVSWNLMLSGYISC-GGKFVERARNMFDQMPETDC 152

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT++SGYAK+G M++A  LFN MP RNVVSWNAM+SG+L NG V  AIEFF  MP R
Sbjct: 153 VSWNTMLSGYAKSGMMDKAEELFNEMPERNVVSWNAMVSGYLMNGHVEKAIEFFKLMPKR 212

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DSASL AL+SGLIQN +L EA R+L++ G     G DLV AYNTLI GYGQ+G   EARK
Sbjct: 213 DSASLRALISGLIQNDKLVEAERILLQYGGNVGKG-DLVDAYNTLIAGYGQKGMAYEARK 271

Query: 181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI 240
           LFD+IP+ CD G      +RN++SWNSMIMCY +AGD+VSARE+F++M+ERDTFSWNTMI
Sbjct: 272 LFDRIPLCCDCGYS----RRNVISWNSMIMCYVRAGDIVSARELFDKMVERDTFSWNTMI 327

Query: 241 SGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS 300
           SGY+ +LDM+EASNLF +MP PDTL+WN M+SG+++IG+L+LA D FKR+P+K+LVSWNS
Sbjct: 328 SGYVQILDMKEASNLFSRMPEPDTLSWNMMISGFSEIGSLKLAHDLFKRIPEKSLVSWNS 387

Query: 301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV 360
           MI+G E N+DY+GA+ +F+QMQ+EG+KPDRHT SSILS  +G+VDL LG QIHQ+VTK  
Sbjct: 388 MISGYEKNEDYKGAMNIFLQMQLEGKKPDRHTLSSILSACAGLVDLVLGTQIHQLVTKAF 447

Query: 361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFK 420
           I D+PINN+L+TMY+RCGAIVEAR++F+EM L ++V+SWNAMIGG A HGFATEAL+LF 
Sbjct: 448 IADLPINNSLVTMYSRCGAIVEARMVFDEMNLQRDVISWNAMIGGYAYHGFATEALQLFD 507

Query: 421 SMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH 480
            M+   V P+YITFISVL+ACAHAGL+EEGR+ F SMVN +GI+P++EH+A+LVDI+GRH
Sbjct: 508 LMKQCNVQPSYITFISVLNACAHAGLIEEGRREFNSMVNTHGIKPQVEHYAALVDIIGRH 567

Query: 481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY 540
           G+LE+AM LI  MP EPDKAVWGALLGAC+VHNNVE+A+ AAEALMK++PE+S PYVLL+
Sbjct: 568 GQLEEAMSLINSMPCEPDKAVWGALLGACKVHNNVEMARAAAEALMKLQPESSAPYVLLH 627

Query: 541 NMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           NMYADVGRWDDA E+R +M+ NN++K  GYS VD
Sbjct: 628 NMYADVGRWDDAAEMRTMMEKNNVQKDAGYSRVD 661

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147841850|emb|CAN67319.1| hypothetical protein VITISV_039344 [Vitis vinifera]

 Score =  814 bits (2102), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/535 (72%), Positives = 453/535 (84%), Gaps = 1/535 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+GYV+RREMAKARKLFDEMP RDVVSWN+MISGY+S RG  ++EE R+LFD MPERDC
Sbjct: 104 MITGYVRRREMAKARKLFDEMPDRDVVSWNLMISGYVSCRGR-WVEEGRHLFDEMPERDC 162

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNT+ISGY ++G M+EAL+LF+SM  RNVVSWNAM++GFLQNGDV  AIEFF RMP R
Sbjct: 163 VSWNTMISGYTRSGRMDEALQLFDSMQERNVVSWNAMVTGFLQNGDVERAIEFFMRMPER 222

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DSASLSALV+GLIQNGELDEA R+L+    + D   DLV AYN L+ GYGQ GRV++AR+
Sbjct: 223 DSASLSALVAGLIQNGELDEAKRILLTTRRQDDDKGDLVHAYNILLAGYGQNGRVDKARQ 282

Query: 181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI 240
           LFD+IP      +   RF+RN+VSWNSMIMCY KA D+ SAR +F+QM ERDT SWNTMI
Sbjct: 283 LFDQIPFYDGGQKDGGRFERNVVSWNSMIMCYVKARDIFSARVLFDQMKERDTISWNTMI 342

Query: 241 SGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS 300
           SGY+ + DMEEA  LF +MP+PDTLTWN+M+SG+AQ GNLELA   F  +PQKNLVSWNS
Sbjct: 343 SGYVRMSDMEEAWMLFQEMPNPDTLTWNSMISGFAQKGNLELARALFATIPQKNLVSWNS 402

Query: 301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV 360
           MIAG E N DY+GA +L+ QM ++GEKPDRHT SS+LS+ SG   LHLGMQIHQ +TKTV
Sbjct: 403 MIAGYENNGDYKGATELYRQMLLQGEKPDRHTLSSVLSVCSGFAALHLGMQIHQQITKTV 462

Query: 361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFK 420
           IPD+PINN+LITMY+RCGAIVEAR IF+E+KL K V+SWNAMIGG A HGFA +ALELF+
Sbjct: 463 IPDIPINNSLITMYSRCGAIVEARTIFDEVKLQKEVISWNAMIGGYAFHGFAADALELFE 522

Query: 421 SMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH 480
            M+  KV PTYITFISVL+ACAHAG V+EGR HFKSM  E+GIEPRIEHFASLVDIVGRH
Sbjct: 523 LMKRLKVRPTYITFISVLNACAHAGXVKEGRMHFKSMACEFGIEPRIEHFASLVDIVGRH 582

Query: 481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP 535
           G+LE+AMDLI  MPFEPDKAVWGALLGACRVHNNVELA+VAAEALMK+EPE+S P
Sbjct: 583 GQLEEAMDLINSMPFEPDKAVWGALLGACRVHNNVELARVAAEALMKLEPESSAP 637

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297837203|ref|XP_002886483.1| hypothetical protein ARALYDRAFT_338156 [Arabidopsis lyrata subsp. lyrata] gi|297332324|gb|EFH62742.1| hypothetical protein ARALYDRAFT_338156 [Arabidopsis lyrata subsp. lyrata]

 Score =  763 bits (1969), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 364/580 (62%), Positives = 461/580 (79%), Gaps = 4/580 (0%)

Query: 1    MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
            MISGYVKRREM +ARKLFDEMP+RDVV+WN MISGY+S  G  FLEEAR LFD MP RD 
Sbjct: 421  MISGYVKRREMTQARKLFDEMPERDVVTWNAMISGYVSCGGIRFLEEARKLFDEMPSRDS 480

Query: 61   VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
             +WNT+ISGYAK   + EAL LF  MP RN VSW+AMI+GF  NG+V  A + F RMP +
Sbjct: 481  FSWNTMISGYAKNRRISEALLLFEKMPERNAVSWSAMITGFCHNGEVNRAFDLFRRMPVK 540

Query: 121  DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
            DS+SL ALV+GLI+N  L+EAA VL + GS   G EDLV AYNTLIVGYGQRG+VE AR 
Sbjct: 541  DSSSLCALVAGLIKNERLEEAAWVLGQYGSLDSGREDLVYAYNTLIVGYGQRGQVEAARC 600

Query: 181  LFDKIPVNCDR----GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSW 236
            LFD+IP  CD     G    RF+RN+VSWNSMI  Y K GDVVSAR +F+QM +RDT SW
Sbjct: 601  LFDQIPDLCDDDDHGGAFRERFRRNVVSWNSMIKAYLKVGDVVSARLLFDQMKDRDTISW 660

Query: 237  NTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLV 296
            NTMI GY+HV  M++A  LF +MP+ D  +WN MVSGYA +GNLELA  +F++ P+KN+V
Sbjct: 661  NTMIDGYVHVSRMDDAFALFSEMPNRDAHSWNMMVSGYASVGNLELARHYFEKTPEKNIV 720

Query: 297  SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMV 356
            SWNS+IA  + NKDY+ A+ +FI+M ++GEKPD HT +S+LS+S+G+V+L LGMQ+HQ+V
Sbjct: 721  SWNSIIAAYDKNKDYKEAVDVFIRMNIDGEKPDPHTLTSLLSVSTGLVNLRLGMQMHQIV 780

Query: 357  TKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEAL 416
             KTVIPDVP++NALITMY+RCG I+E+R IF+EMKL + V++WNA+IGG A HG A+EAL
Sbjct: 781  VKTVIPDVPVHNALITMYSRCGEIMESRRIFDEMKLKREVITWNAIIGGYAFHGNASEAL 840

Query: 417  ELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDI 476
             LF SM+ + + P++ITF+SVL+ACAHAGLV+E ++ F SM++ Y IEP++EH++SLV++
Sbjct: 841  NLFWSMKCYGIHPSHITFVSVLNACAHAGLVDEAKEQFLSMMSVYKIEPQMEHYSSLVNV 900

Query: 477  VGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPY 536
            +   G+ E+AM +IK MPFEPDK VWGALL ACR++NNV LA VAAEA+ ++EPE+STPY
Sbjct: 901  ISGQGQFEEAMYVIKSMPFEPDKTVWGALLDACRIYNNVGLAHVAAEAMSRLEPESSTPY 960

Query: 537  VLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS 576
            VLLYNMYAD+G WD+A++VR+ M+S  IKK  G SWVD S
Sbjct: 961  VLLYNMYADMGLWDEASQVRMNMESKRIKKERGSSWVDSS 1000

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358346115|ref|XP_003637117.1| Pentatricopeptide repeat-containing protein, partial [Medicago truncatula] gi|355503052|gb|AES84255.1| Pentatricopeptide repeat-containing protein, partial [Medicago truncatula]

 Score =  761 bits (1964), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 354/520 (68%), Positives = 442/520 (85%), Gaps = 5/520 (0%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
           MI+GYV+RRE+AKAR+LFDEMP RD+VSWN++ISGY S RGS F+EE R LFDIMP+RDC
Sbjct: 75  MITGYVQRREIAKARQLFDEMPLRDIVSWNLIISGYFSCRGSRFVEEGRKLFDIMPQRDC 134

Query: 61  VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
           V+WNTVISGYAK G M++A+ +F SMP RNVVS NA+++GFL NGDV +A+ FF +M  R
Sbjct: 135 VSWNTVISGYAKNGRMDQAIEIFESMPERNVVSCNAVVNGFLLNGDVDSAVGFFRKMGER 194

Query: 121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
           DSASLS LVSGL++NG+LD AA +LV+ G+  D  +DLV AYNTLI GYGQRG VEEAR 
Sbjct: 195 DSASLSGLVSGLVRNGKLDMAAEILVEYGNEGDEKDDLVYAYNTLIAGYGQRGMVEEARH 254

Query: 181 LFDKIPVNCDRGEGN---VRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWN 237
           +FD   V  D+GEGN    R KRN+VSWNSM+MCY KAGDVVSARE+F++M+ERD  SWN
Sbjct: 255 VFDG--VMSDQGEGNEGKRRLKRNVVSWNSMMMCYVKAGDVVSARELFDRMVERDACSWN 312

Query: 238 TMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS 297
           T+I GY+ + DMEEAS LF++MP PD L+WN+++SG++QIG+L+   +FF+ MP KNL+S
Sbjct: 313 TVIGGYVQIGDMEEASKLFLEMPIPDVLSWNSIISGFSQIGDLKRVKEFFENMPHKNLIS 372

Query: 298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT 357
           WNS+IAG E N+DY+GAI+LF QMQ++GE+PDRHT SSILS+S+G+VDL+LG QIHQ VT
Sbjct: 373 WNSVIAGYEKNEDYKGAIELFSQMQLKGERPDRHTLSSILSVSTGLVDLYLGKQIHQFVT 432

Query: 358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
           KTV+PD+PINN+LITMY+RCG I +AR +F EMKL K+V++WNAMIGG A HGFA +ALE
Sbjct: 433 KTVVPDLPINNSLITMYSRCGEIGDARHVFNEMKLYKDVITWNAMIGGYAFHGFAAQALE 492

Query: 418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
           LF+ M+  K+ PTYITFISVL+ACAHAGLVEEG++ F SM+N+YGIEPR+EHFASLVDI+
Sbjct: 493 LFERMKGLKIQPTYITFISVLNACAHAGLVEEGKRQFNSMINDYGIEPRVEHFASLVDIL 552

Query: 478 GRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVEL 517
           GR G+L++AMDLI  MP +PDKAVWGALLGACRVH+NV+L
Sbjct: 553 GRQGQLQEAMDLIVNMPVKPDKAVWGALLGACRVHSNVDL 592

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	579
TAIR|locus:2018092	656	MEF9 "AT1G62260" [Arabidopsis	0.994	0.878	0.630	1.5e-195
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.960	0.711	0.426	2.7e-123
TAIR|locus:2012295	705	AT1G09410 [Arabidopsis thalian	0.913	0.750	0.375	1.5e-99
TAIR|locus:2044797	627	AT2G35030 [Arabidopsis thalian	0.886	0.818	0.381	1.3e-98
TAIR|locus:2054131	697	SLO2 "AT2G13600" [Arabidopsis	0.967	0.803	0.362	2e-95
TAIR|locus:505006163	761	AT1G32415 "AT1G32415" [Arabido	0.946	0.720	0.374	3e-94
TAIR|locus:2027554	704	AT1G56690 [Arabidopsis thalian	0.892	0.734	0.358	1.5e-92
TAIR|locus:2055919	786	AT2G22070 "AT2G22070" [Arabido	0.965	0.711	0.352	1.3e-82
TAIR|locus:2032955	790	AT1G25360 "AT1G25360" [Arabido	0.960	0.703	0.335	7.4e-82
TAIR|locus:2094812	600	AT3G29230 "AT3G29230" [Arabido	0.844	0.815	0.365	1.2e-79

TAIR|locus:2018092 MEF9 "AT1G62260" [Arabidopsis thaliana (taxid:3702)]

 Score = 1894 (671.8 bits), Expect = 1.5e-195, P = 1.5e-195
 Identities = 365/579 (63%), Positives = 455/579 (78%)

Query:     1 MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
             MISGYVKRREM +ARKLFD MP+RDVV+WN MISGY+S  G  FLEEAR LFD MP RD 
Sbjct:    77 MISGYVKRREMNQARKLFDVMPKRDVVTWNTMISGYVSCGGIRFLEEARKLFDEMPSRDS 136

Query:    61 VTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR 120
              +WNT+ISGYAK   + EAL LF  MP RN VSW+AMI+GF QNG+V +A+  F +MP +
Sbjct:   137 FSWNTMISGYAKNRRIGEALLLFEKMPERNAVSWSAMITGFCQNGEVDSAVVLFRKMPVK 196

Query:   121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK 180
             DS+ L ALV+GLI+N  L EAA VL + GS   G EDLV AYNTLIVGYGQRG+VE AR 
Sbjct:   197 DSSPLCALVAGLIKNERLSEAAWVLGQYGSLVSGREDLVYAYNTLIVGYGQRGQVEAARC 256

Query:   181 LFDKIPVNC--DRG-EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWN 237
             LFD+IP  C  D G E   RF +N+VSWNSMI  Y K GDVVSAR +F+QM +RDT SWN
Sbjct:   257 LFDQIPDLCGDDHGGEFRERFCKNVVSWNSMIKAYLKVGDVVSARLLFDQMKDRDTISWN 316

Query:   238 TMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS 297
             TMI GY+HV  ME+A  LF +MP+ D  +WN MVSGYA +GN+ELA  +F++ P+K+ VS
Sbjct:   317 TMIDGYVHVSRMEDAFALFSEMPNRDAHSWNMMVSGYASVGNVELARHYFEKTPEKHTVS 376

Query:   298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT 357
             WNS+IA  E NKDY+ A+ LFI+M +EGEKPD HT +S+LS S+G+V+L LGMQ+HQ+V 
Sbjct:   377 WNSIIAAYEKNKDYKEAVDLFIRMNIEGEKPDPHTLTSLLSASTGLVNLRLGMQMHQIVV 436

Query:   358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
             KTVIPDVP++NALITMY+RCG I+E+R IF+EMKL + V++WNAMIGG A HG A+EAL 
Sbjct:   437 KTVIPDVPVHNALITMYSRCGEIMESRRIFDEMKLKREVITWNAMIGGYAFHGNASEALN 496

Query:   418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
             LF SM+S  + P++ITF+SVL+ACAHAGLV+E +  F SM++ Y IEP++EH++SLV++ 
Sbjct:   497 LFGSMKSNGIYPSHITFVSVLNACAHAGLVDEAKAQFVSMMSVYKIEPQMEHYSSLVNVT 556

Query:   478 GRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV 537
                G+ E+AM +I  MPFEPDK VWGALL ACR++NNV LA VAAEA+ ++EPE+STPYV
Sbjct:   557 SGQGQFEEAMYIITSMPFEPDKTVWGALLDACRIYNNVGLAHVAAEAMSRLEPESSTPYV 616

Query:   538 LLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS 576
             LLYNMYAD+G WD+A++VR+ M+S  IKK  G SWVD S
Sbjct:   617 LLYNMYADMGLWDEASQVRMNMESKRIKKERGSSWVDSS 655

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0016554 "cytidine to uridine editing" evidence=IMP

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 1212 (431.7 bits), Expect = 2.7e-123, P = 2.7e-123
 Identities = 256/600 (42%), Positives = 372/600 (62%)

Query:     2 ISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCV 61
             IS Y++     +A ++F  MP+   VS+N MISGY+ +   G  E AR LFD MPERD V
Sbjct:    71 ISSYMRTGRCNEALRVFKRMPRWSSVSYNGMISGYLRN---GEFELARKLFDEMPERDLV 127

Query:    62 TWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRD 121
             +WN +I GY +   + +A  LF  MP R+V SWN M+SG+ QNG V +A   FDRMP ++
Sbjct:   128 SWNVMIKGYVRNRNLGKARELFEIMPERDVCSWNTMLSGYAQNGCVDDARSVFDRMPEKN 187

Query:   122 SASLSALVSGLIQNGELDEAARV--------LVKCGSRCDG---GEDLVRA--------- 161
               S +AL+S  +QN +++EA  +        LV       G    + +V A         
Sbjct:   188 DVSWNALLSAYVQNSKMEEACMLFKSRENWALVSWNCLLGGFVKKKKIVEARQFFDSMNV 247

Query:   162 -----YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAG 216
                  +NT+I GY Q G+++EAR+LFD+ PV            +++ +W +M+  Y +  
Sbjct:   248 RDVVSWNTIITGYAQSGKIDEARQLFDESPV------------QDVFTWTAMVSGYIQNR 295

Query:   217 DVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQ 276
              V  ARE+F++M ER+  SWN M++GY+    ME A  LF  MP  +  TWN M++GYAQ
Sbjct:   296 MVEEARELFDKMPERNEVSWNAMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQ 355

Query:   277 IGNLELALDFFKRMPQKNLVSWNSMIAG-CETNKDYEGAIKLFIQMQVEGEKPDRHTFSS 335
              G +  A + F +MP+++ VSW +MIAG  ++   +E A++LF+QM+ EG + +R +FSS
Sbjct:   356 CGKISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFE-ALRLFVQMEREGGRLNRSSFSS 414

Query:   336 ILSMSSGIVDLHLGMQIH-QMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLK 394
              LS  + +V L LG Q+H ++V         + NAL+ MY +CG+I EA  +F+EM   K
Sbjct:   415 ALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAG-K 473

Query:   395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHF 454
             ++VSWN MI G + HGF   AL  F+SM+   + P   T ++VLSAC+H GLV++GRQ+F
Sbjct:   474 DIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYF 533

Query:   455 KSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNN 514
              +M  +YG+ P  +H+A +VD++GR G LEDA +L+K MPFEPD A+WG LLGA RVH N
Sbjct:   534 YTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAAIWGTLLGASRVHGN 593

Query:   515 VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
              ELA+ AA+ +  +EPENS  YVLL N+YA  GRW D  ++R+ M+   +KK  GYSW++
Sbjct:   594 TELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIE 653

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2012295 AT1G09410 [Arabidopsis thaliana (taxid:3702)]

 Score = 988 (352.9 bits), Expect = 1.5e-99, P = 1.5e-99
 Identities = 215/572 (37%), Positives = 338/572 (59%)

Query:    30 NVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPAR 89
             NV I+ ++S  G   + EAR LFD    +   +WN++++GY       +A +LF+ MP R
Sbjct:    21 NVRIT-HLSRIGK--IHEARKLFDSCDSKSISSWNSMVAGYFANLMPRDARKLFDEMPDR 77

Query:    90 NVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKC- 148
             N++SWN ++SG+++NG++  A + FD MP R+  S +ALV G + NG++D A  +  K  
Sbjct:    78 NIISWNGLVSGYMKNGEIDEARKVFDLMPERNVVSWTALVKGYVHNGKVDVAESLFWKMP 137

Query:   149 ------------GSRCDGG-EDLVRAYN-----------TLIVGYGQRGRVEEARKLFDK 184
                         G   DG  +D  + Y            ++I G  + GRV+EAR++FD+
Sbjct:   138 EKNKVSWTVMLIGFLQDGRIDDACKLYEMIPDKDNIARTSMIHGLCKEGRVDEAREIFDE 197

Query:   185 IPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYI 244
             +             +R++++W +M+  Y +   V  AR+IF+ M E+   SW +M+ GY+
Sbjct:   198 MS------------ERSVITWTTMVTGYGQNNRVDDARKIFDVMPEKTEVSWTSMLMGYV 245

Query:   245 HVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAG 304
                 +E+A  LF  MP    +  NAM+SG  Q G +  A   F  M ++N  SW ++I  
Sbjct:   246 QNGRIEDAEELFEVMPVKPVIACNAMISGLGQKGEIAKARRVFDSMKERNDASWQTVIKI 305

Query:   305 CETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH-QMVTKTVIPD 363
              E N     A+ LFI MQ +G +P   T  SILS+ + +  LH G Q+H Q+V      D
Sbjct:   306 HERNGFELEALDLFILMQKQGVRPTFPTLISILSVCASLASLHHGKQVHAQLVRCQFDVD 365

Query:   364 VPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMR 423
             V + + L+TMY +CG +V++++IF+     K+++ WN++I G ASHG   EAL++F  M 
Sbjct:   366 VYVASVLMTMYIKCGELVKSKLIFDRFPS-KDIIMWNSIISGYASHGLGEEALKVFCEMP 424

Query:   424 -SFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGR 482
              S    P  +TF++ LSAC++AG+VEEG + ++SM + +G++P   H+A +VD++GR GR
Sbjct:   425 LSGSTKPNEVTFVATLSACSYAGMVEEGLKIYESMESVFGVKPITAHYACMVDMLGRAGR 484

Query:   483 LEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM 542
               +AM++I  M  EPD AVWG+LLGACR H+ +++A+  A+ L+++EPENS  Y+LL NM
Sbjct:   485 FNEAMEMIDSMTVEPDAAVWGSLLGACRTHSQLDVAEFCAKKLIEIEPENSGTYILLSNM 544

Query:   543 YADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
             YA  GRW D  E+R LMK+  ++K  G SW +
Sbjct:   545 YASQGRWADVAELRKLMKTRLVRKSPGCSWTE 576

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2044797 AT2G35030 [Arabidopsis thaliana (taxid:3702)]

 Score = 979 (349.7 bits), Expect = 1.3e-98, P = 1.3e-98
 Identities = 204/535 (38%), Positives = 326/535 (60%)

Query:    43 GFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPAR-NVVSWNAMISGF 101
             G + EAR LFD +PERD VTW  VI+GY K G+M EA  LF+ + +R NVV+W AM+SG+
Sbjct:    60 GKIAEARKLFDGLPERDVVTWTHVITGYIKLGDMREARELFDRVDSRKNVVTWTAMVSGY 119

Query:   102 LQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRA 161
             L++  ++ A   F  MP R+  S + ++ G  Q+G +D+A  +  +   R     ++V +
Sbjct:   120 LRSKQLSIAEMLFQEMPERNVVSWNTMIDGYAQSGRIDKALELFDEMPER-----NIV-S 173

Query:   162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSA 221
             +N+++    QRGR++EA  LF+++P            +R++VSW +M+   AK G V  A
Sbjct:   174 WNSMVKALVQRGRIDEAMNLFERMP------------RRDVVSWTAMVDGLAKNGKVDEA 221

Query:   222 REIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLE 281
             R +F+ M ER+  SWN MI+GY     ++EA  LF  MP  D  +WN M++G+ +   + 
Sbjct:   222 RRLFDCMPERNIISWNAMITGYAQNNRIDEADQLFQVMPERDFASWNTMITGFIRNREMN 281

Query:   282 LALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGE-KPDRHTFSSILSMS 340
              A   F RMP+KN++SW +MI G   NK+ E A+ +F +M  +G  KP+  T+ SILS  
Sbjct:   282 KACGLFDRMPEKNVISWTTMITGYVENKENEEALNVFSKMLRDGSVKPNVGTYVSILSAC 341

Query:   341 SGIVDLHLGMQIHQMVTKTVIPDVPI-NNALITMYARCGAIVEARIIFEE-MKLLKNVVS 398
             S +  L  G QIHQ+++K+V     I  +AL+ MY++ G ++ AR +F+  +   ++++S
Sbjct:   342 SDLAGLVEGQQIHQLISKSVHQKNEIVTSALLNMYSKSGELIAARKMFDNGLVCQRDLIS 401

Query:   399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMV 458
             WN+MI   A HG   EA+E++  MR     P+ +T++++L AC+HAGLVE+G + FK +V
Sbjct:   402 WNSMIAVYAHHGHGKEAIEMYNQMRKHGFKPSAVTYLNLLFACSHAGLVEKGMEFFKDLV 461

Query:   459 NEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELA 518
              +  +  R EH+  LVD+ GR GRL+D  + I        ++ +GA+L AC VHN V +A
Sbjct:   462 RDESLPLREEHYTCLVDLCGRAGRLKDVTNFINCDDARLSRSFYGAILSACNVHNEVSIA 521

Query:   519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
             +   + +++   +++  YVL+ N+YA  G+ ++A E+R+ MK   +KK  G SWV
Sbjct:   522 KEVVKKVLETGSDDAGTYVLMSNIYAANGKREEAAEMRMKMKEKGLKKQPGCSWV 576

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2054131 SLO2 "AT2G13600" [Arabidopsis thaliana (taxid:3702)]

 Score = 949 (339.1 bits), Expect = 2.0e-95, P = 2.0e-95
 Identities = 213/588 (36%), Positives = 329/588 (55%)

Query:     1 MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC 60
             +I  Y K   +   R++FD+MPQR++ +WN +++G       GFL+EA  LF  MPERD 
Sbjct:    61 LIDAYSKCGSLEDGRQVFDKMPQRNIYTWNSVVTGLTKL---GFLDEADSLFRSMPERDQ 117

Query:    61 VTWNTVISGYAKTGEMEEALRLFNSMPARNVV----SWNAMISGFLQNGDVANAIEFFD- 115
              TWN+++SG+A+    EEAL  F  M     V    S+ +++S      D+   ++    
Sbjct:   118 CTWNSMVSGFAQHDRCEEALCYFAMMHKEGFVLNEYSFASVLSACSGLNDMNKGVQVHSL 177

Query:   116 --RMPGRDSASL-SALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR 172
               + P      + SALV    + G +++A RV  + G R     ++V ++N+LI  + Q 
Sbjct:   178 IAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDR-----NVV-SWNSLITCFEQN 231

Query:   173 GRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERD 232
             G   EA  +F  +  +  R E +     +++S  + +    K G  V  R +    L  D
Sbjct:   232 GPAVEALDVFQMMLES--RVEPDEVTLASVISACASLSAI-KVGQEVHGRVVKNDKLRND 288

Query:   233 TFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ 292
                 N  +  Y     ++EA  +F  MP  + +   +M+SGYA   + + A   F +M +
Sbjct:   289 IILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTKAARLMFTKMAE 348

Query:   293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQI 352
             +N+VSWN++IAG   N + E A+ LF  ++ E   P  ++F++IL   + + +LHLGMQ 
Sbjct:   349 RNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACADLAELHLGMQA 408

Query:   353 HQMVTKTVIP-------DVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGG 405
             H  V K           D+ + N+LI MY +CG + E  ++F +M + ++ VSWNAMI G
Sbjct:   409 HVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKM-MERDCVSWNAMIIG 467

Query:   406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP 465
              A +G+  EALELF+ M      P +IT I VLSAC HAG VEEGR +F SM  ++G+ P
Sbjct:   468 FAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFSSMTRDFGVAP 527

Query:   466 RIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEAL 525
               +H+  +VD++GR G LE+A  +I+ MP +PD  +WG+LL AC+VH N+ L +  AE L
Sbjct:   528 LRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLAACKVHRNITLGKYVAEKL 587

Query:   526 MKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
             ++VEP NS PYVLL NMYA++G+W+D   VR  M+   + K  G SW+
Sbjct:   588 LEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWI 635

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0010182 "sugar mediated signaling pathway" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:505006163 AT1G32415 "AT1G32415" [Arabidopsis thaliana (taxid:3702)]

 Score = 938 (335.3 bits), Expect = 3.0e-94, P = 3.0e-94
 Identities = 214/571 (37%), Positives = 328/571 (57%)

Query:    14 ARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKT 73
             A +LFDEMP+R+VVSWN +++G I +   G +E+A+ +FD MP RD V+WN +I GY + 
Sbjct:   157 AVELFDEMPERNVVSWNTLVTGLIRN---GDMEKAKQVFDAMPSRDVVSWNAMIKGYIEN 213

Query:    74 GEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLI 133
               MEEA  LF  M  +NVV+W +M+ G+ + GDV  A   F  MP R+  S +A++SG  
Sbjct:   214 DGMEEAKLLFGDMSEKNVVTWTSMVYGYCRYGDVREAYRLFCEMPERNIVSWTAMISGFA 273

Query:   134 QNGELDEAARVLVKCGSRCDGGEDLVRAYNTLI-VGYGQRGRVEEARKLFDKIPVNC-DR 191
              N    EA  + ++     D    +     TLI + Y   G   E R+L +++       
Sbjct:   274 WNELYREALMLFLEMKKDVDA---VSPNGETLISLAYACGGLGVEFRRLGEQLHAQVISN 330

Query:   192 GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEE 251
             G   V     +    S++  YA +G + SA+ +  +    D  S N +I+ Y+   D+E 
Sbjct:   331 GWETVDHDGRLAK--SLVHMYASSGLIASAQSLLNESF--DLQSCNIIINRYLKNGDLER 386

Query:   252 ASNLF--VKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNK 309
             A  LF  VK  H D ++W +M+ GY + G++  A   F+++  K+ V+W  MI+G   N+
Sbjct:   387 AETLFERVKSLH-DKVSWTSMIDGYLEAGDVSRAFGLFQKLHDKDGVTWTVMISGLVQNE 445

Query:   310 DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVI---PDVPI 366
              +  A  L   M   G KP   T+S +LS +    +L  G  IH ++ KT     PD+ +
Sbjct:   446 LFAEAASLLSDMVRCGLKPLNSTYSVLLSSAGATSNLDQGKHIHCVIAKTTACYDPDLIL 505

Query:   367 NNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK 426
              N+L++MYA+CGAI +A  IF +M + K+ VSWN+MI G + HG A +AL LFK M    
Sbjct:   506 QNSLVSMYAKCGAIEDAYEIFAKM-VQKDTVSWNSMIMGLSHHGLADKALNLFKEMLDSG 564

Query:   427 VLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDA 486
               P  +TF+ VLSAC+H+GL+  G + FK+M   Y I+P I+H+ S++D++GR G+L++A
Sbjct:   565 KKPNSVTFLGVLSACSHSGLITRGLELFKAMKETYSIQPGIDHYISMIDLLGRAGKLKEA 624

Query:   487 MDLIKGMPFEPDKAVWGALLGACRVH---NNVE-LAQVAAEALMKVEPENSTPYVLLYNM 542
              + I  +PF PD  V+GALLG C ++    + E +A+ AA  L++++P N+  +V L N+
Sbjct:   625 EEFISALPFTPDHTVYGALLGLCGLNWRDKDAEGIAERAAMRLLELDPVNAPGHVALCNV 684

Query:   543 YADVGRWDDANEVRLLMKSNNIKKPTGYSWV 573
             YA +GR D   E+R  M    +KK  G SWV
Sbjct:   685 YAGLGRHDMEKEMRKEMGIKGVKKTPGCSWV 715

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2027554 AT1G56690 [Arabidopsis thaliana (taxid:3702)]

 Score = 922 (329.6 bits), Expect = 1.5e-92, P = 1.5e-92
 Identities = 201/560 (35%), Positives = 324/560 (57%)

Query:    43 GFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFL 102
             G + EAR  FD +  +   +WN+++SGY   G  +EA +LF+ M  RNVVSWN ++SG++
Sbjct:    31 GKINEARKFFDSLQFKAIGSWNSIVSGYFSNGLPKEARQLFDEMSERNVVSWNGLVSGYI 90

Query:   103 QNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVL------------VKCGS 150
             +N  +  A   F+ MP R+  S +A+V G +Q G + EA  +             V  G 
Sbjct:    91 KNRMIVEARNVFELMPERNVVSWTAMVKGYMQEGMVGEAESLFWRMPERNEVSWTVMFGG 150

Query:   151 RCDGG--------------EDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNV 196
               D G              +D+V + N +I G  + GRV+EAR +FD++           
Sbjct:   151 LIDDGRIDKARKLYDMMPVKDVVASTN-MIGGLCREGRVDEARLIFDEMR---------- 199

Query:   197 RFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLF 256
               +RN+V+W +MI  Y +   V  AR++FE M E+   SW +M+ GY     +E+A   F
Sbjct:   200 --ERNVVTWTTMITGYRQNNRVDVARKLFEVMPEKTEVSWTSMLLGYTLSGRIEDAEEFF 257

Query:   257 VKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYE-GAI 315
               MP    +  NAM+ G+ ++G +  A   F  M  ++  +W  MI   E  K +E  A+
Sbjct:   258 EVMPMKPVIACNAMIVGFGEVGEISKARRVFDLMEDRDNATWRGMIKAYE-RKGFELEAL 316

Query:   316 KLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD-VPINNALITMY 374
              LF QMQ +G +P   +  SILS+ + +  L  G Q+H  + +    D V + + L+TMY
Sbjct:   317 DLFAQMQKQGVRPSFPSLISILSVCATLASLQYGRQVHAHLVRCQFDDDVYVASVLMTMY 376

Query:   375 ARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITF 434
              +CG +V+A+++F+     K+++ WN++I G ASHG   EAL++F  M S   +P  +T 
Sbjct:   377 VKCGELVKAKLVFDRFSS-KDIIMWNSIISGYASHGLGEEALKIFHEMPSSGTMPNKVTL 435

Query:   435 ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP 494
             I++L+AC++AG +EEG + F+SM +++ + P +EH++  VD++GR G+++ AM+LI+ M 
Sbjct:   436 IAILTACSYAGKLEEGLEIFESMESKFCVTPTVEHYSCTVDMLGRAGQVDKAMELIESMT 495

Query:   495 FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANE 554
              +PD  VWGALLGAC+ H+ ++LA+VAA+ L + EP+N+  YVLL ++ A   +W D   
Sbjct:   496 IKPDATVWGALLGACKTHSRLDLAEVAAKKLFENEPDNAGTYVLLSSINASRSKWGDVAV 555

Query:   555 VRLLMKSNNIKKPTGYSWVD 574
             VR  M++NN+ K  G SW++
Sbjct:   556 VRKNMRTNNVSKFPGCSWIE 575

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2055919 AT2G22070 "AT2G22070" [Arabidopsis thaliana (taxid:3702)]

 Score = 828 (296.5 bits), Expect = 1.3e-82, P = 1.3e-82
 Identities = 207/588 (35%), Positives = 324/588 (55%)

Query:     1 MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEA-RYLFDIMPER- 58
             ++S Y KR +M    + FD++PQRD VSW  MI GY   +  G   +A R + D++ E  
Sbjct:    86 VLSAYSKRGDMDSTCEFFDQLPQRDSVSWTTMIVGY---KNIGQYHKAIRVMGDMVKEGI 142

Query:    59 --DCVTWNTVISGYAKTGEMEEALRLFN---SMPAR-NVVSWNAMISGFLQNGDVANAIE 112
                  T   V++  A T  ME   ++ +    +  R NV   N++++ + + GD   A  
Sbjct:   143 EPTQFTLTNVLASVAATRCMETGKKVHSFIVKLGLRGNVSVSNSLLNMYAKCGDPMMAKF 202

Query:   113 FFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR 172
              FDRM  RD +S +A+++  +Q G++D A     +   R     D+V  +N++I G+ QR
Sbjct:   203 VFDRMVVRDISSWNAMIALHMQVGQMDLAMAQFEQMAER-----DIV-TWNSMISGFNQR 256

Query:   173 GRVEEARKLFDKIPVNCDRGEGNVRFK-RNIVSW--NSMIMCYAKAGDVVSAREIFEQML 229
             G    A  +F K+    D      RF   +++S   N   +C  K   + S   I     
Sbjct:   257 GYDLRALDIFSKMLR--DSLLSPDRFTLASVLSACANLEKLCIGK--QIHS--HIVTTGF 310

Query:   230 ERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLT--WNAMVSGYAQIGNLELALDFF 287
             +      N +IS Y     +E A  L  +    D     + A++ GY ++G++  A + F
Sbjct:   311 DISGIVLNALISMYSRCGGVETARRLIEQRGTKDLKIEGFTALLDGYIKLGDMNQAKNIF 370

Query:   288 KRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLH 347
               +  +++V+W +MI G E +  Y  AI LF  M   G++P+ +T +++LS++S +  L 
Sbjct:   371 VSLKDRDVVAWTAMIVGYEQHGSYGEAINLFRSMVGGGQRPNSYTLAAMLSVASSLASLS 430

Query:   348 LGMQIHQMVTKT-VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGC 406
              G QIH    K+  I  V ++NALITMYA+ G I  A   F+ ++  ++ VSW +MI   
Sbjct:   431 HGKQIHGSAVKSGEIYSVSVSNALITMYAKAGNITSASRAFDLIRCERDTVSWTSMIIAL 490

Query:   407 ASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR 466
             A HG A EALELF++M    + P +IT++ V SAC HAGLV +GRQ+F  M +   I P 
Sbjct:   491 AQHGHAEEALELFETMLMEGLRPDHITYVGVFSACTHAGLVNQGRQYFDMMKDVDKIIPT 550

Query:   467 IEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALM 526
             + H+A +VD+ GR G L++A + I+ MP EPD   WG+LL ACRVH N++L +VAAE L+
Sbjct:   551 LSHYACMVDLFGRAGLLQEAQEFIEKMPIEPDVVTWGSLLSACRVHKNIDLGKVAAERLL 610

Query:   527 KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
              +EPENS  Y  L N+Y+  G+W++A ++R  MK   +KK  G+SW++
Sbjct:   611 LLEPENSGAYSALANLYSACGKWEEAAKIRKSMKDGRVKKEQGFSWIE 658

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2032955 AT1G25360 "AT1G25360" [Arabidopsis thaliana (taxid:3702)]

 Score = 821 (294.1 bits), Expect = 7.4e-82, P = 7.4e-82
 Identities = 199/594 (33%), Positives = 323/594 (54%)

Query:     1 MISGYVKRREMAKARKLFDEMP--QRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPER 58
             M+SGY    ++  AR +F++ P   RD V +N MI+G+ S    G+   A  LF  M   
Sbjct:    86 MVSGYCASGDITLARGVFEKAPVCMRDTVMYNAMITGF-SHNNDGY--SAINLFCKMKHE 142

Query:    59 ----DCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSW-----NAMISGFLQNGD--- 106
                 D  T+ +V++G A   + E+    F++   ++   +     NA++S + +      
Sbjct:   143 GFKPDNFTFASVLAGLALVADDEKQCVQFHAAALKSGAGYITSVSNALVSVYSKCASSPS 202

Query:   107 -VANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTL 165
              + +A + FD +  +D  S + +++G ++NG  D    +L       D    LV AYN +
Sbjct:   203 LLHSARKVFDEILEKDERSWTTMMTGYVKNGYFDLGEELL----EGMDDNMKLV-AYNAM 257

Query:   166 IVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIF 225
             I GY  RG  +EA ++  ++        G    + +  ++ S+I   A AG +   +++ 
Sbjct:   258 ISGYVNRGFYQEALEMVRRMV-----SSG---IELDEFTYPSVIRACATAGLLQLGKQVH 309

Query:   226 EQMLERDTFSW---NTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLEL 282
               +L R+ FS+   N+++S Y      +EA  +F KMP  D ++WNA++SGY   G++  
Sbjct:   310 AYVLRREDFSFHFDNSLVSLYYKCGKFDEARAIFEKMPAKDLVSWNALLSGYVSSGHIGE 369

Query:   283 ALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG 342
             A   FK M +KN++SW  MI+G   N   E  +KLF  M+ EG +P  + FS  +  S  
Sbjct:   370 AKLIFKEMKEKNILSWMIMISGLAENGFGEEGLKLFSCMKREGFEPCDYAFSGAIK-SCA 428

Query:   343 IVDLHL-GMQIHQMVTKTVIPD-VPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWN 400
             ++  +  G Q H  + K      +   NALITMYA+CG + EAR +F  M  L +V SWN
Sbjct:   429 VLGAYCNGQQYHAQLLKIGFDSSLSAGNALITMYAKCGVVEEARQVFRTMPCLDSV-SWN 487

Query:   401 AMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNE 460
             A+I     HG   EA+++++ M    + P  IT ++VL+AC+HAGLV++GR++F SM   
Sbjct:   488 ALIAALGQHGHGAEAVDVYEEMLKKGIRPDRITLLTVLTACSHAGLVDQGRKYFDSMETV 547

Query:   461 YGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQV 520
             Y I P  +H+A L+D++ R G+  DA  +I+ +PF+P   +W ALL  CRVH N+EL  +
Sbjct:   548 YRIPPGADHYARLIDLLCRSGKFSDAESVIESLPFKPTAEIWEALLSGCRVHGNMELGII 607

Query:   521 AAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
             AA+ L  + PE+   Y+LL NM+A  G+W++   VR LM+   +KK    SW++
Sbjct:   608 AADKLFGLIPEHDGTYMLLSNMHAATGQWEEVARVRKLMRDRGVKKEVACSWIE 661

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2094812 AT3G29230 "AT3G29230" [Arabidopsis thaliana (taxid:3702)]

 Score = 800 (286.7 bits), Expect = 1.2e-79, P = 1.2e-79
 Identities = 191/523 (36%), Positives = 295/523 (56%)

Query:    66 VISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMP--G--RD 121
             +IS  +   +   A+R+FN +   NV   N++I    QN     A   F  M   G   D
Sbjct:    57 LISALSLCRQTNLAVRVFNQVQEPNVHLCNSLIRAHAQNSQPYQAFFVFSEMQRFGLFAD 116

Query:   122 SASLSALVSGLIQNGELDEAARV---LVKCGSRCDGGEDLVRAYNTLIVGYGQRGR--VE 176
             + +   L+        L     +   + K G   D     +   N LI  Y + G   V 
Sbjct:   117 NFTYPFLLKACSGQSWLPVVKMMHNHIEKLGLSSD-----IYVPNALIDCYSRCGGLGVR 171

Query:   177 EARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSW 236
             +A KLF+K+             +R+ VSWNSM+    KAG++  AR +F++M +RD  SW
Sbjct:   172 DAMKLFEKMS------------ERDTVSWNSMLGGLVKAGELRDARRLFDEMPQRDLISW 219

Query:   237 NTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMP--QKN 294
             NTM+ GY    +M +A  LF KMP  +T++W+ MV GY++ G++E+A   F +MP   KN
Sbjct:   220 NTMLDGYARCREMSKAFELFEKMPERNTVSWSTMVMGYSKAGDMEMARVMFDKMPLPAKN 279

Query:   295 LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSM--SSGIVDLHLGMQI 352
             +V+W  +IAG       + A +L  QM   G K D     SIL+    SG+  L LGM+I
Sbjct:   280 VVTWTIIIAGYAEKGLLKEADRLVDQMVASGLKFDAAAVISILAACTESGL--LSLGMRI 337

Query:   353 HQMVTKTVI-PDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGF 411
             H ++ ++ +  +  + NAL+ MYA+CG + +A  +F ++   K++VSWN M+ G   HG 
Sbjct:   338 HSILKRSNLGSNAYVLNALLDMYAKCGNLKKAFDVFNDIPK-KDLVSWNTMLHGLGVHGH 396

Query:   412 ATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA 471
               EA+ELF  MR   + P  +TFI+VL +C HAGL++EG  +F SM   Y + P++EH+ 
Sbjct:   397 GKEAIELFSRMRREGIRPDKVTFIAVLCSCNHAGLIDEGIDYFYSMEKVYDLVPQVEHYG 456

Query:   472 SLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPE 531
              LVD++GR GRL++A+ +++ MP EP+  +WGALLGACR+HN V++A+   + L+K++P 
Sbjct:   457 CLVDLLGRVGRLKEAIKVVQTMPMEPNVVIWGALLGACRMHNEVDIAKEVLDNLVKLDPC 516

Query:   532 NSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
             +   Y LL N+YA    W+   ++R  MKS  ++KP+G S V+
Sbjct:   517 DPGNYSLLSNIYAAAEDWEGVADIRSKMKSMGVEKPSGASSVE 559

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

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)
O04590	PPR88_ARATH	No assigned EC number	0.6286	0.9948	0.8780	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	579
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-110
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-86
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-51
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-46
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-34
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	6e-27
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
pfam01535	31	pfam01535, PPR, PPR repeat	7e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
pfam01535	31	pfam01535, PPR, PPR repeat	9e-06
pfam01535	31	pfam01535, PPR, PPR repeat	4e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	8e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-05
pfam01535	31	pfam01535, PPR, PPR repeat	9e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	3e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
TIGR02917	899	TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
TIGR02917	899	TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system	0.003

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  349 bits (896), Expect = e-110
 Identities = 204/654 (31%), Positives = 316/654 (48%), Gaps = 128/654 (19%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIM----- 55
           M+S +V+  E+  A  +F +MP+RD+ SWNV++ GY  +   G+ +EA  L+  M     
Sbjct: 127 MLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKA---GYFDEALCLYHRMLWAGV 183

Query: 56  -PE--------RDC---VTW----------------------NTVISGYAKTGEMEEALR 81
            P+        R C                            N +I+ Y K G++  A  
Sbjct: 184 RPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARL 243

Query: 82  LFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEA 141
           +F+ MP R+ +SWNAMISG+ +NG+    +E F  M              L  + +L   
Sbjct: 244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTM------------RELSVDPDLMTI 291

Query: 142 ARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN 201
             V+  C    D  E L R  +  +V  G                           F  +
Sbjct: 292 TSVISACELLGD--ERLGREMHGYVVKTG---------------------------FAVD 322

Query: 202 IVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPH 261
           +   NS+I  Y   G    A ++F +M  +D  SW  MISGY      ++A   +  M  
Sbjct: 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQ 382

Query: 262 ----PDTLTWNAMVSGYAQIGNLEL----------------------------------- 282
               PD +T  +++S  A +G+L++                                   
Sbjct: 383 DNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDK 442

Query: 283 ALDFFKRMPQKNLVSWNSMIAG-CETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSS 341
           AL+ F  +P+K+++SW S+IAG    N+ +E A+  F QM +   KP+  T  + LS  +
Sbjct: 443 ALEVFHNIPEKDVISWTSIIAGLRLNNRCFE-ALIFFRQMLLT-LKPNSVTLIAALSACA 500

Query: 342 GIVDLHLGMQIHQMVTKTVIP-DVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWN 400
            I  L  G +IH  V +T I  D  + NAL+ +Y RCG +  A   F   +  K+VVSWN
Sbjct: 501 RIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE--KDVVSWN 558

Query: 401 AMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNE 460
            ++ G  +HG  + A+ELF  M    V P  +TFIS+L AC+ +G+V +G ++F SM  +
Sbjct: 559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

Query: 461 YGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQV 520
           Y I P ++H+A +VD++GR G+L +A + I  MP  PD AVWGALL ACR+H +VEL ++
Sbjct: 619 YSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGEL 678

Query: 521 AAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           AA+ + +++P +   Y+LL N+YAD G+WD+   VR  M+ N +    G SWV+
Sbjct: 679 AAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVE 732

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  282 bits (722), Expect = 3e-86
 Identities = 136/410 (33%), Positives = 226/410 (55%), Gaps = 41/410 (10%)

Query: 205 WNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKM----- 259
            N +++ + K G ++ AR +F++M ER+  SW T+I G +   +  EA  LF +M     
Sbjct: 161 MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS 220

Query: 260 ---PHP-------------------------------DTLTWNAMVSGYAQIGNLELALD 285
              P                                 DT    A++  Y++ G++E A  
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC 280

Query: 286 FFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVD 345
            F  MP+K  V+WNSM+AG   +   E A+ L+ +M+  G   D+ TFS ++ + S +  
Sbjct: 281 VFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL 340

Query: 346 LHLGMQIHQMVTKTVIP-DVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIG 404
           L    Q H  + +T  P D+  N AL+ +Y++ G + +AR +F+ M   KN++SWNA+I 
Sbjct: 341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-KNLISWNALIA 399

Query: 405 GCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIE 464
           G  +HG  T+A+E+F+ M +  V P ++TF++VLSAC ++GL E+G + F+SM   + I+
Sbjct: 400 GYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIK 459

Query: 465 PRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEA 524
           PR  H+A +++++GR G L++A  +I+  PF+P   +W ALL ACR+H N+EL ++AAE 
Sbjct: 460 PRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 525 LMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD 574
           L  + PE    YV+L N+Y   GR  +A +V   +K   +      +W++
Sbjct: 520 LYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIE 569

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  188 bits (478), Expect = 5e-51
 Identities = 152/543 (27%), Positives = 236/543 (43%), Gaps = 99/543 (18%)

Query: 42  SGFLEEARYLFDIMPERDCVTWNTVISGYAKTGE----MEEALRLF----NSMPARNVVS 93
            G LE+A  L + M E              +  E    +EE  R+     +S P+  V  
Sbjct: 64  HGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRL 123

Query: 94  WNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAA----RVL---- 145
            NAM+S F++ G++ +A   F +MP RD  S + LV G  + G  DEA     R+L    
Sbjct: 124 GNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV 183

Query: 146 ------VKCGSR-CDGGEDLVRA--YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNV 196
                   C  R C G  DL R    +  +V +G                          
Sbjct: 184 RPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG-------------------------- 217

Query: 197 RFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLF 256
            F+ ++   N++I  Y K GDVVSAR +F++M  RD  SWN MISGY    +  E   LF
Sbjct: 218 -FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELF 276

Query: 257 VKMPH----PDTLT-----------------------------------WNAMVSGYAQI 277
             M      PD +T                                    N+++  Y  +
Sbjct: 277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSL 336

Query: 278 GNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSIL 337
           G+   A   F RM  K+ VSW +MI+G E N   + A++ +  M+ +   PD  T +S+L
Sbjct: 337 GSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

Query: 338 SMSSGIVDLHLGMQIHQMVTKT-VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNV 396
           S  + + DL +G+++H++  +  +I  V + NALI MY++C  I +A  +F  +   K+V
Sbjct: 397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDV 455

Query: 397 VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQ-HFK 455
           +SW ++I G   +    EAL  F+ M    + P  +T I+ LSACA  G +  G++ H  
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEIHAH 514

Query: 456 SMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNV 515
            +    G +  + +  +L+D+  R GR+  A +       E D   W  LL     H   
Sbjct: 515 VLRTGIGFDGFLPN--ALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKG 570

Query: 516 ELA 518
            +A
Sbjct: 571 SMA 573

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  175 bits (445), Expect = 1e-46
 Identities = 104/374 (27%), Positives = 175/374 (46%), Gaps = 52/374 (13%)

Query: 206 NSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKM----PH 261
           N+M+  + + G++V A  +F +M ERD FSWN ++ GY      +EA  L+ +M      
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 262 PDTLTW-----------------------------------NAMVSGYAQIGNLELALDF 286
           PD  T+                                   NA+++ Y + G++  A   
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 287 FKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDL 346
           F RMP+++ +SWN+MI+G   N +    ++LF  M+     PD  T +S++S    + D 
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 347 HLGMQIHQMVTKT-VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGG 405
            LG ++H  V KT    DV + N+LI MY   G+  EA  +F  M+  K+ VSW AMI G
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-TKDAVSWTAMISG 363

Query: 406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP 465
              +G   +ALE +  M    V P  IT  SVLSACA  G ++ G       ++E     
Sbjct: 364 YEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG-----VKLHELAERK 418

Query: 466 RIEHFA----SLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALL-GACRVHNNVELAQV 520
            +  +     +L+++  +   ++ A+++   +P E D   W +++ G    +   E    
Sbjct: 419 GLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIF 477

Query: 521 AAEALMKVEPENST 534
             + L+ ++P + T
Sbjct: 478 FRQMLLTLKPNSVT 491

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  138 bits (348), Expect = 2e-34
 Identities = 102/374 (27%), Positives = 168/374 (44%), Gaps = 40/374 (10%)

Query: 57  ERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDR 116
           E D    N V+  + K G + +A RLF+ MP RN+ SW  +I G +  G+   A   F  
Sbjct: 155 EPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFRE 214

Query: 117 MPGRDSASLSALVSGLIQNGELDEAARV---LVKCGSRCDGGEDLVRAYNTLIVGYGQRG 173
           M    S +       +++      +AR    L  C  +     D   +   LI  Y + G
Sbjct: 215 MWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSC-ALIDMYSKCG 273

Query: 174 RVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-- 231
            +E+AR +FD +P            ++  V+WNSM+  YA  G    A  ++ +M +   
Sbjct: 274 DIEDARCVFDGMP------------EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGV 321

Query: 232 --DTFSWNTMISGYIHVLDMEEASNLFVKMPHP---------DTLTWNAMVSGYAQIGNL 280
             D F+++ MI  +  +  +E A     K  H          D +   A+V  Y++ G +
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHA-----KQAHAGLIRTGFPLDIVANTALVDLYSKWGRM 376

Query: 281 ELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMS 340
           E A + F RMP+KNL+SWN++IAG   +     A+++F +M  EG  P+  TF ++LS  
Sbjct: 377 EDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC 436

Query: 341 --SGIVDLHLGMQIHQMVTKT--VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNV 396
             SG+ +   G +I Q +++   + P       +I +  R G + EA  +         V
Sbjct: 437 RYSGLSE--QGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTV 494

Query: 397 VSWNAMIGGCASHG 410
             W A++  C  H 
Sbjct: 495 NMWAALLTACRIHK 508

Length = 697

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  115 bits (289), Expect = 6e-27
 Identities = 93/370 (25%), Positives = 159/370 (42%), Gaps = 88/370 (23%)

Query: 5   YVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPER--DCVT 62
           +VK   +  AR+LFDEMP+R++ SW  +I G +    +G   EA  LF  M E   D   
Sbjct: 168 HVKCGMLIDARRLFDEMPERNLASWGTIIGGLVD---AGNYREAFALFREMWEDGSDAEP 224

Query: 63  WNTV-------------------------------------ISGYAKTGEMEEALRLFNS 85
              V                                     I  Y+K G++E+A  +F+ 
Sbjct: 225 RTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDG 284

Query: 86  MPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSA------SLSALVSGLIQNGELD 139
           MP +  V+WN+M++G+  +G    A+  +  M  RDS       + S ++    +   L+
Sbjct: 285 MPEKTTVAWNSMLAGYALHGYSEEALCLYYEM--RDSGVSIDQFTFSIMIRIFSRLALLE 342

Query: 140 EAARV---LVKCGSRCDGGEDLVRAYNTLIVG-YGQRGRVEEARKLFDKIPVNCDRGEGN 195
            A +    L++ G       D+V   NT +V  Y + GR+E+AR +FD++P         
Sbjct: 343 HAKQAHAGLIRTGF----PLDIVA--NTALVDLYSKWGRMEDARNVFDRMP--------- 387

Query: 196 VRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLD------- 248
              ++N++SWN++I  Y   G    A E+FE+M+       +     ++ VL        
Sbjct: 388 ---RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT---FLAVLSACRYSGL 441

Query: 249 MEEASNLFVKMPH-----PDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS-WNSMI 302
            E+   +F  M       P  + +  M+    + G L+ A    +R P K  V+ W +++
Sbjct: 442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALL 501

Query: 303 AGCETNKDYE 312
             C  +K+ E
Sbjct: 502 TACRIHKNLE 511

Length = 697

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 79.1 bits (195), Expect = 2e-15
 Identities = 58/229 (25%), Positives = 99/229 (43%), Gaps = 47/229 (20%)

Query: 1   MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEA------------ 48
           +I  Y K  ++  AR +FD MP++  V+WN M++GY      G+ EEA            
Sbjct: 265 LIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYAL---HGYSEEALCLYYEMRDSGV 321

Query: 49  ---RYLFDIMP------------------------ERDCVTWNTVISGYAKTGEMEEALR 81
              ++ F IM                           D V    ++  Y+K G ME+A  
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARN 381

Query: 82  LFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSA----SLSALVSGLIQNGE 137
           +F+ MP +N++SWNA+I+G+  +G    A+E F+RM     A    +  A++S    +G 
Sbjct: 382 VFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL 441

Query: 138 LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP 186
            ++   +     S     +     Y  +I   G+ G ++EA  +  + P
Sbjct: 442 SEQGWEIFQSM-SENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP 489

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 76.4 bits (188), Expect = 2e-14
 Identities = 52/209 (24%), Positives = 93/209 (44%), Gaps = 4/209 (1%)

Query: 299 NSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTK 358
           NS +    ++   E A+KL   MQ      D   + ++  +      +  G ++      
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 359 TVIP-DVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE 417
           +     V + NA+++M+ R G +V A  +F +M   +++ SWN ++GG A  G+  EAL 
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMP-ERDLFSWNVLVGGYAKAGYFDEALC 173

Query: 418 LFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV 477
           L+  M    V P   TF  VL  C     +  GR+   + V  +G E  ++   +L+ + 
Sbjct: 174 LYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE-VHAHVVRFGFELDVDVVNALITMY 232

Query: 478 GRHGRLEDAMDLIKGMPFEPDKAVWGALL 506
            + G +  A  +   MP   D   W A++
Sbjct: 233 VKCGDVVSARLVFDRMPRR-DCISWNAMI 260

Length = 857

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 58.2 bits (142), Expect = 3e-11
 Identities = 23/47 (48%), Positives = 32/47 (68%), Gaps = 4/47 (8%)

Query: 59  DCVTWNTVISGYAKTGEMEEALRLFNSMPAR----NVVSWNAMISGF 101
           D VT+NT+I GY K G++EEAL+LFN M  R    NV +++ +I G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 63.0 bits (153), Expect = 3e-10
 Identities = 70/339 (20%), Positives = 149/339 (43%), Gaps = 34/339 (10%)

Query: 198 FKRNIVSWNSMIMCYAKAGDVVSAREIFEQM----LERDTFSWNTMISGYIHVLDMEEAS 253
            K +   + ++I   AK+G V +  E+F +M    +E +  ++  +I G      + +A 
Sbjct: 468 LKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAF 527

Query: 254 N----LFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRM-----PQK-NLVSWNSMIA 303
                +  K   PD + +NA++S   Q G ++ A D    M     P   + ++  +++ 
Sbjct: 528 GAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMK 587

Query: 304 GCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQ-MVTKTVIP 362
            C      + A +++  +     K     ++  ++  S   D    + I+  M  K V P
Sbjct: 588 ACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP 647

Query: 363 DVPINNALITMYARCGAIVEARIIFEEMK---LLKNVVSWNAMIGGCASHGFATEALELF 419
           D    +AL+ +    G + +A  I ++ +   +    VS+++++G C++     +ALEL+
Sbjct: 648 DEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELY 707

Query: 420 KSMRSFKVLPTYITFISVLSA-CAHAGLVEEGRQHFKSM-----VNEYGIEPRIEHFASL 473
           + ++S K+ PT  T  ++++A C       EG Q  K++     +   G+ P    ++ L
Sbjct: 708 EDIKSIKLRPTVSTMNALITALC-------EGNQLPKALEVLSEMKRLGLCPNTITYSIL 760

Query: 474 VDIVGRHGRLEDAMDLI---KGMPFEPDKAVWGALLGAC 509
           +    R    +  +DL+   K    +P+  +   + G C
Sbjct: 761 LVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 62.6 bits (152), Expect = 4e-10
 Identities = 72/299 (24%), Positives = 118/299 (39%), Gaps = 83/299 (27%)

Query: 278 GNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSIL 337
             ++ A  F K +    L ++N +++ C +++D +GA+++   +Q  G K D   +++++
Sbjct: 420 RAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLI 479

Query: 338 SM--SSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKN 395
           S    SG VD    +  H+MV                      A VEA           N
Sbjct: 480 STCAKSGKVDAMFEV-FHEMVN---------------------AGVEA-----------N 506

Query: 396 VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFK 455
           V ++ A+I GCA  G   +A   +  MRS  V P  + F +++SAC  +G V+       
Sbjct: 507 VHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR------ 560

Query: 456 SMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-----PFEPDKAVWGALLGAC- 509
                                         A D++  M     P +PD    GAL+ AC 
Sbjct: 561 ------------------------------AFDVLAEMKAETHPIDPDHITVGALMKACA 590

Query: 510 ---RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK 565
              +V    E+ Q+  E  +K  PE    Y +  N  +  G WD A  +   MK   +K
Sbjct: 591 NAGQVDRAKEVYQMIHEYNIKGTPE---VYTIAVNSCSQKGDWDFALSIYDDMKKKGVK 646

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 62.6 bits (152), Expect = 4e-10
 Identities = 78/397 (19%), Positives = 154/397 (38%), Gaps = 82/397 (20%)

Query: 59  DCVTWNTVISGYAKTGEMEEALRLFNSMPAR----NVVSWNAMISGFLQNGDVANAIEFF 114
           DC  + T+IS  AK+G+++    +F+ M       NV ++ A+I G  + G VA A   +
Sbjct: 471 DCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 115 DRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGR 174
             M  ++                  +  RV+                +N LI   GQ G 
Sbjct: 531 GIMRSKNV-----------------KPDRVV----------------FNALISACGQSGA 557

Query: 175 VEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTF 234
           V+ A   FD   V  +          + ++  +++   A AG V  A+E+++ + E +  
Sbjct: 558 VDRA---FD---VLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN-- 609

Query: 235 SWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKN 294
                I G   V                    +   V+  +Q G+ + AL  +  M +K 
Sbjct: 610 -----IKGTPEV--------------------YTIAVNSCSQKGDWDFALSIYDDMKKKG 644

Query: 295 L----VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGM 350
           +    V +++++       D + A ++    + +G K    ++SS++   S   +    +
Sbjct: 645 VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKAL 704

Query: 351 QIHQMVTKTVI-PDVPINNALITMYARCGA--IVEARIIFEEMK---LLKNVVSWNAMIG 404
           ++++ +    + P V   NALIT  A C    + +A  +  EMK   L  N ++++ ++ 
Sbjct: 705 ELYEDIKSIKLRPTVSTMNALIT--ALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV 762

Query: 405 GCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC 441
                  A   L+L    +   + P  +    +   C
Sbjct: 763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 13/47 (27%), Positives = 29/47 (61%), Gaps = 4/47 (8%)

Query: 201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLER----DTFSWNTMISGY 243
           ++V++N++I  Y K G V  A ++F +M +R    + ++++ +I G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 51.3 bits (124), Expect = 9e-09
 Identities = 14/50 (28%), Positives = 24/50 (48%)

Query: 394 KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH 443
            +VV++N +I G    G   EAL+LF  M+   + P   T+  ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 50.5 bits (122), Expect = 1e-08
 Identities = 15/46 (32%), Positives = 29/46 (63%)

Query: 293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILS 338
            ++V++N++I G       E A+KLF +M+  G KP+ +T+S ++ 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 49.7 bits (120), Expect = 3e-08
 Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 7/52 (13%)

Query: 25 DVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC----VTWNTVISGYAK 72
          DVV++N +I GY      G +EEA  LF+ M +R       T++ +I G  K
Sbjct: 2  DVVTYNTLIDGYCK---KGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 48.2 bits (116), Expect = 1e-07
 Identities = 15/48 (31%), Positives = 28/48 (58%), Gaps = 4/48 (8%)

Query: 262 PDTLTWNAMVSGYAQIGNLELALDFFKRMPQK----NLVSWNSMIAGC 305
           PD +T+N ++ GY + G +E AL  F  M ++    N+ +++ +I G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 46.6 bits (112), Expect = 4e-07
 Identities = 15/47 (31%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 90  NVVSWNAMISGFLQNGDVANAIEFFDRMPGR----DSASLSALVSGL 132
           +VV++N +I G+ + G V  A++ F+ M  R    +  + S L+ GL
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 45.5 bits (109), Expect = 7e-07
 Identities = 17/31 (54%), Positives = 23/31 (74%)

Query: 61 VTWNTVISGYAKTGEMEEALRLFNSMPARNV 91
          VT+N++ISGY K G++EEAL LF  M  + V
Sbjct: 1  VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 45.5 bits (109), Expect = 8e-07
 Identities = 14/40 (35%), Positives = 27/40 (67%), Gaps = 4/40 (10%)

Query: 1  MISGYVKRREMAKARKLFDEMPQR----DVVSWNVMISGY 36
          +I GY K+ ++ +A KLF+EM +R    +V +++++I G 
Sbjct: 9  LIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 45.5 bits (109), Expect = 9e-07
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 4/49 (8%)

Query: 232 DTFSWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQ 276
           D  ++NT+I GY     +EEA  LF +M      P+  T++ ++ G  +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 44.3 bits (106), Expect = 2e-06
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 57 ERDCVTWNTVISGYAKTGEMEEALRLFNSMP 87
          + D VT+NT+I G  + G ++EA+ L + M 
Sbjct: 4  KPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 43.9 bits (105), Expect = 3e-06
 Identities = 22/56 (39%), Positives = 33/56 (58%), Gaps = 8/56 (14%)

Query: 159 VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK 214
           V  YNTLI GY ++G+VEEA KLF+++     RG      K N+ +++ +I    K
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEM---KKRG-----IKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.5 bits (104), Expect = 3e-06
 Identities = 11/29 (37%), Positives = 17/29 (58%)

Query: 90  NVVSWNAMISGFLQNGDVANAIEFFDRMP 118
           +VV++N +I G  + G V  A+E  D M 
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 7e-06
 Identities = 16/32 (50%), Positives = 20/32 (62%)

Query: 61 VTWNTVISGYAKTGEMEEALRLFNSMPARNVV 92
          VT+NT+I G  K G +EEAL LF  M  R + 
Sbjct: 1  VTYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 42.1 bits (100), Expect = 9e-06
 Identities = 13/30 (43%), Positives = 21/30 (70%)

Query: 203 VSWNSMIMCYAKAGDVVSAREIFEQMLERD 232
           V++NS+I  Y KAG +  A E+F++M E+ 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 40.1 bits (95), Expect = 4e-05
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 397 VSWNAMIGGCASHGFATEALELFKSMRSFKV 427
           V++N++I G    G   EALELFK M+   V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.8 bits (94), Expect = 8e-05
 Identities = 13/30 (43%), Positives = 20/30 (66%)

Query: 203 VSWNSMIMCYAKAGDVVSAREIFEQMLERD 232
           V++N++I    KAG V  A E+F++M ER 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERG 30

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 39.7 bits (94), Expect = 9e-05
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 362 PDVPINNALITMYARCGAIVEARIIFEEMKLLK---NVVSWNAMIGGCA 407
           PDV   N LI  Y + G + EA  +F EMK      NV +++ +I G  
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 39.4 bits (93), Expect = 9e-05
 Identities = 14/30 (46%), Positives = 22/30 (73%)

Query: 266 TWNAMVSGYAQIGNLELALDFFKRMPQKNL 295
           T+N+++SGY + G LE AL+ FK M +K +
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 19/34 (55%)

Query: 397 VSWNAMIGGCASHGFATEALELFKSMRSFKVLPT 430
           V++N +I G    G   EALELFK M+   + P 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 37.8 bits (89), Expect = 3e-04
 Identities = 10/26 (38%), Positives = 18/26 (69%)

Query: 92  VSWNAMISGFLQNGDVANAIEFFDRM 117
           V++N++ISG+ + G +  A+E F  M
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEM 26

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.1 bits (90), Expect = 3e-04
 Identities = 10/31 (32%), Positives = 20/31 (64%)

Query: 198 FKRNIVSWNSMIMCYAKAGDVVSAREIFEQM 228
            K ++V++N++I    +AG V  A E+ ++M
Sbjct: 3   LKPDVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 37.7 bits (89), Expect = 3e-04
 Identities = 13/23 (56%), Positives = 17/23 (73%)

Query: 162 YNTLIVGYGQRGRVEEARKLFDK 184
           YNTLI G  + GRV+EA +L D+
Sbjct: 10  YNTLIDGLCRAGRVDEAVELLDE 32

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 42.1 bits (97), Expect = 5e-04
 Identities = 51/260 (19%), Positives = 86/260 (33%), Gaps = 28/260 (10%)

Query: 45  LEEARYLFDIMPERDCV-TWNTVISGYAKTGEMEEALRLF-----NSMPARNVVSWNAMI 98
           LE      +++P  D       +     K G +EEAL L        +      +   + 
Sbjct: 43  LELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLG 102

Query: 99  SGFLQNGDVANAIEFFDRMPGRDSASLSAL----VSGLIQNGELDEAARVLVKCGSRCDG 154
                 G    A+E  ++    D     A     +  L + G+ +EA  +  K       
Sbjct: 103 LLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPE 162

Query: 155 GEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK 214
             +L  A   L       GR EEA +L +K           +    +  +  ++ + Y K
Sbjct: 163 LNELAEALLALGALLEALGRYEEALELLEKAL--------KLNPDDDAEALLNLGLLYLK 214

Query: 215 AGDVVSAREIFEQMLERD---TFSWNTMISGYIHVLDMEEASNLFVKM--PHPDTLTWNA 269
            G    A E +E+ LE D     +   +    + +   EEA     K     PD      
Sbjct: 215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPDLYNL-- 272

Query: 270 MVSGYAQIGNLELALDFFKR 289
              G A +  L  AL+  ++
Sbjct: 273 ---GLALLLLLAEALELLEK 289

Length = 291

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 11/30 (36%), Positives = 20/30 (66%)

Query: 296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEG 325
           V++NS+I+G       E A++LF +M+ +G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.6 bits (86), Expect = 0.001
 Identities = 9/34 (26%), Positives = 18/34 (52%)

Query: 258 KMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMP 291
           K   PD +T+N ++ G  + G ++ A++    M 
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 12/34 (35%), Positives = 21/34 (61%)

Query: 296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD 329
           V++N++I G       E A++LF +M+  G +PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 36.3 bits (85), Expect = 0.001
 Identities = 10/31 (32%), Positives = 19/31 (61%)

Query: 266 TWNAMVSGYAQIGNLELALDFFKRMPQKNLV 296
           T+N ++ G  + G +E AL+ FK M ++ + 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat lipoprotein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 49/238 (20%), Positives = 85/238 (35%), Gaps = 42/238 (17%)

Query: 74  GEMEEALRLFN--------SMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDS 122
           G +E+A +  N        S  AR ++   A I   L+ G V  AI       G    D 
Sbjct: 309 GNLEQAYQYLNQILKYAPNSHQARRLL---ASIQ--LRLGRVDEAIATLSPALGLDPDDP 363

Query: 123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLF 182
           A+LS L    +  G+ ++AA  L K         +   A   L +    +G   EA    
Sbjct: 364 AALSLLGEAYLALGDFEKAAEYLAKATEL---DPENAAARTQLGISKLSQGDPSEAIADL 420

Query: 183 DKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTM 239
           +      D   G             +I+ Y ++G    A    +++ ++   +    N +
Sbjct: 421 ETA-AQLDPELGRADL--------LLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLL 471

Query: 240 ISGYIHVL--DMEEASNLFVKM-----PHPDTLTWNAMVSGYAQIGNLELALDFFKRM 290
             G I++   D+ +A   F K               A +    Q GN + A+  F+++
Sbjct: 472 --GAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARID--IQEGNPDDAIQRFEKV 525

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator. Length = 899

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.0 bits (84), Expect = 0.001
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 61 VTWNTVISGYAKTGEMEEALRLFNSMPARNVV 92
           T+N ++   AK G+ + AL +   M A  + 
Sbjct: 2  ETYNALLLALAKAGDPDLALAVLEEMKASGLK 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 12/25 (48%), Positives = 19/25 (76%)

Query: 161 AYNTLIVGYGQRGRVEEARKLFDKI 185
            YN+LI GY + G++EEA +LF ++
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEM 26

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat lipoprotein

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 52/308 (16%), Positives = 110/308 (35%), Gaps = 37/308 (12%)

Query: 1   MISGYVKRREMAKA----RKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFD--I 54
           +I  Y++  +  KA    +KL  + P  +    N++  G I   G G L +AR  F+  +
Sbjct: 437 LILSYLRSGQFDKALAAAKKLEKKQPD-NASLHNLL--GAIYL-GKGDLAKAREAFEKAL 492

Query: 55  MPERDCVTWNTVISGYA-KTGEMEEALRLFNSMPAR---NVVSWNAMISGFLQNGDVANA 110
             E D       ++    + G  ++A++ F  +      N+ +  A+   +L+ G+   A
Sbjct: 493 SIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEA 552

Query: 111 IEFFDRMPGRDSASLS---ALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIV 167
           + + ++    +   +    AL    +  G+L +A  +L       D   D   A+  L  
Sbjct: 553 VAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILN---EAADAAPDSPEAWLMLGR 609

Query: 168 GYGQRGRVEEARKLFDK-IPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFE 226
                G + +A   F K + +  D     +           +   YA   +   A    +
Sbjct: 610 AQLAAGDLNKAVSSFKKLLALQPDSALALLL----------LADAYAVMKNYAKAITSLK 659

Query: 227 QMLERDTFSWNT---MISGYIHVLDMEEASNLF--VKMPHPDTLTWNAMV-SGYAQIGNL 280
           + LE    +      +    +     E A  +   ++  HP       +    Y +  + 
Sbjct: 660 RALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDY 719

Query: 281 ELALDFFK 288
             A+  ++
Sbjct: 720 PAAIQAYR 727

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator. Length = 899

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	579
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
PRK14574	822	hmsH outer membrane protein; Provisional	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.85
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.82
KOG2076	895	consensus RNA polymerase III transcription factor	99.81
KOG2003	840	consensus TPR repeat-containing protein [General f	99.8
KOG2076	895	consensus RNA polymerase III transcription factor	99.78
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.77
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.75
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.74
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.71
KOG1126	638	consensus DNA-binding cell division cycle control	99.69
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.67
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.67
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.67
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.66
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.64
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.64
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.62
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.62
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.61
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.58
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.57
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.56
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.55
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.51
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.5
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.48
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.48
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.48
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.47
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.45
KOG1129	478	consensus TPR repeat-containing protein [General f	99.44
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.44
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.44
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.42
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.42
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.41
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.4
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.38
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.37
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.36
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.35
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.33
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.32
PRK12370	553	invasion protein regulator; Provisional	99.31
PRK12370	553	invasion protein regulator; Provisional	99.3
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.29
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.28
PRK11189	296	lipoprotein NlpI; Provisional	99.27
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.25
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.25
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.24
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.23
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.22
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.21
KOG1125	579	consensus TPR repeat-containing protein [General f	99.21
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.2
KOG1129	478	consensus TPR repeat-containing protein [General f	99.2
PF13041	50	PPR_2: PPR repeat family	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.17
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.16
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.15
PRK11189	296	lipoprotein NlpI; Provisional	99.14
PF13041	50	PPR_2: PPR repeat family	99.13
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.13
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.12
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.12
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.08
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.06
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.05
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.01
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.99
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.96
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.94
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.88
PRK15359	144	type III secretion system chaperone protein SscB;	98.84
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.83
KOG1125	579	consensus TPR repeat-containing protein [General f	98.81
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.8
PRK15359	144	type III secretion system chaperone protein SscB;	98.77
PRK04841	903	transcriptional regulator MalT; Provisional	98.77
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.75
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.74
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.69
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.67
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.66
PLN02789	320	farnesyltranstransferase	98.65
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.65
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.63
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.62
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.58
PLN02789	320	farnesyltranstransferase	98.57
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.56
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.55
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.53
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.5
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.5
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.49
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.47
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.46
PF12854	34	PPR_1: PPR repeat	98.43
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.4
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.39
PF12854	34	PPR_1: PPR repeat	98.38
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.37
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.35
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.32
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	98.28
KOG2041	1189	consensus WD40 repeat protein [General function pr	98.27
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.25
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.24
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.23
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.21
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.19
KOG0553	304	consensus TPR repeat-containing protein [General f	98.18
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.17
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.15
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.14
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.11
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.07
KOG0553	304	consensus TPR repeat-containing protein [General f	98.06
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.04
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.0
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.98
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.98
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.98
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.97
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.95
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.94
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.92
PF13371	73	TPR_9: Tetratricopeptide repeat	97.92
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.91
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.9
PRK15331	165	chaperone protein SicA; Provisional	97.9
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.89
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.89
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.89
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.88
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.87
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.86
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.85
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.81
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.81
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.79
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.79
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.77
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.76
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.71
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.71
PF12688	120	TPR_5: Tetratrico peptide repeat	97.71
KOG1258	577	consensus mRNA processing protein [RNA processing	97.69
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.68
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.66
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.63
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.61
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.61
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.6
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.58
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.55
PF13431	34	TPR_17: Tetratricopeptide repeat	97.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.54
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.53
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.53
PRK10803	263	tol-pal system protein YbgF; Provisional	97.52
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.52
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.51
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.5
PRK10803	263	tol-pal system protein YbgF; Provisional	97.49
PF13428	44	TPR_14: Tetratricopeptide repeat	97.41
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.4
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.38
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.35
PF12688	120	TPR_5: Tetratrico peptide repeat	97.33
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.32
PF13371	73	TPR_9: Tetratricopeptide repeat	97.32
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.23
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.22
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.21
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.2
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.16
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.15
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.11
PF13512	142	TPR_18: Tetratricopeptide repeat	97.1
PRK11906	458	transcriptional regulator; Provisional	96.98
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.96
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.94
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.91
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.89
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.86
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.85
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.79
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.74
KOG1258	577	consensus mRNA processing protein [RNA processing	96.7
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.65
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.61
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.54
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.52
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.47
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.45
PF13512	142	TPR_18: Tetratricopeptide repeat	96.44
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.4
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.37
KOG4555	175	consensus TPR repeat-containing protein [Function	96.37
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.26
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.25
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.24
PRK11906	458	transcriptional regulator; Provisional	96.17
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.15
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.14
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.1
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.1
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.06
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.06
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.03
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.02
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.0
PRK15331	165	chaperone protein SicA; Provisional	95.98
PRK11619	644	lytic murein transglycosylase; Provisional	95.97
KOG4234	271	consensus TPR repeat-containing protein [General f	95.84
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	95.81
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.62
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.61
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.61
KOG4555	175	consensus TPR repeat-containing protein [Function	95.56
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.55
PF13428	44	TPR_14: Tetratricopeptide repeat	95.47
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.47
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.41
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.4
KOG1586	288	consensus Protein required for fusion of vesicles	95.39
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.38
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.2
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.1
PRK09687	280	putative lyase; Provisional	95.05
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.04
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.96
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.95
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.92
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.89
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	94.84
KOG1586	288	consensus Protein required for fusion of vesicles	94.76
KOG1585	308	consensus Protein required for fusion of vesicles	94.76
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.75
KOG1585	308	consensus Protein required for fusion of vesicles	94.72
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.54
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.51
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.49
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.33
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.33
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.32
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.97
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.8
KOG4234	271	consensus TPR repeat-containing protein [General f	93.73
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.69
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	93.54
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	93.49
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.36
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.32
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.22
PF13431	34	TPR_17: Tetratricopeptide repeat	93.11
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	93.08
PRK09687	280	putative lyase; Provisional	92.8
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.27
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.19
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.94
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.92
PRK11619	644	lytic murein transglycosylase; Provisional	91.87
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.65
KOG4648	536	consensus Uncharacterized conserved protein, conta	91.64
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	91.42
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.39
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.31
KOG3941	406	consensus Intermediate in Toll signal transduction	91.26
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	91.12
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.78
KOG2300	629	consensus Uncharacterized conserved protein [Funct	90.77
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.08
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	90.05
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.98
KOG4507	886	consensus Uncharacterized conserved protein, conta	89.76
PRK12798	421	chemotaxis protein; Reviewed	89.7
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	89.68
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.54
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	89.52
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	89.37
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.04
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.01
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.87
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.85
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	88.78
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.62
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	88.12
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	87.8
COG4455	273	ImpE Protein of avirulence locus involved in tempe	87.7
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	87.66
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.45
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.4
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.37
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.36
PRK10941	269	hypothetical protein; Provisional	87.09
KOG2471	696	consensus TPR repeat-containing protein [General f	86.98
COG0790	292	FOG: TPR repeat, SEL1 subfamily [General function	86.96
KOG3941	406	consensus Intermediate in Toll signal transduction	86.79
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.67
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	86.64
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	86.59
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	86.58
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.53
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.32
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	86.31
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	86.21
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	86.15
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.15
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.87
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	85.56
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	85.39
COG3947	361	Response regulator containing CheY-like receiver a	85.33
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.17
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.79
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	84.43
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.28
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.17
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	84.11
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	84.06
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.72
KOG4570	418	consensus Uncharacterized conserved protein [Funct	83.6
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	82.67
COG4976	287	Predicted methyltransferase (contains TPR repeat)	82.1
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.98
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	81.6
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	81.6
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	81.46
KOG1550	552	consensus Extracellular protein SEL-1 and related	81.07

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.3e-78  Score=632.79  Aligned_cols=560  Identities=34%  Similarity=0.579  Sum_probs=523.3

Q ss_pred             ChhhhhcCCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC----CCCcchHHHHHHHHHccCCH
Q 036340            1 MISGYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMP----ERDCVTWNTVISGYAKTGEM   76 (579)
Q Consensus         1 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~g~~   76 (579)
                      ||..|++.|+++.|.++|++|.+||..+|+.++.+|.+.|+   +++|..+|++|.    .||..||+.++.+|...+++
T Consensus       127 li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~---~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~  203 (857)
T PLN03077        127 MLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGY---FDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDL  203 (857)
T ss_pred             HHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCC---HHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccch
Confidence            47789999999999999999999999999999999999988   999999999986    68999999999998888888


Q ss_pred             HHHHHHhhcCC----CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCC
Q 036340           77 EEALRLFNSMP----ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRC  152 (579)
Q Consensus        77 ~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  152 (579)
                      ..+.+++..+.    .|++.++++|+.+|.+.|+++.|.++|++|..+|..+|+.++.+|++.|++++|+++|++|... 
T Consensus       204 ~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-  282 (857)
T PLN03077        204 ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL-  282 (857)
T ss_pred             hhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-
Confidence            88888887776    5788889999999999999999999999998888899999999999999999999999998887 


Q ss_pred             CCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCC
Q 036340          153 DGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERD  232 (579)
Q Consensus       153 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  232 (579)
                       +..|+..+|+.++.+|++.|+++.|.+++..+.        ..|+.||..+|+.++.+|++.|++++|.++|++|.++|
T Consensus       283 -g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~--------~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d  353 (857)
T PLN03077        283 -SVDPDLMTITSVISACELLGDERLGREMHGYVV--------KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD  353 (857)
T ss_pred             -CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH--------HhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Confidence             788888899999999999999999999998888        77888899999999999999999999999999988888


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhhcCC----C-----------------------------------CChhhHHHHHHH
Q 036340          233 TFSWNTMISGYIHVLDMEEASNLFVKMP----H-----------------------------------PDTLTWNAMVSG  273 (579)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~-----------------------------------~~~~~~~~l~~~  273 (579)
                      ..+|+.++.+|.+.|++++|.++|++|.    .                                   |+..+++.|+.+
T Consensus       354 ~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~  433 (857)
T PLN03077        354 AVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEM  433 (857)
T ss_pred             eeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            8889999999988888888888888774    2                                   445567788888


Q ss_pred             HHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHH
Q 036340          274 YAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH  353 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  353 (579)
                      |++.|++++|.++|++|.++|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||..++.+|.+.|+.+.+.+++
T Consensus       434 y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~  512 (857)
T PLN03077        434 YSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIH  512 (857)
T ss_pred             HHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999986 69999999999999999999999999999


Q ss_pred             HH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh
Q 036340          354 QM-VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI  432 (579)
Q Consensus       354 ~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~  432 (579)
                      .. .+.++.++..++++++.+|++.|++++|.++|+.+  .+|..+|+++|.+|++.|+.++|+++|++|.+.|+.||..
T Consensus       513 ~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~  590 (857)
T PLN03077        513 AHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEV  590 (857)
T ss_pred             HHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcc
Confidence            99 89999999999999999999999999999999998  7999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhc
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVH  512 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  512 (579)
                      ||+.++.+|.+.|.+++|.++|+.|.+++++.|+..+|..++.+|.+.|++++|.+++++|+.+||..+|+.++.+|..+
T Consensus       591 T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~  670 (857)
T PLN03077        591 TFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIH  670 (857)
T ss_pred             cHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999998777999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCCcceeeEec
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDFS  576 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  576 (579)
                      |+.+.++...+++++++|+++..|..|+++|...|+|++|.++.+.|+++|++++||+|||+++
T Consensus       671 ~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~  734 (857)
T PLN03077        671 RHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVK  734 (857)
T ss_pred             CChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEEC
Confidence            9999999999999999999999999999999999999999999999999999999999999974

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=6.1e-68  Score=554.33  Aligned_cols=546  Identities=26%  Similarity=0.397  Sum_probs=517.9

Q ss_pred             ChhhhhcCCCHHHHHHHhccCCC----CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC----CCCcchHHHHHHHHHc
Q 036340            1 MISGYVKRREMAKARKLFDEMPQ----RDVVSWNVMISGYISSRGSGFLEEARYLFDIMP----ERDCVTWNTVISGYAK   72 (579)
Q Consensus         1 l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~   72 (579)
                      ++..|++.|++++|..+|+.+.+    |+..+|..++.++...+.   ++.|..++..+.    .+++..+|+++..|++
T Consensus        57 ~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~  133 (857)
T PLN03077         57 QLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRA---VEEGSRVCSRALSSHPSLGVRLGNAMLSMFVR  133 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCC---HHHHHHHHHHHHHcCCCCCchHHHHHHHHHHh
Confidence            46789999999999999999976    788899999999988877   999999998765    5788899999999999


Q ss_pred             cCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCC----CCCcchHHHHHHHHHhCCCHHHHHHHHHHh
Q 036340           73 TGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMP----GRDSASLSALVSGLIQNGELDEAARVLVKC  148 (579)
Q Consensus        73 ~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  148 (579)
                      .|+++.|.++|++|.+||..+|+.+|.+|.+.|++++|+++|++|.    .||..+|+.++.++...+++..+.+++..+
T Consensus       134 ~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~  213 (857)
T PLN03077        134 FGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV  213 (857)
T ss_pred             CCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHH
Confidence            9999999999999999999999999999999999999999999985    489999999999999999999999999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          149 GSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       149 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      .+.  +..++..+++.++.+|++.|+++.|.++|++|.            .||..+|+.++.+|++.|++++|+++|.+|
T Consensus       214 ~~~--g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~------------~~d~~s~n~li~~~~~~g~~~eAl~lf~~M  279 (857)
T PLN03077        214 VRF--GFELDVDVVNALITMYVKCGDVVSARLVFDRMP------------RRDCISWNAMISGYFENGECLEGLELFFTM  279 (857)
T ss_pred             HHc--CCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC------------CCCcchhHHHHHHHHhCCCHHHHHHHHHHH
Confidence            987  889999999999999999999999999999997            789999999999999999999999999999


Q ss_pred             C----CCChhHHHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHH
Q 036340          229 L----ERDTFSWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS  300 (579)
Q Consensus       229 ~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  300 (579)
                      .    .||..+|+.++.++.+.|+.+.|.+++..+.    .||..+|+.|+.+|++.|++++|.++|++|..+|..+|+.
T Consensus       280 ~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~  359 (857)
T PLN03077        280 RELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTA  359 (857)
T ss_pred             HHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHH
Confidence            4    4799999999999999999999999999887    7999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCC
Q 036340          301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGA  379 (579)
Q Consensus       301 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~  379 (579)
                      ++.+|++.|++++|+++|++|.+.|+.||..||..++.+|.+.|+++.+.++++. .+.+..|+..+++.++.+|++.|+
T Consensus       360 li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~  439 (857)
T PLN03077        360 MISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKC  439 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999999999999999999 889999999999999999999999


Q ss_pred             HHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          380 IVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       380 ~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      +++|.++|++|. .+|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||..++.+|++.|..+.+.+++..+.+
T Consensus       440 ~~~A~~vf~~m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~  517 (857)
T PLN03077        440 IDKALEVFHNIP-EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR  517 (857)
T ss_pred             HHHHHHHHHhCC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH
Confidence            999999999998 78999999999999999999999999999986 6999999999999999999999999999999987


Q ss_pred             hhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhh--cCCCCCCCch
Q 036340          460 EYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMK--VEPENSTPYV  537 (579)
Q Consensus       460 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~  537 (579)
                      . |+.++..+++.++.+|.++|++++|..+|+.+  .||..+|+.++.+|.+.|+.++|.++|++|.+  ..|+ ..+|.
T Consensus       518 ~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~  593 (857)
T PLN03077        518 T-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD-EVTFI  593 (857)
T ss_pred             h-CCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-cccHH
Confidence            6 99999999999999999999999999999998  78999999999999999999999999999986  4466 45699


Q ss_pred             hhhhhhhhcCCchHHHHHHHHHH-hCCCCCCCc
Q 036340          538 LLYNMYADVGRWDDANEVRLLMK-SNNIKKPTG  569 (579)
Q Consensus       538 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~  569 (579)
                      .++.+|.+.|++++|.++|+.|. +.|+.|+..
T Consensus       594 ~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~  626 (857)
T PLN03077        594 SLLCACSRSGMVTQGLEYFHSMEEKYSITPNLK  626 (857)
T ss_pred             HHHHHHhhcChHHHHHHHHHHHHHHhCCCCchH
Confidence            99999999999999999999998 778887654

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1.9e-65  Score=522.92  Aligned_cols=473  Identities=32%  Similarity=0.532  Sum_probs=447.0

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHccCCC-----CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHH
Q 036340           89 RNVVSWNAMISGFLQNGDVANAIEFFDRMPG-----RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYN  163 (579)
Q Consensus        89 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  163 (579)
                      .+..+|+.++..+.+.|++++|+++|+.|..     ++..+|+.++.++.+.++++.+.+++..+.+.  +..|+..+|+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~--g~~~~~~~~n  162 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESS--GFEPDQYMMN  162 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCcchHHHH
Confidence            4556788888888888999999888888753     46788999999999999999999999998887  7788899999


Q ss_pred             HHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChhHHHHH
Q 036340          164 TLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE----RDTFSWNTM  239 (579)
Q Consensus       164 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l  239 (579)
                      .++.+|++.|+++.|.++|++|.            .||..+|+.++.+|++.|++++|.++|++|.+    ++..+|..+
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~------------~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~l  230 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMP------------ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVM  230 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCC------------CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHH
Confidence            99999999999999999999997            68899999999999999999999999999844    678899999


Q ss_pred             HHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHH
Q 036340          240 ISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAI  315 (579)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  315 (579)
                      +.++...|..+.+.+++..+.    .+|..+++.|+.+|++.|++++|.++|++|.++|+.+|+.++.+|++.|++++|+
T Consensus       231 l~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~  310 (697)
T PLN03081        231 LRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEAL  310 (697)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHH
Confidence            999999999999988877665    7899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCC
Q 036340          316 KLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLK  394 (579)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  394 (579)
                      ++|++|.+.|+.||..||+.++.+|.+.|+++.|.+++.. .+.+++|+..+++.++.+|++.|++++|.++|++|. .|
T Consensus       311 ~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~  389 (697)
T PLN03081        311 CLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RK  389 (697)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CC
Confidence            9999999999999999999999999999999999999998 889999999999999999999999999999999998 79


Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHH
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLV  474 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  474 (579)
                      |..+||+||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+.|.+++++.|+..+|+.++
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li  469 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMI  469 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999988789999999999999


Q ss_pred             HHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHH
Q 036340          475 DIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANE  554 (579)
Q Consensus       475 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  554 (579)
                      .+|.+.|++++|.+++++++..|+..+|+.++.+|..+|+++.|..+++++.++.|++...|..|+.+|.+.|+|++|.+
T Consensus       470 ~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~  549 (697)
T PLN03081        470 ELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAK  549 (697)
T ss_pred             HHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCCCCCcceeeEec
Q 036340          555 VRLLMKSNNIKKPTGYSWVDFS  576 (579)
Q Consensus       555 ~~~~~~~~~~~~~~~~~~~~~~  576 (579)
                      ++++|+++|+++.||++|+.++
T Consensus       550 v~~~m~~~g~~k~~g~s~i~~~  571 (697)
T PLN03081        550 VVETLKRKGLSMHPACTWIEVK  571 (697)
T ss_pred             HHHHHHHcCCccCCCeeEEEEC
Confidence            9999999999999999999875

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1e-61  Score=496.62  Aligned_cols=500  Identities=18%  Similarity=0.275  Sum_probs=450.3

Q ss_pred             CCCcchHHHHHHHHHccCCHHHHHHHhhcCCC-----CchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHH
Q 036340           57 ERDCVTWNTVISGYAKTGEMEEALRLFNSMPA-----RNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSG  131 (579)
Q Consensus        57 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~  131 (579)
                      .++...|..++..+++.|++++|+++|++|..     ++...++.++.+|.+.|.++.|..+|+.|..|+..+|+.++.+
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a  446 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSV  446 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            46677889999999999999999999999984     4455667788889999999999999999999999999999999


Q ss_pred             HHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHH
Q 036340          132 LIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMC  211 (579)
Q Consensus       132 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  211 (579)
                      |++.|++++|.++|+.|.+.  +..|+..+|+.++.+|++.|++++|.++|++|.        ..|+.||..+|+.++.+
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~--Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~--------~~Gv~PdvvTynaLI~g  516 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEA--GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV--------NAGVEANVHTFGALIDG  516 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHH--------HcCCCCCHHHHHHHHHH
Confidence            99999999999999999987  888999999999999999999999999999998        77899999999999999


Q ss_pred             HHhcCCHHHHHHHHHhcC----CCChhHHHHHHHHHHhcCChHHHHHHhhcCC------CCChhhHHHHHHHHHhcCCHH
Q 036340          212 YAKAGDVVSAREIFEQML----ERDTFSWNTMISGYIHVLDMEEASNLFVKMP------HPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       212 ~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      |++.|++++|.++|+.|.    .||..+|+.++.+|++.|++++|.++|++|.      .||..+|+.++.+|++.|+++
T Consensus       517 y~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ld  596 (1060)
T PLN03218        517 CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD  596 (1060)
T ss_pred             HHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHH
Confidence            999999999999999994    4789999999999999999999999999984      689999999999999999999


Q ss_pred             HHHHHHccCCC----CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-H
Q 036340          282 LALDFFKRMPQ----KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-V  356 (579)
Q Consensus       282 ~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~  356 (579)
                      +|.++|+.|.+    |+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|.+.|+++.|.++++. .
T Consensus       597 eA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~  676 (1060)
T PLN03218        597 RAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR  676 (1060)
T ss_pred             HHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            99999999975    677899999999999999999999999999999999999999999999999999999999998 8


Q ss_pred             hhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc---CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhh
Q 036340          357 TKTVIPDVPINNALITMYARCGAIVEARIIFEEMK---LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYIT  433 (579)
Q Consensus       357 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  433 (579)
                      +.++.|+..+|+.++.+|++.|++++|.++|++|.   ..||..+|+.+|.+|++.|++++|+++|++|...|+.||..|
T Consensus       677 k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~T  756 (1060)
T PLN03218        677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTIT  756 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHH
Confidence            88999999999999999999999999999999985   579999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhh----cc-------------------CChHHHHHHH
Q 036340          434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVG----RH-------------------GRLEDAMDLI  490 (579)
Q Consensus       434 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~-------------------g~~~~A~~~~  490 (579)
                      |+.++.+|++.|+++.|.++++.|.+. |+.||..+|+.++..+.    ++                   +..++|..+|
T Consensus       757 y~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf  835 (1060)
T PLN03218        757 YSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVY  835 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHH
Confidence            999999999999999999999999776 99999999998876532    11                   2346799999


Q ss_pred             HhC---CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHh-hcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          491 KGM---PFEPDKAVWGALLGACRVHNNVELAQVAAEALM-KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       491 ~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      ++|   +..||..+|+.++.++.+.+..+.+..+++.+. ...+.+..+|..|+..+.+.  .++|..++++|.+.|+.|
T Consensus       836 ~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p  913 (1060)
T PLN03218        836 RETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVP  913 (1060)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCC
Confidence            999   689999999999987788888898888887765 33455566789998877322  368999999999999988


Q ss_pred             CCc
Q 036340          567 PTG  569 (579)
Q Consensus       567 ~~~  569 (579)
                      +-.
T Consensus       914 ~~~  916 (1060)
T PLN03218        914 SVS  916 (1060)
T ss_pred             Ccc
Confidence            765

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.5e-60  Score=485.40  Aligned_cols=501  Identities=15%  Similarity=0.238  Sum_probs=459.3

Q ss_pred             HHHHHhccCCC--CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCC-----CCcchHHHHHHHHHccCCHHHHHHHhhc
Q 036340           13 KARKLFDEMPQ--RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPE-----RDCVTWNTVISGYAKTGEMEEALRLFNS   85 (579)
Q Consensus        13 ~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (579)
                      .+....+....  ++...|..++..+++.|+   +++|.++|++|.+     ++..+++.++..|.+.|..++|..+|+.
T Consensus       355 ~~~~~~~~~~~~~~~~~~~~~~y~~l~r~G~---l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~  431 (1060)
T PLN03218        355 NSLAAYNGGVSGKRKSPEYIDAYNRLLRDGR---IKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKL  431 (1060)
T ss_pred             hhHHHhccccCCCCCchHHHHHHHHHHHCcC---HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            34444454443  567789999999998888   9999999999985     4445678888999999999999999999


Q ss_pred             CCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC----CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhh
Q 036340           86 MPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG----RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRA  161 (579)
Q Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  161 (579)
                      |..|+..+|+.++.+|++.|+++.|.++|+.|.+    +|..+|+.++.+|++.|++++|.++|++|.+.  +..|+..+
T Consensus       432 M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~--Gv~PdvvT  509 (1060)
T PLN03218        432 IRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA--GVEANVHT  509 (1060)
T ss_pred             cCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc--CCCCCHHH
Confidence            9999999999999999999999999999999964    78899999999999999999999999999987  88999999


Q ss_pred             HHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcC------CCChhH
Q 036340          162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQML------ERDTFS  235 (579)
Q Consensus       162 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~------~~~~~~  235 (579)
                      |+.++.+|++.|++++|.++|++|.        ..|+.||..+|+.++.+|++.|++++|.++|++|.      .||..+
T Consensus       510 ynaLI~gy~k~G~~eeAl~lf~~M~--------~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vT  581 (1060)
T PLN03218        510 FGALIDGCARAGQVAKAFGAYGIMR--------SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHIT  581 (1060)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHH--------HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHH
Confidence            9999999999999999999999998        77999999999999999999999999999999994      478999


Q ss_pred             HHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC----CChhhHHHHHHHHHh
Q 036340          236 WNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ----KNLVSWNSMIAGCET  307 (579)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~  307 (579)
                      |+.++.+|++.|++++|.++|+.|.    .|+..+|+.++.+|++.|++++|.++|++|.+    ||..+|+.++.+|++
T Consensus       582 ynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k  661 (1060)
T PLN03218        582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGH  661 (1060)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999998    68889999999999999999999999999985    899999999999999


Q ss_pred             CCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHH
Q 036340          308 NKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGAIVEARII  386 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  386 (579)
                      .|++++|.+++++|.+.|+.|+..+|+.++.+|++.|+++.|.++|+. ...+..|+..+|+.++.+|++.|++++|.++
T Consensus       662 ~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlel  741 (1060)
T PLN03218        662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEV  741 (1060)
T ss_pred             CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999998 7788999999999999999999999999999


Q ss_pred             HHhcc---CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc--------------------
Q 036340          387 FEEMK---LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH--------------------  443 (579)
Q Consensus       387 ~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~--------------------  443 (579)
                      |++|.   ..||..+|+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.++..|.+                    
T Consensus       742 f~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~  821 (1060)
T PLN03218        742 LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRP  821 (1060)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccc
Confidence            99985   6899999999999999999999999999999999999999999999875432                    


Q ss_pred             ---cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC---CCCCHHHHHHHHHHHhhcCCHHH
Q 036340          444 ---AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP---FEPDKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       444 ---~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~  517 (579)
                         .+..+.|..+|++|++. |+.||..+|..++.++...+....+..+++.+.   ..|+..+|+.++.++.+.  .++
T Consensus       822 ~~~n~w~~~Al~lf~eM~~~-Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~  898 (1060)
T PLN03218        822 QIENKWTSWALMVYRETISA-GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPR  898 (1060)
T ss_pred             ccccchHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHH
Confidence               12346799999999877 999999999999999999999999999999884   556788999999988432  468


Q ss_pred             HHHHHHHHhhcC
Q 036340          518 AQVAAEALMKVE  529 (579)
Q Consensus       518 A~~~~~~~~~~~  529 (579)
                      |..+++.|.+..
T Consensus       899 A~~l~~em~~~G  910 (1060)
T PLN03218        899 AFSLLEEAASLG  910 (1060)
T ss_pred             HHHHHHHHHHcC
Confidence            999999998744

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=1.4e-57  Score=465.15  Aligned_cols=445  Identities=24%  Similarity=0.370  Sum_probs=419.0

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC-----CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC----CCCcchHHHHHHHHHc
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ-----RDVVSWNVMISGYISSRGSGFLEEARYLFDIMP----ERDCVTWNTVISGYAK   72 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~   72 (579)
                      |..|.+.|++++|+++|+.|..     ||..+|+.++.++.+.+.   ++.|.+++..+.    .||+.+|+.++..|++
T Consensus        94 i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~---~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k  170 (697)
T PLN03081         94 IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKS---IRCVKAVYWHVESSGFEPDQYMMNRVLLMHVK  170 (697)
T ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHHhCCCcchHHHHHHHHHHhc
Confidence            6788999999999999999853     688999999999999988   999999999886    6899999999999999


Q ss_pred             cCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC----CCcchHHHHHHHHHhCCCHHHHHHHHHHh
Q 036340           73 TGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG----RDSASLSALVSGLIQNGELDEAARVLVKC  148 (579)
Q Consensus        73 ~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  148 (579)
                      .|++++|.++|++|..||..+|+.++.+|.+.|++++|.++|++|.+    ++..+|..++.++...|..+.+.+++..+
T Consensus       171 ~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~  250 (697)
T PLN03081        171 CGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCV  250 (697)
T ss_pred             CCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999953    68899999999999999999999999999


Q ss_pred             ccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          149 GSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       149 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      .+.  +..++..+|+.++.+|++.|++++|.++|+.|.            ++|..+|+.++.+|++.|++++|.++|++|
T Consensus       251 ~~~--g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~------------~~~~vt~n~li~~y~~~g~~~eA~~lf~~M  316 (697)
T PLN03081        251 LKT--GVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP------------EKTTVAWNSMLAGYALHGYSEEALCLYYEM  316 (697)
T ss_pred             HHh--CCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC------------CCChhHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            887  788899999999999999999999999999997            679999999999999999999999999999


Q ss_pred             ----CCCChhHHHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHH
Q 036340          229 ----LERDTFSWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS  300 (579)
Q Consensus       229 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  300 (579)
                          ..||..+|+.++.+|.+.|++++|.+++..|.    .||..+++.|+.+|++.|++++|.++|++|.++|..+||.
T Consensus       317 ~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~  396 (697)
T PLN03081        317 RDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNA  396 (697)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHH
Confidence                45799999999999999999999999999987    7899999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-H-hhcCCCCchHHHHHHHHhhhcC
Q 036340          301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-V-TKTVIPDVPINNALITMYARCG  378 (579)
Q Consensus       301 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~-~~~~~~~~~~~~~l~~~~~~~~  378 (579)
                      ||.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|..++|.++|+. . ..++.|+..+|+.++.+|++.|
T Consensus       397 lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G  476 (697)
T PLN03081        397 LIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG  476 (697)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999998 3 3689999999999999999999


Q ss_pred             CHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          379 AIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       379 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      ++++|.++++++...|+..+|++++.+|...|+++.|..+++++.  ++.|+ ..+|..++..|++.|++++|.++++.|
T Consensus       477 ~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~--~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m  554 (697)
T PLN03081        477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETL  554 (697)
T ss_pred             CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh--CCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHH
Confidence            999999999999889999999999999999999999999999997  55675 459999999999999999999999999


Q ss_pred             HHhhCCCCC
Q 036340          458 VNEYGIEPR  466 (579)
Q Consensus       458 ~~~~~~~~~  466 (579)
                      .++ |+...
T Consensus       555 ~~~-g~~k~  562 (697)
T PLN03081        555 KRK-GLSMH  562 (697)
T ss_pred             HHc-CCccC
Confidence            766 77543

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=2.3e-37  Score=333.27  Aligned_cols=541  Identities=13%  Similarity=0.085  Sum_probs=383.2

Q ss_pred             hhhhcCCCHHHHHHHhccCCC---CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC---CCCcchHHHHHHHHHccCCH
Q 036340            3 SGYVKRREMAKARKLFDEMPQ---RDVVSWNVMISGYISSRGSGFLEEARYLFDIMP---ERDCVTWNTVISGYAKTGEM   76 (579)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~   76 (579)
                      ..+.+.|++++|...|+++.+   .++..+..+...+...|+   +++|...++++.   +.++..+..+...+.+.|++
T Consensus       303 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  379 (899)
T TIGR02917       303 ASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGR---VDEAIATLSPALGLDPDDPAALSLLGEAYLALGDF  379 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCH
Confidence            356778888888888888765   345566677777777777   888888888876   34556778888888888888


Q ss_pred             HHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCC---CcchHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 036340           77 EEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR---DSASLSALVSGLIQNGELDEAARVLVKCGS  150 (579)
Q Consensus        77 ~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  150 (579)
                      ++|.++|+++.   +.+...+..+...+...|++++|.+.++.+...   .......++..+.+.|++++|..+++.+..
T Consensus       380 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  459 (899)
T TIGR02917       380 EKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEK  459 (899)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88888888776   334556777778888888888888888776542   234455566777788888888888888776


Q ss_pred             CCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 036340          151 RCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE  230 (579)
Q Consensus       151 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  230 (579)
                         ..|++..++..++..+...|++++|.+.|+++...         .+.+...+..++..+...|++++|.+.|+++.+
T Consensus       460 ---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  527 (899)
T TIGR02917       460 ---KQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSI---------EPDFFPAAANLARIDIQEGNPDDAIQRFEKVLT  527 (899)
T ss_pred             ---hCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhh---------CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               44556667778888888888888888888877621         134455667777777788888888888877754


Q ss_pred             C---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHH
Q 036340          231 R---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSM  301 (579)
Q Consensus       231 ~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  301 (579)
                      .   +..++..+...+...|+.++|...++++.   +.+...+..++..+...|++++|..+++.+.+   .+...|..+
T Consensus       528 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  607 (899)
T TIGR02917       528 IDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLML  607 (899)
T ss_pred             hCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            2   45567777777777788888877777765   34455666677777777777777777777653   345567777


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHH
Q 036340          302 IAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIV  381 (579)
Q Consensus       302 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  381 (579)
                      +.++...|++++|...|+++.+.. +.+...+..+..++...|+++.|..+++......+.+...+..++..+...|+++
T Consensus       608 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       608 GRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHH
Confidence            777777777777777777776543 2244556666667777777777777777755555666677777777777777777


Q ss_pred             HHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          382 EARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       382 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      +|..+++.+.  .+++...+..++..+...|++++|+..|+++...  .|+..++..++.++...|++++|.+.++.+++
T Consensus       687 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  764 (899)
T TIGR02917       687 SAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLK  764 (899)
T ss_pred             HHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777764  2334555666777777777777777777777753  35545666666777777777777777777765


Q ss_pred             hhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCch
Q 036340          460 EYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV  537 (579)
Q Consensus       460 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  537 (579)
                      .  .+.+...+..++.++...|++++|...|+++ . .++++..+..++..+...|+ .+|+..++++++..|+++..+.
T Consensus       765 ~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~  841 (899)
T TIGR02917       765 T--HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILD  841 (899)
T ss_pred             h--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHH
Confidence            3  2335666677777777777777777777766 2 23356667777777777777 6677777777777777777777


Q ss_pred             hhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          538 LLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       538 ~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .++.++...|++++|.++++++.+.+.
T Consensus       842 ~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       842 TLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            777777777777777777777776554

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=100.00  E-value=3.4e-37  Score=331.90  Aligned_cols=539  Identities=13%  Similarity=0.087  Sum_probs=415.9

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC---CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCC---CCcchHHHHHHHHHccCC
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ---RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPE---RDCVTWNTVISGYAKTGE   75 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~   75 (579)
                      ...+.+.|++++|...++.+..   .++..+..+...+...|+   +++|...|+++.+   .+...+..+...+...|+
T Consensus       336 a~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  412 (899)
T TIGR02917       336 ASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGD---FEKAAEYLAKATELDPENAAARTQLGISKLSQGD  412 (899)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCC
Confidence            3467788888888888888765   345677777888887777   8888888887762   344567777778888888


Q ss_pred             HHHHHHHhhcCCC---CchhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhc
Q 036340           76 MEEALRLFNSMPA---RNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCG  149 (579)
Q Consensus        76 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  149 (579)
                      +++|+..++.+..   .+......++..+.+.|++++|.++++.+..   .++.++..++..+...|++++|.+.|+++.
T Consensus       413 ~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  492 (899)
T TIGR02917       413 PSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKAL  492 (899)
T ss_pred             hHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            8888888887762   2344566677788888888888888887754   355677778888888888888888888887


Q ss_pred             cCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 036340          150 SRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQML  229 (579)
Q Consensus       150 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  229 (579)
                      +   ..|.+...+..++..+...|++++|.+.++++..        . .+.+..++..++..+.+.|+.++|...++++.
T Consensus       493 ~---~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--------~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  560 (899)
T TIGR02917       493 S---IEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLT--------I-DPKNLRAILALAGLYLRTGNEEEAVAWLEKAA  560 (899)
T ss_pred             h---hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--------h-CcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7   4455666777888888888888888888888862        1 14467778888888888888888888888875


Q ss_pred             CC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHH
Q 036340          230 ER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNS  300 (579)
Q Consensus       230 ~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  300 (579)
                      +.   +...+..++..+...|++++|..+++.+.   +.+..++..++.++...|++++|...|+++.+   .++..+..
T Consensus       561 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  640 (899)
T TIGR02917       561 ELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLL  640 (899)
T ss_pred             HhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            43   44567777888888888888888888876   45667788888888888888888888887754   34556777


Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCH
Q 036340          301 MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAI  380 (579)
Q Consensus       301 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  380 (579)
                      ++.++...|++++|...|+++.+.. +.+..++..+...+...|+++.|..+++......+++...+..++..+...|++
T Consensus       641 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  719 (899)
T TIGR02917       641 LADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDY  719 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCH
Confidence            8888888888888888888887643 234667777777888888888888888886666677777888888888888888


Q ss_pred             HHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          381 VEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       381 ~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      ++|.+.|+.+. ..|+..++..++.++.+.|++++|.+.++++.+.. +.+...+..+...|...|++++|.++|+++++
T Consensus       720 ~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       720 PAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88888888764 45666677778888888888888888888887642 33455777788888888888888888888875


Q ss_pred             hhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCch
Q 036340          460 EYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV  537 (579)
Q Consensus       460 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  537 (579)
                      .  .++++..+..++..+...|+ .+|+.+++++ ...| ++..+..++.++...|++++|...++++++..|.++.++.
T Consensus       799 ~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  875 (899)
T TIGR02917       799 K--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRY  875 (899)
T ss_pred             h--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHH
Confidence            3  24466777888888888888 7788888876 3333 5566777778888888888888888888888888888888


Q ss_pred             hhhhhhhhcCCchHHHHHHHHHH
Q 036340          538 LLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       538 ~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .++.++...|++++|.+++++|+
T Consensus       876 ~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       876 HLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHh
Confidence            88888888888888888888875

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=1.6e-28  Score=263.76  Aligned_cols=536  Identities=14%  Similarity=0.066  Sum_probs=406.6

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC--Cch-hHH----------------HHHHHHHHHcCCCCChHHHHHHHhhCCCCCcch
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ--RDV-VSW----------------NVMISGYISSRGSGFLEEARYLFDIMPERDCVT   62 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~--~~~-~~~----------------~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~   62 (579)
                      +..+.+.|+.++|.+.+++..+  |+. ...                ..+...+...|+   +++|++.|+++.+.++..
T Consensus        69 ~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~---~~eA~~~~~~~l~~~p~~  145 (1157)
T PRK11447         69 FRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGR---TEEALASYDKLFNGAPPE  145 (1157)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCC---HHHHHHHHHHHccCCCCC
Confidence            4567889999999999999876  332 211                223345566666   999999999988433222


Q ss_pred             HH----HHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCc-------------
Q 036340           63 WN----TVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDS-------------  122 (579)
Q Consensus        63 ~~----~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-------------  122 (579)
                      ..    .........|+.++|+..|+++.   +.++..+..+...+...|+.++|++.++++.....             
T Consensus       146 ~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l  225 (1157)
T PRK11447        146 LDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQI  225 (1157)
T ss_pred             hHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHH
Confidence            11    11122234589999999999887   34556778888889999999999998887632100             


Q ss_pred             -------c---hH----------------------------------HHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCc
Q 036340          123 -------A---SL----------------------------------SALVSGLIQNGELDEAARVLVKCGSRCDGGEDL  158 (579)
Q Consensus       123 -------~---~~----------------------------------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  158 (579)
                             .   .+                                  ......+...|++++|+..|+++++   ..|.+
T Consensus       226 ~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~---~~P~~  302 (1157)
T PRK11447        226 KDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLAAVDSGQGGKAIPELQQAVR---ANPKD  302 (1157)
T ss_pred             hccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCC
Confidence                   0   00                                  0113446678999999999999998   45677


Q ss_pred             hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHH------------HHHHHHHHhcCCHHHHHHHHH
Q 036340          159 VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSW------------NSMIMCYAKAGDVVSAREIFE  226 (579)
Q Consensus       159 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~l~~~~~~~~~~~~A~~~~~  226 (579)
                      ..++..++.++.+.|++++|+..|+++....+.       .+....|            ......+.+.|++++|...|+
T Consensus       303 ~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~-------~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~  375 (1157)
T PRK11447        303 SEALGALGQAYSQQGDRARAVAQFEKALALDPH-------SSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQ  375 (1157)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-------ccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            889999999999999999999999998732110       1111111            223556789999999999999


Q ss_pred             hcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCC------
Q 036340          227 QMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKN------  294 (579)
Q Consensus       227 ~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------  294 (579)
                      ++++.   +...+..+...+...|++++|++.|+++.   +.+...+..+...+. .++.++|..+++.+....      
T Consensus       376 ~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~  454 (1157)
T PRK11447        376 QARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDD  454 (1157)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHH
Confidence            99763   55678888999999999999999999988   444566777777774 467899999998775421      


Q ss_pred             ------hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHH
Q 036340          295 ------LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINN  368 (579)
Q Consensus       295 ------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  368 (579)
                            ...+..+...+...|++++|+..|++.++.... +...+..+...+...|+++.|...++......+.++..+.
T Consensus       455 ~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~  533 (1157)
T PRK11447        455 IERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVY  533 (1157)
T ss_pred             HHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence                  123555677888999999999999999876432 4556677888899999999999999996566666777777


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhccCC---CCe---------eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHH
Q 036340          369 ALITMYARCGAIVEARIIFEEMKLL---KNV---------VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFIS  436 (579)
Q Consensus       369 ~l~~~~~~~~~~~~A~~~~~~~~~~---~~~---------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  436 (579)
                      .+...+...++.++|...++.+...   ++.         ..+..+...+...|+.++|+.+++.     .+++...+..
T Consensus       534 a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~  608 (1157)
T PRK11447        534 AYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLT  608 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHH
Confidence            7777788899999999999987511   111         1123456678889999999999872     2344557778


Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      +...+.+.|++++|+..|+++++.   .| +...+..++.+|...|++++|++.++.. ...| +...+..+..++...|
T Consensus       609 La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g  685 (1157)
T PRK11447        609 LADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALG  685 (1157)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCC
Confidence            888999999999999999999864   44 6788899999999999999999999987 3444 5566777888889999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCC------CchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          514 NVELAQVAAEALMKVEPENST------PYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ++++|...+++++...|+++.      .+..++.++...|++++|...+++..
T Consensus       686 ~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        686 DTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             CHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999999998776553      45667899999999999999999885

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=8.4e-29  Score=265.88  Aligned_cols=544  Identities=12%  Similarity=0.073  Sum_probs=378.9

Q ss_pred             hhhhcCCCHHHHHHHhccCCC---CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCC--CCcchH--------------
Q 036340            3 SGYVKRREMAKARKLFDEMPQ---RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPE--RDCVTW--------------   63 (579)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~--------------   63 (579)
                      ......++.+.|.+.++++..   .++..+..++..+...|+   .++|.+.++++.+  |+...+              
T Consensus        36 ~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~---~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~  112 (1157)
T PRK11447         36 RLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGD---SDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEG  112 (1157)
T ss_pred             HHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCC---HHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCch
Confidence            445678899999999999875   467788888888888888   9999999999873  332221              


Q ss_pred             ---HHHHHHHHccCCHHHHHHHhhcCCC---Cchh-hHHHHHHHHHhcCChhhHHHHHccCCCC---CcchHHHHHHHHH
Q 036340           64 ---NTVISGYAKTGEMEEALRLFNSMPA---RNVV-SWNAMISGFLQNGDVANAIEFFDRMPGR---DSASLSALVSGLI  133 (579)
Q Consensus        64 ---~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~  133 (579)
                         ..+...+.+.|++++|++.|+.+.+   ++.. ....+.......|+.++|++.++++...   +...+..+...+.
T Consensus       113 ~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~  192 (1157)
T PRK11447        113 RQALQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLF  192 (1157)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence               2334467889999999999999873   2221 1111222233469999999999998763   4457778889999


Q ss_pred             hCCCHHHHHHHHHHhccCCCCC----------------C-CchhhHH---------------------------------
Q 036340          134 QNGELDEAARVLVKCGSRCDGG----------------E-DLVRAYN---------------------------------  163 (579)
Q Consensus       134 ~~g~~~~A~~~~~~~~~~~~~~----------------~-~~~~~~~---------------------------------  163 (579)
                      ..|+.++|+..++++.......                . .....+.                                 
T Consensus       193 ~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~  272 (1157)
T PRK11447        193 SSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA  272 (1157)
T ss_pred             ccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH
Confidence            9999999999999876531100                0 0000010                                 


Q ss_pred             -HHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh-----hHH-
Q 036340          164 -TLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT-----FSW-  236 (579)
Q Consensus       164 -~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----~~~-  236 (579)
                       ..+..+...|++++|+..|+++...         -+.+..++..+..++.+.|++++|+..|++.++.++     ..| 
T Consensus       273 ~~~G~~~~~~g~~~~A~~~l~~aL~~---------~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~  343 (1157)
T PRK11447        273 RAQGLAAVDSGQGGKAIPELQQAVRA---------NPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWE  343 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh---------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHH
Confidence             1234455667777777777777621         133566777777777777777777777777654221     111 


Q ss_pred             -----------HHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHH
Q 036340          237 -----------NTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWN  299 (579)
Q Consensus       237 -----------~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~  299 (579)
                                 ......+.+.|++++|+..|+++.   +.+...+..+..++...|++++|++.|+++.+   .+...+.
T Consensus       344 ~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~  423 (1157)
T PRK11447        344 SLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVR  423 (1157)
T ss_pred             HHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence                       112345566777777777777776   33455666677777777777777777777664   2333455


Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHcCCC--------CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHH
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVEGEK--------PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALI  371 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  371 (579)
                      .+...+. .+++++|+..++.+......        .....+......+...|+++.|...++......|.++.++..+.
T Consensus       424 ~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA  502 (1157)
T PRK11447        424 GLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLA  502 (1157)
T ss_pred             HHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            5555553 34667777776654322100        00112334445666788888888888886666677777888888


Q ss_pred             HHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh---------hHHHHHHH
Q 036340          372 TMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI---------TFISVLSA  440 (579)
Q Consensus       372 ~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~---------~~~~l~~~  440 (579)
                      ..|.+.|++++|...++++. ..| +...+..+...+...++.++|+..++.+......++..         .+..+...
T Consensus       503 ~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~  582 (1157)
T PRK11447        503 QDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANR  582 (1157)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHH
Confidence            88888888888888888764 233 44445555555667788888888888765433222221         12334556


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|..+++.      .+++...+..++..+.+.|++++|+..++++ ...| +...+..++..+...|++++|
T Consensus       583 l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA  656 (1157)
T PRK11447        583 LRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAA  656 (1157)
T ss_pred             HHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            7788999999888761      2446667788999999999999999999988 4445 678899999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      +..++++.+..|+++.++..++.++...|++++|.++++++......
T Consensus       657 ~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~  703 (1157)
T PRK11447        657 RAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKS  703 (1157)
T ss_pred             HHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCcc
Confidence            99999999999999998999999999999999999999999876543

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=4.3e-25  Score=226.31  Aligned_cols=529  Identities=10%  Similarity=0.020  Sum_probs=381.9

Q ss_pred             hhcCCCHHHHHHHhccCCC--C-chhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCc--chHHHHHHHHHccCCHHHH
Q 036340            5 YVKRREMAKARKLFDEMPQ--R-DVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDC--VTWNTVISGYAKTGEMEEA   79 (579)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A   79 (579)
                      +...|++++|+..|+.+.+  | ++..+..+...+...|+   +++|+..+++..+.++  ..|..++..+   +++.+|
T Consensus        54 ~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~---~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA  127 (987)
T PRK09782         54 AQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGH---DDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKS  127 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhH
Confidence            3456999999999999986  3 46778889999999988   9999999999984333  3333333222   999999


Q ss_pred             HHHhhcCC---CCchhhHHHHHHH--------HHhcCChhhHHHHHccCCCCC--cchHHH-HHHHHHhCCCHHHHHHHH
Q 036340           80 LRLFNSMP---ARNVVSWNAMISG--------FLQNGDVANAIEFFDRMPGRD--SASLSA-LVSGLIQNGELDEAARVL  145 (579)
Q Consensus        80 ~~~~~~~~---~~~~~~~~~l~~~--------~~~~~~~~~A~~~~~~~~~~~--~~~~~~-l~~~~~~~g~~~~A~~~~  145 (579)
                      ...++++.   +.+..++..+...        |.+.+...++++  .+...++  +.+... +...|.+.|++++|++.+
T Consensus       128 ~~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL  205 (987)
T PRK09782        128 VTTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLY  205 (987)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHH
Confidence            99999997   3445566666665        777777777776  3333343  444444 488999999999999999


Q ss_pred             HHhccCCCCCCCchhhHHHHHHHHhh-CCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHH
Q 036340          146 VKCGSRCDGGEDLVRAYNTLIVGYGQ-RGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREI  224 (579)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  224 (579)
                      .++.+.   .+.+......+..+|.. .++ +++..+++...            +.+...+..++..+.+.|+.++|.++
T Consensus       206 ~~L~k~---~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~l------------k~d~~l~~ala~~yi~~G~~~~A~~~  269 (987)
T PRK09782        206 NEARQQ---NTLSAAERRQWFDVLLAGQLD-DRLLALQSQGI------------FTDPQSRITYATALAYRGEKARLQHY  269 (987)
T ss_pred             HHHHhc---CCCCHHHHHHHHHHHHHhhCH-HHHHHHhchhc------------ccCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999994   45556667788888887 477 88888865432            46788899999999999999999999


Q ss_pred             HHhcCC-----CChhH------------------------------HHHHHHHHHhcCChHHHHHHhhcCC---------
Q 036340          225 FEQMLE-----RDTFS------------------------------WNTMISGYIHVLDMEEASNLFVKMP---------  260 (579)
Q Consensus       225 ~~~~~~-----~~~~~------------------------------~~~l~~~~~~~~~~~~a~~~~~~~~---------  260 (579)
                      ++++..     ++..+                              ...++..+.+.++++-+.++...-.         
T Consensus       270 L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~  349 (987)
T PRK09782        270 LIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERY  349 (987)
T ss_pred             HHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHH
Confidence            998732     11111                              1122455666777776665533111         


Q ss_pred             -----------------------CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--C----ChhhHHHHHHHHHhCCC-
Q 036340          261 -----------------------HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--K----NLVSWNSMIAGCETNKD-  310 (579)
Q Consensus       261 -----------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~----~~~~~~~l~~~~~~~~~-  310 (579)
                                             +.+....-.+.-...+.|+.++|.++|+....  +    +.....-++..|.+.+. 
T Consensus       350 ~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~  429 (987)
T PRK09782        350 AVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYL  429 (987)
T ss_pred             hhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcc
Confidence                                   01222233334445678899999999988765  1    22234466777777655 


Q ss_pred             --chHHHHH----------------------HHHHHH-cCCCC---ChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCC
Q 036340          311 --YEGAIKL----------------------FIQMQV-EGEKP---DRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIP  362 (579)
Q Consensus       311 --~~~a~~~----------------------~~~~~~-~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  362 (579)
                        ..++..+                      +..... .+..|   +...+..+..++.. ++.+.|...+....... |
T Consensus       430 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~-P  507 (987)
T PRK09782        430 ATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ-P  507 (987)
T ss_pred             cchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC-C
Confidence              3333333                      111111 11222   34455555555555 77878888777633333 3


Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSA  440 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~  440 (579)
                      +......+...+...|++++|...|+++. .+|+...+..+..++.+.|++++|...+++..+..  |+.. .+..+...
T Consensus       508 d~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~--P~~~~l~~~La~~  585 (987)
T PRK09782        508 DAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG--LGDNALYWWLHAQ  585 (987)
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CccHHHHHHHHHH
Confidence            43444445566678999999999999875 34555567777888899999999999999998653  5443 34444445


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|...+++.++   ..|+...+..++.++.+.|++++|+..+++. ...| +...+..+..++...|++++|
T Consensus       586 l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeA  662 (987)
T PRK09782        586 RYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQS  662 (987)
T ss_pred             HHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            5567999999999999984   4677888999999999999999999999988 4556 566888888899999999999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +..++++++..|+++.++..++.++...|++++|+..+++..+...
T Consensus       663 i~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        663 REMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999999986653

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.96  E-value=3.6e-26  Score=208.06  Aligned_cols=376  Identities=15%  Similarity=0.217  Sum_probs=262.1

Q ss_pred             hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc-chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHH-
Q 036340          159 VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR-NIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSW-  236 (579)
Q Consensus       159 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-  236 (579)
                      ..+|..+.+.+-..|+++.|+.+++.++          .+.| .+..|..+..++...|+.+.|...|.+.++-++..+ 
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~ai----------el~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~c  185 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAI----------ELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYC  185 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHH----------hcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhh
Confidence            3344444444444444444444444443          1122 234444444444444444444444444433322211 


Q ss_pred             --HHHHHHHHhcCChHHHHHHhhcCC--CCC-hhhHHHHHHHHHhcCCHHHHHHHHccCCCCCh---hhHHHHHHHHHhC
Q 036340          237 --NTMISGYIHVLDMEEASNLFVKMP--HPD-TLTWNAMVSGYAQIGNLELALDFFKRMPQKNL---VSWNSMIAGCETN  308 (579)
Q Consensus       237 --~~l~~~~~~~~~~~~a~~~~~~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~  308 (579)
                        ..+...+...|..++|...|.+..  .|. ...|+.|...+...|+...|+..|++..+-|+   ..|-.|...|...
T Consensus       186 a~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~  265 (966)
T KOG4626|consen  186 ARSDLGNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEA  265 (966)
T ss_pred             hhcchhHHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHH
Confidence              122233333444444444444443  222 34566666666667777777777766665332   3566666677777


Q ss_pred             CCchHHHHHHHHHHHcCCCCC-hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHH
Q 036340          309 KDYEGAIKLFIQMQVEGEKPD-RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIF  387 (579)
Q Consensus       309 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  387 (579)
                      +.+++|+..|.+....  +|+ ...+..+...|..+|..+.|+..++......|.-+..|+.+..++...|+..+|+..|
T Consensus       266 ~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cY  343 (966)
T KOG4626|consen  266 RIFDRAVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCY  343 (966)
T ss_pred             hcchHHHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHH
Confidence            7777777777666543  333 3455555566677777777777777755555666778899999999999999999999


Q ss_pred             Hhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCC
Q 036340          388 EEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIE  464 (579)
Q Consensus       388 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  464 (579)
                      .+..  ......+.+.|...|...|.+++|..+|....+  +.|... ..+.|...|-++|++++|+..|++.+   .+.
T Consensus       344 nkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~  418 (966)
T KOG4626|consen  344 NKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIK  418 (966)
T ss_pred             HHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcC
Confidence            9864  334566789999999999999999999999884  677755 88999999999999999999999987   678


Q ss_pred             CC-cchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          465 PR-IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       465 ~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      |+ ...+..++..|-..|+.+.|++.+.+. .+.|. ...++.+...+...|+..+|+..|+.++++.|+.+.++..++.
T Consensus       419 P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh  498 (966)
T KOG4626|consen  419 PTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLH  498 (966)
T ss_pred             chHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHH
Confidence            86 578999999999999999999999887 66674 5688999999999999999999999999999999999999988


Q ss_pred             hhhhcCCchH
Q 036340          542 MYADVGRWDD  551 (579)
Q Consensus       542 ~~~~~g~~~~  551 (579)
                      ++.-..+|.+
T Consensus       499 ~lq~vcdw~D  508 (966)
T KOG4626|consen  499 CLQIVCDWTD  508 (966)
T ss_pred             HHHHHhcccc
Confidence            7766666554

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=3e-23  Score=212.90  Aligned_cols=543  Identities=10%  Similarity=0.029  Sum_probs=389.9

Q ss_pred             ChhhhhcCCCHHHHHHHhccCCCCch--hHHHHHHHHHHHcCCCCChHHHHHHHhhCC---CCCcchHHHHHHH------
Q 036340            1 MISGYVKRREMAKARKLFDEMPQRDV--VSWNVMISGYISSRGSGFLEEARYLFDIMP---ERDCVTWNTVISG------   69 (579)
Q Consensus         1 l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~------   69 (579)
                      |+..|.+.|++++|+..++++.+.++  ..+..++..+   ++   +++|...++++.   +.+..++..+...      
T Consensus        84 LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~---~~kA~~~ye~l~~~~P~n~~~~~~la~~~~~~~~  157 (987)
T PRK09782         84 LAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PV---EVKSVTTVEELLAQQKACDAVPTLRCRSEVGQNA  157 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---cc---ChhHHHHHHHHHHhCCCChhHHHHHHHHhhccch
Confidence            46789999999999999999987433  3444433222   55   899999999998   3455667666666      


Q ss_pred             --HHccCCHHHHHHHhhcCCCCc--hhhHHHH-HHHHHhcCChhhHHHHHccCCCCC---cchHHHHHHHHHh-CCCHHH
Q 036340           70 --YAKTGEMEEALRLFNSMPARN--VVSWNAM-ISGFLQNGDVANAIEFFDRMPGRD---SASLSALVSGLIQ-NGELDE  140 (579)
Q Consensus        70 --~~~~g~~~~A~~~~~~~~~~~--~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~-~g~~~~  140 (579)
                        |.+.+...+++.  .+...|+  +.+.... ...|.+.|++++|++.+.++.+..   ......+..+|.. .++ ++
T Consensus       158 l~y~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~  234 (987)
T PRK09782        158 LRLAQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTLSAAERRQWFDVLLAGQLD-DR  234 (987)
T ss_pred             hhhhhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HH
Confidence              777766666666  3333343  4444444 899999999999999999987643   3345566677777 466 77


Q ss_pred             HHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCC-------------C-----ccC----
Q 036340          141 AARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEG-------------N-----VRF----  198 (579)
Q Consensus       141 A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-------------~-----~~~----  198 (579)
                      +..+++.      ....+...+..++..+.+.|+.++|.++++++........+             .     ..+    
T Consensus       235 a~al~~~------~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~  308 (987)
T PRK09782        235 LLALQSQ------GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQF  308 (987)
T ss_pred             HHHHhch------hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhh
Confidence            7777443      33367778999999999999999999999998633221000             0     000    


Q ss_pred             Ccc-hHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------------------------------C-ChhHHHHHHHHHHh
Q 036340          199 KRN-IVSWNSMIMCYAKAGDVVSAREIFEQMLE-------------------------------R-DTFSWNTMISGYIH  245 (579)
Q Consensus       199 ~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------------------------------~-~~~~~~~l~~~~~~  245 (579)
                      .++ ......++..+.+.++++.++++...-..                               + +......+.-...+
T Consensus       309 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~  388 (987)
T PRK09782        309 ADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQ  388 (987)
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            000 01112235666777777777666331100                               0 22223333445567


Q ss_pred             cCChHHHHHHhhcCCC--C----ChhhHHHHHHHHHhcCC---HHHHHHHHc-------------------------cCC
Q 036340          246 VLDMEEASNLFVKMPH--P----DTLTWNAMVSGYAQIGN---LELALDFFK-------------------------RMP  291 (579)
Q Consensus       246 ~~~~~~a~~~~~~~~~--~----~~~~~~~l~~~~~~~g~---~~~A~~~~~-------------------------~~~  291 (579)
                      .|+.++|..+|+...+  .    +.....-++..|.+.+.   ..++..+-.                         ...
T Consensus       389 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al  468 (987)
T PRK09782        389 NGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLL  468 (987)
T ss_pred             cccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhc
Confidence            8999999999998872  2    22344467777777766   333433311                         111


Q ss_pred             C---C--ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchH
Q 036340          292 Q---K--NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPI  366 (579)
Q Consensus       292 ~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  366 (579)
                      .   +  +...|..+..++.. +++++|+..+.+....  .|+......+...+...|+++.|...++..... +|+...
T Consensus       469 ~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~-~p~~~a  544 (987)
T PRK09782        469 GDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH-DMSNED  544 (987)
T ss_pred             ccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc-CCCcHH
Confidence            1   2  45577888887776 8999999988887765  366555444455567899999999999985433 444555


Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhcc-CCCCe-eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhccc
Q 036340          367 NNALITMYARCGAIVEARIIFEEMK-LLKNV-VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHA  444 (579)
Q Consensus       367 ~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  444 (579)
                      +..+...+.+.|++++|...+++.. ..|+. ..+..+.......|++++|+..+++..+  ..|+...+..+..++.+.
T Consensus       545 ~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~l  622 (987)
T PRK09782        545 LLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQR  622 (987)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHC
Confidence            6677888999999999999999875 22322 2222333344456999999999999995  467777899999999999


Q ss_pred             CcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHH
Q 036340          445 GLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVA  521 (579)
Q Consensus       445 ~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~  521 (579)
                      |++++|+..+++.+.   ..| +...+..++.++...|++++|+..+++. ...| ++..+..+..++...|++++|+..
T Consensus       623 G~~deA~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~  699 (987)
T PRK09782        623 HNVPAAVSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHY  699 (987)
T ss_pred             CCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999985   355 5678889999999999999999999987 4455 677899999999999999999999


Q ss_pred             HHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCC
Q 036340          522 AEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKP  567 (579)
Q Consensus       522 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  567 (579)
                      +++++++.|++..+....+++.....+++.|.+.+++.-..++...
T Consensus       700 l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~~~  745 (987)
T PRK09782        700 ARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFDSS  745 (987)
T ss_pred             HHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCccch
Confidence            9999999999999999999999999999999999988765555433

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.95  E-value=2.7e-24  Score=206.11  Aligned_cols=542  Identities=15%  Similarity=0.114  Sum_probs=396.4

Q ss_pred             hhhcCCCHHHHHHHhccCCCCc----hhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHH------cc
Q 036340            4 GYVKRREMAKARKLFDEMPQRD----VVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYA------KT   73 (579)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~------~~   73 (579)
                      .....|+|..|+.+|..++..+    +....++..++.+.++   .+.|+..|....+.||...++++....      ..
T Consensus       173 i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~---~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~  249 (1018)
T KOG2002|consen  173 IAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGM---SEKALLAFERALQLDPTCVSALVALGEVDLNFNDS  249 (1018)
T ss_pred             HHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccc---hhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccch
Confidence            4456788888888888865421    1223344566677777   888888888888777765555554322      22


Q ss_pred             CCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCC------CcchHHHHHHHHHhCCCHHHHHHH
Q 036340           74 GEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR------DSASLSALVSGLIQNGELDEAARV  144 (579)
Q Consensus        74 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~  144 (579)
                      ..+..+.+++.+.-   ..||.+.+.|.+.|.-.|++..+..+...+...      -..+|..+.+++..+|++++|...
T Consensus       250 ~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~y  329 (1018)
T KOG2002|consen  250 DSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKY  329 (1018)
T ss_pred             HHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHH
Confidence            45566666666654   567888888999999999999998888877543      234678889999999999999999


Q ss_pred             HHHhccCCCCCCCc-hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcC----CHH
Q 036340          145 LVKCGSRCDGGEDL-VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAG----DVV  219 (579)
Q Consensus       145 ~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~  219 (579)
                      |.+..+.   .+.+ ...+.-+++.+.+.|+++.+...|+.+..         ..+.+..+...|...|...+    ..+
T Consensus       330 Y~~s~k~---~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k---------~~p~~~etm~iLG~Lya~~~~~~~~~d  397 (1018)
T KOG2002|consen  330 YMESLKA---DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLK---------QLPNNYETMKILGCLYAHSAKKQEKRD  397 (1018)
T ss_pred             HHHHHcc---CCCCccccccchhHHHHHhchHHHHHHHHHHHHH---------hCcchHHHHHHHHhHHHhhhhhhHHHH
Confidence            9888874   2222 55677788999999999999999998862         22555677777777777665    456


Q ss_pred             HHHHHHHhcCCC---ChhHHHHHHHHHHhcCC------hHHHHHHhhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHcc
Q 036340          220 SAREIFEQMLER---DTFSWNTMISGYIHVLD------MEEASNLFVKMP-HPDTLTWNAMVSGYAQIGNLELALDFFKR  289 (579)
Q Consensus       220 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~------~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  289 (579)
                      .|..++.+..++   |...|-.+...+....-      +..|..++..-. .+.+...|.+...+...|++.+|...|+.
T Consensus       398 ~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~  477 (1018)
T KOG2002|consen  398 KASNVLGKVLEQTPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKS  477 (1018)
T ss_pred             HHHHHHHHHHhcccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHH
Confidence            777777777664   55667777666655433      333443333222 56677889999999999999999999887


Q ss_pred             CCC-------CCh------hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC-hhhHHHHHHhccCCCchhhHHHHHHH
Q 036340          290 MPQ-------KNL------VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD-RHTFSSILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       290 ~~~-------~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      ...       ++.      .+-..+..++-..++++.|.+.|..+.+..  |+ ...|..+.......++...|..+++.
T Consensus       478 A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~  555 (1018)
T KOG2002|consen  478 ALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKD  555 (1018)
T ss_pred             HhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHH
Confidence            653       122      123345666677789999999999988752  33 23344444344456777888888888


Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCCeeeHHHHHHHHHh------------cCChHHHHHHH
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK----LLKNVVSWNAMIGGCAS------------HGFATEALELF  419 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~------------~~~~~~A~~~~  419 (579)
                      .......++.++..+...+.....+..|.+-|..+.    ..+|..+...|++.|.+            .+..++|+++|
T Consensus       556 ~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y  635 (1018)
T KOG2002|consen  556 ALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLY  635 (1018)
T ss_pred             HHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHH
Confidence            888888888888889989999888888888655543    34566666667776543            24577899999


Q ss_pred             HHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC----CC
Q 036340          420 KSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM----PF  495 (579)
Q Consensus       420 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~  495 (579)
                      .+.+... +-|...-+.+.-+++..|++..|..+|.++...  ......+|..++.+|..+|++..|+++|+..    ..
T Consensus       636 ~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~  712 (1018)
T KOG2002|consen  636 GKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYK  712 (1018)
T ss_pred             HHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9988642 335567788888899999999999999998764  3456778999999999999999999999876    23


Q ss_pred             CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc-------------------CCchHHHHHH
Q 036340          496 EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV-------------------GRWDDANEVR  556 (579)
Q Consensus       496 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------------------g~~~~A~~~~  556 (579)
                      ..++.+.+.|.+++...|.+.+|...+..++...|.++.....++.+..+.                   +..+.|.++|
T Consensus       713 ~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F  792 (1018)
T KOG2002|consen  713 KNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLF  792 (1018)
T ss_pred             cCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHH
Confidence            457888999999999999999999999999999999998877777666544                   3466788888


Q ss_pred             HHHHhCCCC
Q 036340          557 LLMKSNNIK  565 (579)
Q Consensus       557 ~~~~~~~~~  565 (579)
                      .+|.+.+-+
T Consensus       793 ~~ls~~~d~  801 (1018)
T KOG2002|consen  793 TELSKNGDK  801 (1018)
T ss_pred             HHHHhcCCC
Confidence            888766654

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.94  E-value=2e-24  Score=196.78  Aligned_cols=422  Identities=13%  Similarity=0.133  Sum_probs=351.1

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      ...+..-..+.|++.+|++.-...-.+   .+.+....-.+...+.+..+.+.....-....         ...+.-..+
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~---d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~---------r~~~q~ae~  118 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQE---DPTNTERLLLLSAIFFQGSRLDKSSAGSLLAI---------RKNPQGAEA  118 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhcc---CCCcccceeeehhhhhcccchhhhhhhhhhhh---------hccchHHHH
Confidence            455667778899999999988877664   33333344445556666667776655444443         112445788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChh---hHHHHHHHHHhcC
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTL---TWNAMVSGYAQIG  278 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~g  278 (579)
                      |..+.+.+-..|+++.|++.|+.+++.   ....|..+..++...|+.+.|...|....+.|+.   ..+.+...+...|
T Consensus       119 ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~G  198 (966)
T KOG4626|consen  119 YSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEG  198 (966)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhc
Confidence            999999999999999999999999774   4578999999999999999999999988844443   3345667777889


Q ss_pred             CHHHHHHHHccCCC--CC-hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC-hhhHHHHHHhccCCCchhhHHHHHH
Q 036340          279 NLELALDFFKRMPQ--KN-LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD-RHTFSSILSMSSGIVDLHLGMQIHQ  354 (579)
Q Consensus       279 ~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~  354 (579)
                      ++.+|...|.+..+  |. ...|..|...+..+|+...|+..|++..+.  .|+ ...|..+...+...+.++.|...+.
T Consensus       199 rl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~  276 (966)
T KOG4626|consen  199 RLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYL  276 (966)
T ss_pred             ccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHH
Confidence            99999999988775  33 358999999999999999999999999864  444 4567777888888888999999888


Q ss_pred             HHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh
Q 036340          355 MVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI  432 (579)
Q Consensus       355 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~  432 (579)
                      .....-+....++..+...|...|.++-|+..|++.. ..|+ +..|+.|..++...|++.+|++.+.+...  +.|+..
T Consensus       277 rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~ha  354 (966)
T KOG4626|consen  277 RALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHA  354 (966)
T ss_pred             HHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccH
Confidence            8666677778888899999999999999999999874 5565 56899999999999999999999999985  567655


Q ss_pred             -hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 036340          433 -TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-KAVWGALLGA  508 (579)
Q Consensus       433 -~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~  508 (579)
                       +.+.|...+...|.++.|..+|....   .+.|. ....+.|+..|-.+|++++|+..+++. .++|. ...++.+...
T Consensus       355 dam~NLgni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt  431 (966)
T KOG4626|consen  355 DAMNNLGNIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNT  431 (966)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchH
Confidence             88999999999999999999999887   45664 567899999999999999999999988 78886 4589999999


Q ss_pred             HhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          509 CRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       509 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      |-..|+...|++.|.+++..+|.-..++..|+.+|...|+..+|..-+++..+..+.
T Consensus       432 ~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  432 YKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             HHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999999999999999999999999998866654

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.93  E-value=4.6e-23  Score=197.74  Aligned_cols=539  Identities=14%  Similarity=0.102  Sum_probs=396.1

Q ss_pred             HHHHHHHhccCCCCchhH-HHHHHHHHHHcCCCCChHHHHHHHhhCC------CCCcchHHHHHHHHHccCCHHHHHHHh
Q 036340           11 MAKARKLFDEMPQRDVVS-WNVMISGYISSRGSGFLEEARYLFDIMP------ERDCVTWNTVISGYAKTGEMEEALRLF   83 (579)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~~~A~~~~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~   83 (579)
                      ++.|...|...++.++.. ...+..++..-++ +++..|+.+|....      .+|+.+  .+..++.+.|+.+.|+..|
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynk-kdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~  222 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNK-KDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAF  222 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhcc-ccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHH
Confidence            588899998888754433 2334444444443 66999999999865      344433  3446677899999999999


Q ss_pred             hcCCCCchh---hHHHHHHHHHhcC---ChhhHHHHHccCC---CCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCC
Q 036340           84 NSMPARNVV---SWNAMISGFLQNG---DVANAIEFFDRMP---GRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDG  154 (579)
Q Consensus        84 ~~~~~~~~~---~~~~l~~~~~~~~---~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  154 (579)
                      ++..+-|+.   ++..|.-.-....   .+..+..++...-   ..++...+.|...+...|++..+..+...+......
T Consensus       223 ~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  223 ERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            988854443   3333333223333   3455666665543   358889999999999999999999999998875322


Q ss_pred             CCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcch--HHHHHHHHHHHhcCCHHHHHHHHHhcCCC-
Q 036340          155 GEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI--VSWNSMIMCYAKAGDVVSAREIFEQMLER-  231 (579)
Q Consensus       155 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  231 (579)
                      .+.-...|..++.+|...|++++|..+|-+...          ..|+.  ..+.-+...+.+.|+++.+...|+.+.+. 
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k----------~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~  372 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK----------ADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL  372 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc----------cCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC
Confidence            333455689999999999999999999998872          23433  34556788999999999999999998663 


Q ss_pred             --ChhHHHHHHHHHHhcC----ChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCC--------CCC
Q 036340          232 --DTFSWNTMISGYIHVL----DMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMP--------QKN  294 (579)
Q Consensus       232 --~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~  294 (579)
                        +..+...+...|...+    ..+.|..++.+..   +.|...|..+...+-.. +...++..|..+.        ...
T Consensus       373 p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip  451 (1018)
T KOG2002|consen  373 PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIP  451 (1018)
T ss_pred             cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCC
Confidence              4455666666666664    5678888888777   45666777777666543 3333354444332        356


Q ss_pred             hhhHHHHHHHHHhCCCchHHHHHHHHHHHc---CCCCCh------hhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCch
Q 036340          295 LVSWNSMIAGCETNKDYEGAIKLFIQMQVE---GEKPDR------HTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVP  365 (579)
Q Consensus       295 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  365 (579)
                      +...|.+...+...|+++.|...|......   ...++.      .+--.+....-..++.+.|.+.+..+.+..|.-+.
T Consensus       452 ~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId  531 (1018)
T KOG2002|consen  452 PEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYID  531 (1018)
T ss_pred             HHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHH
Confidence            778899999999999999999999987654   222333      23334555666778999999999998888888788


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC-CCCChhhHHHHHHHhc
Q 036340          366 INNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK-VLPTYITFISVLSACA  442 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~  442 (579)
                      .|..++.+....++..+|...+....  ...++..+..++..+.....+..|.+-|....+.- ..+|..+...|...|.
T Consensus       532 ~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~  611 (1018)
T KOG2002|consen  532 AYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYI  611 (1018)
T ss_pred             HHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHH
Confidence            88777766666788899999998875  45677778888888888888888888666665432 2356666666666553


Q ss_pred             c------------cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHH
Q 036340          443 H------------AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP--FEPDKAVWGALLGA  508 (579)
Q Consensus       443 ~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  508 (579)
                      .            .+..++|+++|.++++.  .+-+...-+.++-+++..|++.+|..+|.++.  ......+|.+++.+
T Consensus       612 ~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~  689 (1018)
T KOG2002|consen  612 QALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHC  689 (1018)
T ss_pred             HHhcccccChHHHHHHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHH
Confidence            2            34577889999888752  23377788889999999999999999999983  33466789999999


Q ss_pred             HhhcCCHHHHHHHHHHHhhcC--CCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          509 CRVHNNVELAQVAAEALMKVE--PENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       509 ~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      |...|++..|+++|+...+..  .+++.++..|+.++.+.|.+.+|.+.+.......+.
T Consensus       690 ~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~  748 (1018)
T KOG2002|consen  690 YVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPS  748 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCc
Confidence            999999999999999998643  556778999999999999999999999887765543

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.92  E-value=5.7e-22  Score=200.44  Aligned_cols=419  Identities=9%  Similarity=-0.008  Sum_probs=261.5

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      +......+.+.|++++|+..|++++..    .|+...|..+..+|.+.|++++|++.++.++..        . +.+...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~----~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--------~-p~~~~a  196 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC----KPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--------D-PDYSKA  196 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc----CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--------C-CCCHHH
Confidence            444556666677777777777776653    223456666667777777777777777766511        1 224556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHH
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLERD---TFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      +..+..++...|++++|+..|..+...+   ......++..+........+...++.- +++...+..+...+ ......
T Consensus       197 ~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~-~~~~~~~~~~~~~~-~~~~~~  274 (615)
T TIGR00990       197 LNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETK-PENLPSVTFVGNYL-QSFRPK  274 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCCCHHHHHHHH-HHccCC
Confidence            6666777777777777766665443211   111111111111111112222222221 12222222222211 111111


Q ss_pred             HHHHHHccCCCCCh---hhHHHHHHHH---HhCCCchHHHHHHHHHHHcC-CCC-ChhhHHHHHHhccCCCchhhHHHHH
Q 036340          282 LALDFFKRMPQKNL---VSWNSMIAGC---ETNKDYEGAIKLFIQMQVEG-EKP-DRHTFSSILSMSSGIVDLHLGMQIH  353 (579)
Q Consensus       282 ~A~~~~~~~~~~~~---~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  353 (579)
                      ....-+....+.+.   ..+..+...+   ...+++++|...|++..+.+ ..| ....+..+...+...|+++.|...+
T Consensus       275 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~  354 (615)
T TIGR00990       275 PRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADL  354 (615)
T ss_pred             cchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            11111111111111   1111111111   23467788888888877654 223 2344555566667788888888888


Q ss_pred             HHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-
Q 036340          354 QMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-  430 (579)
Q Consensus       354 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-  430 (579)
                      +......+.....+..+...+...|++++|...|++..  .+.+...|..++..+...|++++|+..|++..+.  .|+ 
T Consensus       355 ~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~  432 (615)
T TIGR00990       355 SKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDF  432 (615)
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccC
Confidence            87555555666778888888888999999999988764  2335677888888899999999999999998853  565 


Q ss_pred             hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCH-H-------H
Q 036340          431 YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDK-A-------V  501 (579)
Q Consensus       431 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~-~-------~  501 (579)
                      ...+..+..++...|++++|+..+++.++.  .+.+...+..++.++...|++++|+..|++. ...|+. .       .
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l  510 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPL  510 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHH
Confidence            447777888888999999999999988753  2335678888899999999999999998886 333321 1       1


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      ++.....+...|++++|+..++++++++|++..++..++.++.+.|++++|.+.+++..+.
T Consensus       511 ~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       511 INKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            1122222334689999999999999999998888899999999999999999999987654

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=1.6e-21  Score=187.77  Aligned_cols=297  Identities=12%  Similarity=0.101  Sum_probs=202.2

Q ss_pred             HHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC---hhhHHHHHHhccCCCchh
Q 036340          274 YAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD---RHTFSSILSMSSGIVDLH  347 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  347 (579)
                      +...|++++|...|.++.+   .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            3344444445554444443   1222344444445555555555555555444321111   123334444445555555


Q ss_pred             hHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCe------eeHHHHHHHHHhcCChHHHHHHHH
Q 036340          348 LGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNV------VSWNAMIGGCASHGFATEALELFK  420 (579)
Q Consensus       348 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~------~~~~~l~~~~~~~~~~~~A~~~~~  420 (579)
                      .|..+++......+.+..++..++..+...|++++|.+.++.+. ..|+.      ..+..++..+.+.|++++|+..|+
T Consensus       125 ~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        125 RAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            55555555333334455566777888888888888888888774 12221      134567777888999999999999


Q ss_pred             HhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC--cchhHHHHHHhhccCChHHHHHHHHhC-CCC
Q 036340          421 SMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR--IEHFASLVDIVGRHGRLEDAMDLIKGM-PFE  496 (579)
Q Consensus       421 ~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  496 (579)
                      ++.+.  .|+ ...+..+...+...|++++|.++++++...   .|+  ..++..++.+|...|++++|...++++ ...
T Consensus       205 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        205 KALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99864  354 447777888999999999999999998754   333  456778889999999999999999987 456


Q ss_pred             CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh---cCCchHHHHHHHHHHhCCCCCCCcceee
Q 036340          497 PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD---VGRWDDANEVRLLMKSNNIKKPTGYSWV  573 (579)
Q Consensus       497 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~  573 (579)
                      |+...+..++..+.+.|++++|...++++++..|++.. +..+...+..   .|+.+++...++++.++++.+.|.+.. 
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~c-  357 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYRC-  357 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCEEC-
Confidence            77777788889999999999999999999999999765 4444444432   568999999999999999999998654 


Q ss_pred             EeccCC
Q 036340          574 DFSPCG  579 (579)
Q Consensus       574 ~~~~~~  579 (579)
                        .+||
T Consensus       358 --~~cg  361 (389)
T PRK11788        358 --RNCG  361 (389)
T ss_pred             --CCCC
Confidence              5565

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.89  E-value=4.8e-20  Score=186.51  Aligned_cols=419  Identities=12%  Similarity=0.012  Sum_probs=272.1

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHccCCC--CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHh
Q 036340           93 SWNAMISGFLQNGDVANAIEFFDRMPG--RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYG  170 (579)
Q Consensus        93 ~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  170 (579)
                      .+...+..+.+.|++++|+..|++...  |++..|..+..++...|++++|++.+..+++   ..|....++..+..++.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~---l~p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALE---LDPDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHH
Confidence            345566777777888888777777653  4556677777778888888888888888777   45566677777888888


Q ss_pred             hCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChH
Q 036340          171 QRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDME  250 (579)
Q Consensus       171 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  250 (579)
                      ..|++++|+..|..+...       .+  .+......++..+........+...++.-.. +...+..+.. +.......
T Consensus       206 ~lg~~~eA~~~~~~~~~~-------~~--~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~-~~~~~~~~~~-~~~~~~~~  274 (615)
T TIGR00990       206 GLGKYADALLDLTASCII-------DG--FRNEQSAQAVERLLKKFAESKAKEILETKPE-NLPSVTFVGN-YLQSFRPK  274 (615)
T ss_pred             HcCCHHHHHHHHHHHHHh-------CC--CccHHHHHHHHHHHHHHHHHHHHHHHhcCCC-CCCCHHHHHH-HHHHccCC
Confidence            888888887777655311       01  1111111122211111112223333322111 1122222222 22211111


Q ss_pred             HHHHHhhcCC--CCC-hhhHHHHHHHH---HhcCCHHHHHHHHccCCCC------ChhhHHHHHHHHHhCCCchHHHHHH
Q 036340          251 EASNLFVKMP--HPD-TLTWNAMVSGY---AQIGNLELALDFFKRMPQK------NLVSWNSMIAGCETNKDYEGAIKLF  318 (579)
Q Consensus       251 ~a~~~~~~~~--~~~-~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~  318 (579)
                      ....-+....  .++ ...+..+...+   ...+++++|...|+...+.      ....|+.+...+...|++++|+..|
T Consensus       275 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~  354 (615)
T TIGR00990       275 PRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADL  354 (615)
T ss_pred             cchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            1111122111  111 11111121111   2346788888888776642      2345777777788888888888888


Q ss_pred             HHHHHcCCCCC-hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-C
Q 036340          319 IQMQVEGEKPD-RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-N  395 (579)
Q Consensus       319 ~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~  395 (579)
                      ++.++.  .|+ ...+..+...+...|+++.|...++......+.++.++..+...+...|++++|...|++.. ..| +
T Consensus       355 ~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~  432 (615)
T TIGR00990       355 SKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDF  432 (615)
T ss_pred             HHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccC
Confidence            888764  333 44666677777788888888888888555566778888899999999999999999998874 334 4


Q ss_pred             eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCc-ch----
Q 036340          396 VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRI-EH----  469 (579)
Q Consensus       396 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~----  469 (579)
                      ...+..+..++.+.|++++|+..|++..+.  .|+ ...+..+...+...|++++|+..|++.+..   .|+. ..    
T Consensus       433 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~  507 (615)
T TIGR00990       433 IFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNV  507 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccH
Confidence            566778888899999999999999998853  454 458888888999999999999999988743   3321 11    


Q ss_pred             ---hHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          470 ---FASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       470 ---~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                         +......+...|++++|..++++. ...| +...+..++..+...|++++|+..|+++.++.+..
T Consensus       508 ~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~  575 (615)
T TIGR00990       508 LPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTE  575 (615)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccH
Confidence               111222334469999999999886 5555 44578888999999999999999999999887764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=3.4e-19  Score=183.47  Aligned_cols=393  Identities=10%  Similarity=0.023  Sum_probs=217.6

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHH
Q 036340          126 SALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSW  205 (579)
Q Consensus       126 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (579)
                      .-.+......|+.++|++++.++..   ..+.....+..++..+...|++++|.++|+++...         -+.+...+
T Consensus        19 ~d~~~ia~~~g~~~~A~~~~~~~~~---~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~---------~P~~~~a~   86 (765)
T PRK10049         19 ADWLQIALWAGQDAEVITVYNRYRV---HMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL---------EPQNDDYQ   86 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------CCCCHHHH
Confidence            3344445555555555555555543   12333334555555555555555555555554411         02234444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCC
Q 036340          206 NSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGN  279 (579)
Q Consensus       206 ~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~  279 (579)
                      ..++.++...|++++|...++++++.   +.. +..+..++...|+.++|+..++++.   +.+...+..++.++...|.
T Consensus        87 ~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         87 RGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCC
Confidence            45555555555555555555555331   223 4444455555555555555555554   2233444455556666666


Q ss_pred             HHHHHHHHccCCCCChh--------hHHHHHHHHH-----hCCCc---hHHHHHHHHHHHc-CCCCChhh-HHHHHHhcc
Q 036340          280 LELALDFFKRMPQKNLV--------SWNSMIAGCE-----TNKDY---EGAIKLFIQMQVE-GEKPDRHT-FSSILSMSS  341 (579)
Q Consensus       280 ~~~A~~~~~~~~~~~~~--------~~~~l~~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~~-~~~l~~~~~  341 (579)
                      .+.|+..++.+.. ++.        ....++....     ..+++   ++|+..++.+.+. ...|+... +..      
T Consensus       166 ~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~------  238 (765)
T PRK10049        166 SAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQR------  238 (765)
T ss_pred             hHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHH------
Confidence            6666666665554 111        1111111111     11222   5566666666543 12222111 100      


Q ss_pred             CCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCC-CC-ee-eHHHHHHHHHhcCChHHHHHH
Q 036340          342 GIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLL-KN-VV-SWNAMIGGCASHGFATEALEL  418 (579)
Q Consensus       342 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~-~~-~~~~l~~~~~~~~~~~~A~~~  418 (579)
                                              .....+..+...|++++|+..|+.+... ++ +. ....+..+|...|++++|+..
T Consensus       239 ------------------------a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~  294 (765)
T PRK10049        239 ------------------------ARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSI  294 (765)
T ss_pred             ------------------------HHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHH
Confidence                                    0001122334557777777777776521 11 11 112245667777777788777


Q ss_pred             HHHhHhCCCCCCh-----hhHHHHHHHhcccCcHHHHHHHHHHhHHhhC----------CCCC---cchhHHHHHHhhcc
Q 036340          419 FKSMRSFKVLPTY-----ITFISVLSACAHAGLVEEGRQHFKSMVNEYG----------IEPR---IEHFASLVDIVGRH  480 (579)
Q Consensus       419 ~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~  480 (579)
                      |+++...  .|..     .....+..++...|++++|.+.++.+.....          ..|+   ...+..++..+...
T Consensus       295 l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~  372 (765)
T PRK10049        295 LTELFYH--PETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYS  372 (765)
T ss_pred             HHHHhhc--CCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHc
Confidence            7776643  2221     2344555566777788888777777764311          0112   12344566777788


Q ss_pred             CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          481 GRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       481 g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      |+.++|++.++++ ...| +...+..++..+...|++++|+..++++++.+|+++..+..++.++...|++++|..++++
T Consensus       373 g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~  452 (765)
T PRK10049        373 NDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDD  452 (765)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            8888888888876 3333 5667777778888888888888888888888888888888888888888888888888888


Q ss_pred             HHhCCC
Q 036340          559 MKSNNI  564 (579)
Q Consensus       559 ~~~~~~  564 (579)
                      +.+..+
T Consensus       453 ll~~~P  458 (765)
T PRK10049        453 VVAREP  458 (765)
T ss_pred             HHHhCC
Confidence            776543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=2.6e-19  Score=180.26  Aligned_cols=341  Identities=11%  Similarity=-0.006  Sum_probs=189.5

Q ss_pred             HhcCChhhHHHHHccCCCC------CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCH
Q 036340          102 LQNGDVANAIEFFDRMPGR------DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRV  175 (579)
Q Consensus       102 ~~~~~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  175 (579)
                      .++.+++.---+|...++.      +......++..+.+.|++++|..+++..+.   ..|....++..++.+....|++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~---~~p~~~~~l~~l~~~~l~~g~~   92 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVL---TAKNGRDLLRRWVISPLASSQP   92 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHH---hCCCchhHHHHHhhhHhhcCCH
Confidence            4455555555555554431      223344556667777888888888877777   4455566667777777778888


Q ss_pred             HHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCChHHH
Q 036340          176 EEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE--R-DTFSWNTMISGYIHVLDMEEA  252 (579)
Q Consensus       176 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a  252 (579)
                      ++|...++++...         -+.+...+..+...+...|++++|...++++++  | +...+..++..+...|++++|
T Consensus        93 ~~A~~~l~~~l~~---------~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA  163 (656)
T PRK15174         93 DAVLQVVNKLLAV---------NVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQA  163 (656)
T ss_pred             HHHHHHHHHHHHh---------CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHH
Confidence            8888888887621         133456677777777888888888888877755  2 344566666667777777777


Q ss_pred             HHHhhcCC--CCC-hhhHHHHHHHHHhcCCHHHHHHHHccCCCCC----hhhHHHHHHHHHhCCCchHHHHHHHHHHHcC
Q 036340          253 SNLFVKMP--HPD-TLTWNAMVSGYAQIGNLELALDFFKRMPQKN----LVSWNSMIAGCETNKDYEGAIKLFIQMQVEG  325 (579)
Q Consensus       253 ~~~~~~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  325 (579)
                      ...++.+.  .|+ ...+..+ ..+...|++++|...++.+.+.+    ...+..+...+...|++++|+..++++....
T Consensus       164 ~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~  242 (656)
T PRK15174        164 ISLARTQAQEVPPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG  242 (656)
T ss_pred             HHHHHHHHHhCCCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            77666553  232 3333333 34667788888888877765422    2233444566777788888888887777643


Q ss_pred             CCCChhhHHHHHHhccCCCchhh----HHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeH
Q 036340          326 EKPDRHTFSSILSMSSGIVDLHL----GMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSW  399 (579)
Q Consensus       326 ~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~  399 (579)
                      . .+...+..+...+...|+++.    |...++......|.+..++..+...+...|++++|...+++.. ..| +...+
T Consensus       243 p-~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~  321 (656)
T PRK15174        243 L-DGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVR  321 (656)
T ss_pred             C-CCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            2 123334344444444554443    3444444333334444444445555555555555555444432 122 22233


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      ..+..++.+.|++++|+..++++...  .|+.. .+..+..++...|++++|...|++++
T Consensus       322 ~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al  379 (656)
T PRK15174        322 AMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYI  379 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            44444444455555555555444432  23322 12222334444455555555554444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.87  E-value=3e-18  Score=172.78  Aligned_cols=436  Identities=8%  Similarity=0.019  Sum_probs=271.6

Q ss_pred             HHHHHccCCHHHHHHHhhcCCC--Cch-hhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHH-HH--HHHHHhCCCHHH
Q 036340           67 ISGYAKTGEMEEALRLFNSMPA--RNV-VSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLS-AL--VSGLIQNGELDE  140 (579)
Q Consensus        67 ~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~l--~~~~~~~g~~~~  140 (579)
                      +-...+.|++..|+..|++...  |+. .....++..+...|+.++|+..+++...+++..+. .+  +..+...|++++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            3344688999999999998873  332 12237778888889999999999988866443333 33  456777899999


Q ss_pred             HHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHH
Q 036340          141 AARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVS  220 (579)
Q Consensus       141 A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  220 (579)
                      |+++|+++.+   ..|.++..+..++..+...++.++|++.++++.          ...|+...+..++..+...++..+
T Consensus       121 Aiely~kaL~---~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~----------~~dp~~~~~l~layL~~~~~~~~~  187 (822)
T PRK14574        121 ALALWQSSLK---KDPTNPDLISGMIMTQADAGRGGVVLKQATELA----------ERDPTVQNYMTLSYLNRATDRNYD  187 (822)
T ss_pred             HHHHHHHHHh---hCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhc----------ccCcchHHHHHHHHHHHhcchHHH
Confidence            9999999888   455556677788888888899999999998887          225555555444444444566666


Q ss_pred             HHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhh
Q 036340          221 AREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVS  297 (579)
Q Consensus       221 A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  297 (579)
                      |++.++++++.   +...+..+..++.+.|-...|.++..+-  |+..+-......     +.+.|.+..+....++.. 
T Consensus       188 AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~--p~~f~~~~~~~l-----~~~~~a~~vr~a~~~~~~-  259 (822)
T PRK14574        188 ALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKEN--PNLVSAEHYRQL-----ERDAAAEQVRMAVLPTRS-  259 (822)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhC--ccccCHHHHHHH-----HHHHHHHHHhhccccccc-
Confidence            88888888653   3445566666666667666666666552  322221111110     112222222211111000 


Q ss_pred             HHHHHHHHHhCCC---chHHHHHHHHHHHc-CCCCChhh-H----HHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHH
Q 036340          298 WNSMIAGCETNKD---YEGAIKLFIQMQVE-GEKPDRHT-F----SSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPIN  367 (579)
Q Consensus       298 ~~~l~~~~~~~~~---~~~a~~~~~~~~~~-~~~~~~~~-~----~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~  367 (579)
                               ..++   .+.|+.-++.+... +..|.... |    .--+-++...++...++..++. ...+.+....+.
T Consensus       260 ---------~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~  330 (822)
T PRK14574        260 ---------ETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYAR  330 (822)
T ss_pred             ---------chhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHH
Confidence                     0112   24455555555432 22232221 1    1233456677777777777777 334444445566


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhccC-C-------CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC-----------C
Q 036340          368 NALITMYARCGAIVEARIIFEEMKL-L-------KNVVSWNAMIGGCASHGFATEALELFKSMRSFKV-----------L  428 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~~-~-------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~  428 (579)
                      ..++.+|...+++++|+.+|+++.. .       ++......|..++...+++++|..+++++.+.-.           .
T Consensus       331 ~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  410 (822)
T PRK14574        331 RWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKE  410 (822)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCC
Confidence            7778888888888888888877631 1       1122235677777788888888888888776211           1


Q ss_pred             CC--hh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHH
Q 036340          429 PT--YI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWG  503 (579)
Q Consensus       429 p~--~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~  503 (579)
                      ||  -. .+..++..+...|++.+|++.++++...  -+-|......++.++...|.+.+|+..++.. ...| +..+..
T Consensus       411 pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~  488 (822)
T PRK14574        411 PNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILER  488 (822)
T ss_pred             CCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHH
Confidence            22  12 2334455667778888888888877643  2336777777777788888888888877665 3445 444556


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          504 ALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       504 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      ..+.++...+++.+|..+.+.+.+..|+++.
T Consensus       489 ~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~  519 (822)
T PRK14574        489 AQAETAMALQEWHQMELLTDDVISRSPEDIP  519 (822)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhhCCCchh
Confidence            6666677778888888888888888887764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=3.8e-19  Score=179.08  Aligned_cols=324  Identities=9%  Similarity=-0.026  Sum_probs=190.2

Q ss_pred             hHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHH
Q 036340          161 AYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWN  237 (579)
Q Consensus       161 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~  237 (579)
                      -...++..+.+.|++++|..+++....         ..+.+...+..++.+....|+++.|...++++++.   +...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~---------~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~  114 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVL---------TAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVL  114 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHH---------hCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHH
Confidence            345566667777777777777777752         11334455556666666777777777777777542   344555


Q ss_pred             HHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--CCh-hhHHHHHHHHHhCCCc
Q 036340          238 TMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--KNL-VSWNSMIAGCETNKDY  311 (579)
Q Consensus       238 ~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~  311 (579)
                      .+...+...|++++|+..++++.   +.+...+..++..+...|++++|...++.+..  |+. ..+..+ ..+...|++
T Consensus       115 ~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~-~~l~~~g~~  193 (656)
T PRK15174        115 LVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGDMIATC-LSFLNKSRL  193 (656)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHHHHHHH-HHHHHcCCH
Confidence            55666666666666666666655   23344555555666666666666666554432  222 222222 234555666


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK  391 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  391 (579)
                      ++|...++.+.+....++.                                  .....++..+...|++++|...+++..
T Consensus       194 ~eA~~~~~~~l~~~~~~~~----------------------------------~~~~~l~~~l~~~g~~~eA~~~~~~al  239 (656)
T PRK15174        194 PEDHDLARALLPFFALERQ----------------------------------ESAGLAVDTLCAVGKYQEAIQTGESAL  239 (656)
T ss_pred             HHHHHHHHHHHhcCCCcch----------------------------------hHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            6666666655443222222                                  222333455566666666666666653


Q ss_pred             --CCCCeeeHHHHHHHHHhcCChHH----HHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCC
Q 036340          392 --LLKNVVSWNAMIGGCASHGFATE----ALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIE  464 (579)
Q Consensus       392 --~~~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  464 (579)
                        .+.+...+..+...+...|++++    |+..+++..+  ..|+.. .+..+...+...|++++|...+++++..   .
T Consensus       240 ~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~  314 (656)
T PRK15174        240 ARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---H  314 (656)
T ss_pred             hcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---C
Confidence              12234455666666677776664    6777777664  345433 6666666777777777777777776642   3


Q ss_pred             C-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHH-HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          465 P-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAV-WGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       465 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      | +...+..++.++.+.|++++|+..++++ ...|+... +..+..++...|+.++|+..|+++++..|++.
T Consensus       315 P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        315 PDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            4 3445556667777777777777777666 33454332 33344556677777777777777777777753

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=5.8e-18  Score=174.43  Aligned_cols=138  Identities=12%  Similarity=0.079  Sum_probs=66.6

Q ss_pred             hHHHHHHHhhCCC---CCcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCC
Q 036340           45 LEEARYLFDIMPE---RDCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMP  118 (579)
Q Consensus        45 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  118 (579)
                      .++|++++.+..+   .+...+..+..++.+.|++++|..++++..   +.++..+..++.++...|++++|+..+++..
T Consensus        31 ~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l  110 (765)
T PRK10049         31 DAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLV  110 (765)
T ss_pred             HHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5555555555442   122234555555555555555555555532   2333444445555555555555555555543


Q ss_pred             C--C-CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          119 G--R-DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       119 ~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      .  | +.. +..+..++...|+.++|+..++++.+   ..|.+..++..++.++...|..++|++.++.+.
T Consensus       111 ~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~---~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~  177 (765)
T PRK10049        111 SGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALP---RAPQTQQYPTEYVQALRNNRLSAPALGAIDDAN  177 (765)
T ss_pred             HhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCChHHHHHHHHhCC
Confidence            2  1 222 44444455555555555555555555   233344444444445555555555555554443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=2.1e-19  Score=173.04  Aligned_cols=292  Identities=15%  Similarity=0.144  Sum_probs=186.3

Q ss_pred             HHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc---chHHH
Q 036340          129 VSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR---NIVSW  205 (579)
Q Consensus       129 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---~~~~~  205 (579)
                      ...+...|++++|+..|+++.+   ..|.+..++..++..+...|++++|..+++.+..        .+..+   ....+
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~--------~~~~~~~~~~~~~  110 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLK---VDPETVELHLALGNLFRRRGEVDRAIRIHQNLLS--------RPDLTREQRLLAL  110 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhc--------CCCCCHHHHHHHH
Confidence            3344566777777777777766   3344555677777777777777777777776652        11011   12455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC--CCC------hhhHHHHHHHH
Q 036340          206 NSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP--HPD------TLTWNAMVSGY  274 (579)
Q Consensus       206 ~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~------~~~~~~l~~~~  274 (579)
                      ..++..|.+.|++++|..+|+++.+.   +..++..++..+...|++++|...++.+.  .|+      ...+..++..+
T Consensus       111 ~~La~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~  190 (389)
T PRK11788        111 QELGQDYLKAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQA  190 (389)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence            66667777777777777777776552   34455556666666666666666665554  111      11234455566


Q ss_pred             HhcCCHHHHHHHHccCCC--C-ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHH
Q 036340          275 AQIGNLELALDFFKRMPQ--K-NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQ  351 (579)
Q Consensus       275 ~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  351 (579)
                      .+.|++++|...|+++.+  | +...+..++..+.+.|++++|.++|+++.+.+  |+.                     
T Consensus       191 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--p~~---------------------  247 (389)
T PRK11788        191 LARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQD--PEY---------------------  247 (389)
T ss_pred             HhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--hhh---------------------
Confidence            667777777777766553  2 23455566666777777777777777766532  111                     


Q ss_pred             HHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC
Q 036340          352 IHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT  430 (579)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  430 (579)
                                 ...++..++.+|...|++++|...++++. ..|+...+..++..+.+.|++++|..+++++.+.  .|+
T Consensus       248 -----------~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~  314 (389)
T PRK11788        248 -----------LSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPS  314 (389)
T ss_pred             -----------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcC
Confidence                       12234556777778888888888887764 4566666677888888888888888888888753  688


Q ss_pred             hhhHHHHHHHhcc---cCcHHHHHHHHHHhHHhhCCCCCcc
Q 036340          431 YITFISVLSACAH---AGLVEEGRQHFKSMVNEYGIEPRIE  468 (579)
Q Consensus       431 ~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~  468 (579)
                      ..++..++..+..   .|+.+++..++++++++ ++.|++.
T Consensus       315 ~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~-~~~~~p~  354 (389)
T PRK11788        315 LRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE-QLKRKPR  354 (389)
T ss_pred             HHHHHHHHHHhhhccCCccchhHHHHHHHHHHH-HHhCCCC
Confidence            7777777765543   45788888888888765 5666655

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.85  E-value=1.7e-17  Score=167.42  Aligned_cols=434  Identities=10%  Similarity=0.017  Sum_probs=304.2

Q ss_pred             HHHHcCCCCChHHHHHHHhhCCCCCcc---hHHHHHHHHHccCCHHHHHHHhhcCCCCchhh-HHHH--HHHHHhcCChh
Q 036340           35 GYISSRGSGFLEEARYLFDIMPERDCV---TWNTVISGYAKTGEMEEALRLFNSMPARNVVS-WNAM--ISGFLQNGDVA  108 (579)
Q Consensus        35 ~~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~l--~~~~~~~~~~~  108 (579)
                      ...+.|+   ++.|+..|++..+.++.   ....++..+...|+.++|+..+++...|++.. +..+  +..+...|+++
T Consensus        43 i~~r~Gd---~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         43 IRARAGD---TAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHhCCC---HHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            3346666   99999999999854443   23488888899999999999999999765443 3333  55788889999


Q ss_pred             hHHHHHccCCCC---CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccc
Q 036340          109 NAIEFFDRMPGR---DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKI  185 (579)
Q Consensus       109 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  185 (579)
                      +|+++|+++.+.   ++..+..++..+...++.++|++.++++...   .+ +...+..++..+...++..+|++.++++
T Consensus       120 ~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~---dp-~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        120 QALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER---DP-TVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc---Cc-chHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            999999998763   4566777888899999999999999999885   22 3444555555555567777799999999


Q ss_pred             cccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCC-
Q 036340          186 PVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-DTFSWNTMISGYIHVLDMEEASNLFVKMPHPD-  263 (579)
Q Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  263 (579)
                      ..        . .+.+...+..+..++.+.|-...|.++..+-.+- +...+..+        ..+.+.+..+....++ 
T Consensus       196 l~--------~-~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l--------~~~~~a~~vr~a~~~~~  258 (822)
T PRK14574        196 VR--------L-APTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL--------ERDAAAEQVRMAVLPTR  258 (822)
T ss_pred             HH--------h-CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH--------HHHHHHHHHhhcccccc
Confidence            82        2 2446778889999999999999999988875431 11111111        1112222222211010 


Q ss_pred             h--hhHHHHHHHHHhcCCHHHHHHHHccCCC-----CChh-----hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChh
Q 036340          264 T--LTWNAMVSGYAQIGNLELALDFFKRMPQ-----KNLV-----SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRH  331 (579)
Q Consensus       264 ~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~-----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  331 (579)
                      .  .-|.          -.+.|+.-++.+..     |...     ...-.+.++...|++.++++.|+.+...+......
T Consensus       259 ~~~~r~~----------~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y  328 (822)
T PRK14574        259 SETERFD----------IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDY  328 (822)
T ss_pred             cchhhHH----------HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHH
Confidence            0  0010          12233333333222     2111     12234556777888888888888888887665666


Q ss_pred             hHHHHHHhccCCCchhhHHHHHHHH-hhc-----CCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC-CC----------
Q 036340          332 TFSSILSMSSGIVDLHLGMQIHQMV-TKT-----VIPDVPINNALITMYARCGAIVEARIIFEEMKL-LK----------  394 (579)
Q Consensus       332 ~~~~l~~~~~~~~~~~~a~~~~~~~-~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~----------  394 (579)
                      +-..+..+|...+.+++|..++... ...     .+++......|..+|...+++++|..+++.+.. .|          
T Consensus       329 ~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~  408 (822)
T PRK14574        329 ARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPG  408 (822)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCC
Confidence            7778888888888888888888873 221     233444457899999999999999999999862 33          


Q ss_pred             ---Cee---eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-C
Q 036340          395 ---NVV---SWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-R  466 (579)
Q Consensus       395 ---~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~  466 (579)
                         ++.   .+..++..+...|+..+|++.++++...  .| |......+...+...|.+.+|.+.++.+.   .+.| +
T Consensus       409 ~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~---~l~P~~  483 (822)
T PRK14574        409 KEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVE---SLAPRS  483 (822)
T ss_pred             CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh---hhCCcc
Confidence               110   1344677788899999999999999864  45 55688889999999999999999997765   4466 5


Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHH
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLG  507 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~  507 (579)
                      ..+....+.++...|++.+|..+.+.+ ...|+......+-+
T Consensus       484 ~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~r  525 (822)
T PRK14574        484 LILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQELDR  525 (822)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHHHHHH
Confidence            677778889999999999999998877 34555544444443

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.82  E-value=1e-15  Score=141.41  Aligned_cols=485  Identities=14%  Similarity=0.128  Sum_probs=386.3

Q ss_pred             HHHccCCHHHHHHHhhcCCC---CchhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHH
Q 036340           69 GYAKTGEMEEALRLFNSMPA---RNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAA  142 (579)
Q Consensus        69 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~  142 (579)
                      +.....+.++|..++.+..+   .+...|    .++.+..-++.|..++++..+   .++..|..-...--.+|+.+...
T Consensus       385 aAVelE~~~darilL~rAveccp~s~dLw----lAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~  460 (913)
T KOG0495|consen  385 AAVELEEPEDARILLERAVECCPQSMDLW----LALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVE  460 (913)
T ss_pred             HHHhccChHHHHHHHHHHHHhccchHHHH----HHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHH
Confidence            33445566667777777662   333333    455666677778877776644   57788887777778899999988


Q ss_pred             HHHHHhccCC--CCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc--chHHHHHHHHHHHhcCCH
Q 036340          143 RVLVKCGSRC--DGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR--NIVSWNSMIMCYAKAGDV  218 (579)
Q Consensus       143 ~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~  218 (579)
                      +++.+.+...  .|..-+...|..=...|-..|..-.+..+....+        ..|+..  -..+|+.-...|.+.+.+
T Consensus       461 kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avi--------gigvEeed~~~tw~~da~~~~k~~~~  532 (913)
T KOG0495|consen  461 KIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVI--------GIGVEEEDRKSTWLDDAQSCEKRPAI  532 (913)
T ss_pred             HHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHH--------hhccccchhHhHHhhhHHHHHhcchH
Confidence            8887754321  1556666778888888888999999988888887        334432  366899999999999999


Q ss_pred             HHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC
Q 036340          219 VSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ  292 (579)
Q Consensus       219 ~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  292 (579)
                      +-|..+|...++-   +...|...+..--..|..+.-..+|+++.   +.....|......+-..|+...|..++..+.+
T Consensus       533 ~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~  612 (913)
T KOG0495|consen  533 ECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFE  612 (913)
T ss_pred             HHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            9999999988774   45667777777777899999999999887   34445566666777888999999999998876


Q ss_pred             --C-ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHH
Q 036340          293 --K-NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNA  369 (579)
Q Consensus       293 --~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  369 (579)
                        | +...|..-+.....+.+++.|..+|.+...  ..|+...|..-+......++.+.|.++++...+.++.-...|..
T Consensus       613 ~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~fp~f~Kl~lm  690 (913)
T KOG0495|consen  613 ANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKSFPDFHKLWLM  690 (913)
T ss_pred             hCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhCCchHHHHHH
Confidence              3 344777778888899999999999998865  56778888887777788899999999998888889999999999


Q ss_pred             HHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCc
Q 036340          370 LITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGL  446 (579)
Q Consensus       370 l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~  446 (579)
                      +.+.+.+.++.+.|...|..-. .-| .+..|..|...--+.|.+-+|..++++..-.  .| +...|...++.-.+.|.
T Consensus       691 lGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk--NPk~~~lwle~Ir~ElR~gn  768 (913)
T KOG0495|consen  691 LGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK--NPKNALLWLESIRMELRAGN  768 (913)
T ss_pred             HhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc--CCCcchhHHHHHHHHHHcCC
Confidence            9999999999999999887643 344 4556777777778889999999999998754  45 45588899999999999


Q ss_pred             HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          447 VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       447 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      .+.|..++.+++++  .+.+...|..-+.+..+.++-.++.+.+++..  .|+.....+...+....+++.|..-|++++
T Consensus       769 ~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Rav  844 (913)
T KOG0495|consen  769 KEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAV  844 (913)
T ss_pred             HHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999875  34456777788888888888888888888875  466777788888888899999999999999


Q ss_pred             hcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCCcceeeEe
Q 036340          527 KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVDF  575 (579)
Q Consensus       527 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  575 (579)
                      +.+|++..+|..+...+.+.|.-++-.+++++...  -.|+-|..|..+
T Consensus       845 k~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~--~EP~hG~~W~av  891 (913)
T KOG0495|consen  845 KKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCET--AEPTHGELWQAV  891 (913)
T ss_pred             ccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhc--cCCCCCcHHHHH
Confidence            99999999999999999999998999999988764  346677777654

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.81  E-value=5.8e-16  Score=148.66  Aligned_cols=546  Identities=14%  Similarity=0.127  Sum_probs=317.2

Q ss_pred             hhcCCCHHHHHHHhccCCC---CchhHHHHHHHHHHHcCCCCChHHHHHHHhhC---CCCCcchHHHHHHHHHccCCHHH
Q 036340            5 YVKRREMAKARKLFDEMPQ---RDVVSWNVMISGYISSRGSGFLEEARYLFDIM---PERDCVTWNTVISGYAKTGEMEE   78 (579)
Q Consensus         5 ~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~   78 (579)
                      +.-+|++++|.+++.++.+   .++.+|..|...|-..|+   .+++...+--+   .+.|...|..+.....+.|++++
T Consensus       149 lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd---~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGD---IEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHccc---HHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHH
Confidence            4455999999999999886   457799999999999888   99998765443   36677889999999999999999


Q ss_pred             HHHHhhcCCC---CchhhHHHHHHHHHhcCChhhHHHHHccCCCCCc--------chHHHHHHHHHhCCCHHHHHHHHHH
Q 036340           79 ALRLFNSMPA---RNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDS--------ASLSALVSGLIQNGELDEAARVLVK  147 (579)
Q Consensus        79 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~A~~~~~~  147 (579)
                      |.-+|.++.+   ++....-.-+..|-+.|+...|.+.|.++.+.++        ......+..+...++-+.|.+.++.
T Consensus       226 A~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  226 ARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            9999999884   3434444567889999999999999998866433        2233456667778888999999998


Q ss_pred             hccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCC-------------------CCCCccCCcchHHHHHH
Q 036340          148 CGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDR-------------------GEGNVRFKRNIVSWNSM  208 (579)
Q Consensus       148 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~l  208 (579)
                      ....+ ....+...++.++..+.+...++.+.............                   -.-..++.++..+. .+
T Consensus       306 ~~s~~-~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl  383 (895)
T KOG2076|consen  306 ALSKE-KDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RL  383 (895)
T ss_pred             HHhhc-cccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hH
Confidence            87743 34445567889999999999999988877766530000                   00012233333331 11


Q ss_pred             HHHHHhc--CCHHHHHHHHHhcCC----CChhHHHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcC
Q 036340          209 IMCYAKA--GDVVSAREIFEQMLE----RDTFSWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIG  278 (579)
Q Consensus       209 ~~~~~~~--~~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g  278 (579)
                      +-++.+.  ++..+++..+-....    .++..|..+..++...|++.+|+.+|..+.    -.+..+|-.++.+|...|
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~  463 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELG  463 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHh
Confidence            2222222  333333322221111    134456666666777777777777766665    223456666666777777


Q ss_pred             CHHHHHHHHccCCCCCh---hhHHHHHHHHHhCCCchHHHHHHHHHHHc--------CCCCChhhHHHHHHhccCCCchh
Q 036340          279 NLELALDFFKRMPQKNL---VSWNSMIAGCETNKDYEGAIKLFIQMQVE--------GEKPDRHTFSSILSMSSGIVDLH  347 (579)
Q Consensus       279 ~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~  347 (579)
                      .+++|...|+.+...++   ..--.|...+.+.|++++|.+.++.+...        +..|+..........+...|+.+
T Consensus       464 e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E  543 (895)
T KOG2076|consen  464 EYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKRE  543 (895)
T ss_pred             hHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHH
Confidence            77777777766654222   23334445566667777766666664311        12222222222222333333322


Q ss_pred             hHHHH----HHH------------------------------------------------------------HhhcCCC-
Q 036340          348 LGMQI----HQM------------------------------------------------------------VTKTVIP-  362 (579)
Q Consensus       348 ~a~~~----~~~------------------------------------------------------------~~~~~~~-  362 (579)
                      .-..+    ...                                                            ...+..- 
T Consensus       544 ~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsid  623 (895)
T KOG2076|consen  544 EFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSID  623 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHH
Confidence            21110    000                                                            0000000 


Q ss_pred             Cc-hHHHHHHHHhhhcCCHHHHHHHHHhcc-----CCCCe---eeHHHHHHHHHhcCChHHHHHHHHHhHhC-C--CCCC
Q 036340          363 DV-PINNALITMYARCGAIVEARIIFEEMK-----LLKNV---VSWNAMIGGCASHGFATEALELFKSMRSF-K--VLPT  430 (579)
Q Consensus       363 ~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~--~~p~  430 (579)
                      +. ..+..++..+++.+++++|..+...+.     ..++.   ..-...+.+.+..+++..|...++.|... +  ..|.
T Consensus       624 dwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~  703 (895)
T KOG2076|consen  624 DWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVY  703 (895)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhH
Confidence            11 234456677778888888888776653     11111   11233445556678888888888877753 1  1122


Q ss_pred             hh-hHHHHHHHh-----------------------------------cccCcHHHHHHHHHHhHHhhCCCCCcchhH-HH
Q 036340          431 YI-TFISVLSAC-----------------------------------AHAGLVEEGRQHFKSMVNEYGIEPRIEHFA-SL  473 (579)
Q Consensus       431 ~~-~~~~l~~~~-----------------------------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l  473 (579)
                      .. .|+..++..                                   ...+.+..|+..+-.+...   .|+....+ .+
T Consensus       704 q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~---~pd~Pl~nl~l  780 (895)
T KOG2076|consen  704 QLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQ---NPDSPLINLCL  780 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHh---CCCCcHHHHHH
Confidence            11 222111111                                   1234455565555544432   34322222 22


Q ss_pred             HHHhh----------ccCChHHHHHHHHhCC--CCC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC-----
Q 036340          474 VDIVG----------RHGRLEDAMDLIKGMP--FEP--DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST-----  534 (579)
Q Consensus       474 ~~~~~----------~~g~~~~A~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~-----  534 (579)
                      +-++.          |.-..-....++++..  -.+  ....+-+++++|...|-..-|..+|+++++..|.+..     
T Consensus       781 glafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p~~~~~~~~d  860 (895)
T KOG2076|consen  781 GLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSPKDVTDPKED  860 (895)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCccccccccCC
Confidence            22211          1111223344443331  112  3456677788888888888888888888887654321     


Q ss_pred             -------CchhhhhhhhhcCCchHHHHHHHH
Q 036340          535 -------PYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       535 -------~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                             +-..|..+|...|+.+.|..++++
T Consensus       861 ~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  861 NYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             cccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence                   244666788888888888887765

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.80  E-value=1.7e-17  Score=146.52  Aligned_cols=465  Identities=16%  Similarity=0.135  Sum_probs=288.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHhhcCCC----CchhhH-HHHHHHHHhcCChhhHHHHHccCCCC----Cc----chHHHHH
Q 036340           63 WNTVISGYAKTGEMEEALRLFNSMPA----RNVVSW-NAMISGFLQNGDVANAIEFFDRMPGR----DS----ASLSALV  129 (579)
Q Consensus        63 ~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~-~~l~~~~~~~~~~~~A~~~~~~~~~~----~~----~~~~~l~  129 (579)
                      +..|..-|.....+.+|+..++-+.+    ||.... -.+.+.+.+..++.+|+.+++.....    +.    ...+.+.
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nig  283 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIG  283 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcC
Confidence            44555667777888999999988773    443322 23557889999999999999876542    22    2344455


Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccC----CcchHHH
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRF----KRNIVSW  205 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~----~~~~~~~  205 (579)
                      -.+.+.|.+++|+..|+.+.+.    .|+..+-..|+-++...|+.++..+.|.+++........+.-+    .|+....
T Consensus       284 vtfiq~gqy~dainsfdh~m~~----~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  284 VTFIQAGQYDDAINSFDHCMEE----APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             eeEEecccchhhHhhHHHHHHh----CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            5678999999999999999874    3444444445556667899999999999987443222111111    2333333


Q ss_pred             HHHH-----HHHHhcC--CHHHHHHHHHhcCC----CChhH-HHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHH
Q 036340          206 NSMI-----MCYAKAG--DVVSAREIFEQMLE----RDTFS-WNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSG  273 (579)
Q Consensus       206 ~~l~-----~~~~~~~--~~~~A~~~~~~~~~----~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~  273 (579)
                      +.-+     .-+.+.+  +.++++-.-.+++.    ++... +..-+..+-.....+.|..+         .  ..-.--
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dl---------e--i~ka~~  428 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDL---------E--INKAGE  428 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhh---------h--hhHHHH
Confidence            3222     1122211  22233222222222    22110 11111111111111111100         0  001123


Q ss_pred             HHhcCCHHHHHHHHccCCCCChhhH----HHHH-HHHHh-CCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchh
Q 036340          274 YAQIGNLELALDFFKRMPQKNLVSW----NSMI-AGCET-NKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLH  347 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~~~~~~~~~----~~l~-~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  347 (579)
                      +.+.|+++.|.++++-..+.|..+-    +.|- .-|.+ ..++..|..+-+..+... +-+......-.......|+++
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHH
Confidence            4556666666666655554332221    1111 11111 234444544444333211 112222222222334456666


Q ss_pred             hHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhC
Q 036340          348 LGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSF  425 (579)
Q Consensus       348 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  425 (579)
                      .|...++...............+.-.+...|++++|+..|-.+.  ...+..+...+...|-...+..+|++++.+..+ 
T Consensus       508 ka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~s-  586 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS-  586 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc-
Confidence            66666666443333334444445566778899999999998775  345666677778888888999999999988874 


Q ss_pred             CCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHH
Q 036340          426 KVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVW  502 (579)
Q Consensus       426 ~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~  502 (579)
                       +.| |+..+..|...|-+.|+-.+|.+++-.-   +..-| +.++...|+.-|....-+++|+.+|++. -+.|+..-|
T Consensus       587 -lip~dp~ilskl~dlydqegdksqafq~~yds---yryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kw  662 (840)
T KOG2003|consen  587 -LIPNDPAILSKLADLYDQEGDKSQAFQCHYDS---YRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKW  662 (840)
T ss_pred             -cCCCCHHHHHHHHHHhhcccchhhhhhhhhhc---ccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHH
Confidence             455 5558889999999999999999886543   34445 8899999999999999999999999998 478999999


Q ss_pred             HHHHHHH-hhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          503 GALLGAC-RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       503 ~~l~~~~-~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ..++..| .+.|++.+|...|+......|.+...+..|+.++...|.
T Consensus       663 qlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  663 QLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9888665 567999999999999999999999999999999888885

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.78  E-value=1.4e-14  Score=139.37  Aligned_cols=509  Identities=12%  Similarity=0.096  Sum_probs=252.3

Q ss_pred             hHHHHHHHhhCCC---CCcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCC
Q 036340           45 LEEARYLFDIMPE---RDCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMP  118 (579)
Q Consensus        45 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  118 (579)
                      +++|..++.++.+   .++..|..|...|-++|+.+++...+-.+.   +.|..-|..+.....+.|++++|.-.|.+..
T Consensus       155 ~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI  234 (895)
T KOG2076|consen  155 LEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAI  234 (895)
T ss_pred             HHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            6777666666652   344566666666766676666665543322   4445566666666666666777766666665


Q ss_pred             CCCc---chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhh----HHHHHHHHhhCCCHHHHHHHHccccccCCC
Q 036340          119 GRDS---ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRA----YNTLIVGYGQRGRVEEARKLFDKIPVNCDR  191 (579)
Q Consensus       119 ~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  191 (579)
                      +.++   .....-...|.+.|+...|.+.|.++...  .+|.+..-    -..+++.+...++-+.|.+.++....    
T Consensus       235 ~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~--~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s----  308 (895)
T KOG2076|consen  235 QANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQL--DPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS----  308 (895)
T ss_pred             hcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhh--CCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh----
Confidence            4333   23333445566666776676666666664  22222221    22334455556666666666666651    


Q ss_pred             CCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC----CChh----------------------HHH----HHHH
Q 036340          192 GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE----RDTF----------------------SWN----TMIS  241 (579)
Q Consensus       192 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~----------------------~~~----~l~~  241 (579)
                         ..+-..+...++.++..+.+...++.+.........    +|..                      +|.    .+.-
T Consensus       309 ---~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  309 ---KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             ---hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence               111123344556666666666666666655544422    1100                      000    1111


Q ss_pred             HHHhc--CChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC----CChhhHHHHHHHHHhCCCc
Q 036340          242 GYIHV--LDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ----KNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       242 ~~~~~--~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~  311 (579)
                      ++...  ++..+++..+..-.    ..+...|.-+..+|...|++.+|+.+|..+..    .+...|-.+..+|...|.+
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            12222  22222222221111    12334555566666666666666666666654    2344566666666666666


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH---------HhhcCCCCchHHHHHHHHhhhcCCHHH
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM---------VTKTVIPDVPINNALITMYARCGAIVE  382 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---------~~~~~~~~~~~~~~l~~~~~~~~~~~~  382 (579)
                      +.|++.|+..+..... +...-..+...+...|+.++|.+.+..         ......|+..+.......+...|+.++
T Consensus       466 e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~  544 (895)
T KOG2076|consen  466 EEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            6666666666553211 222333444455566666666665554         112233444444455555566666555


Q ss_pred             HHHHHHhcc--------CCC-----------------CeeeHHHHHHHHHhcCChHHHHHH------HHHhHhCCCCCCh
Q 036340          383 ARIIFEEMK--------LLK-----------------NVVSWNAMIGGCASHGFATEALEL------FKSMRSFKVLPTY  431 (579)
Q Consensus       383 A~~~~~~~~--------~~~-----------------~~~~~~~l~~~~~~~~~~~~A~~~------~~~~~~~~~~p~~  431 (579)
                      =..+-.++.        .-|                 .......++.+-.+.++......-      +.--...|+.-+.
T Consensus       545 fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsidd  624 (895)
T KOG2076|consen  545 FINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDD  624 (895)
T ss_pred             HHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHH
Confidence            333322221        000                 000111112222221111111000      0000111222222


Q ss_pred             h--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh----HHHHHHhhccCChHHHHHHHHhC--C----CCC-C
Q 036340          432 I--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF----ASLVDIVGRHGRLEDAMDLIKGM--P----FEP-D  498 (579)
Q Consensus       432 ~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~--~----~~~-~  498 (579)
                      .  .+..++.++++.+++++|..+...+....-+..+...-    ...+.+-...+++..|...++.+  .    ..| -
T Consensus       625 wfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q  704 (895)
T KOG2076|consen  625 WFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQ  704 (895)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHH
Confidence            1  34445556777777888877777766543333333321    23334455677777777777766  1    123 2


Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC-CCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          499 KAVWGALLGACRVHNNVELAQVAAEALMKVEPEN-STPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       499 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ...|+.......+.++-.--.+.+..+....|++ +......+..+...+.|..|+..+-++-..+
T Consensus       705 ~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~  770 (895)
T KOG2076|consen  705 LNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQN  770 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhC
Confidence            2344444444555555444445555555556665 3334444556667777777777766655444

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.77  E-value=1.8e-14  Score=133.47  Aligned_cols=415  Identities=11%  Similarity=0.081  Sum_probs=304.0

Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHH
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMI  209 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  209 (579)
                      .+.....+.+.|..++.++.+   -.|.+...|.    ++.+..-++.|.++++++.         ..++.+...|.+..
T Consensus       384 KaAVelE~~~darilL~rAve---ccp~s~dLwl----AlarLetYenAkkvLNkaR---------e~iptd~~IWitaa  447 (913)
T KOG0495|consen  384 KAAVELEEPEDARILLERAVE---CCPQSMDLWL----ALARLETYENAKKVLNKAR---------EIIPTDREIWITAA  447 (913)
T ss_pred             HHHHhccChHHHHHHHHHHHH---hccchHHHHH----HHHHHHHHHHHHHHHHHHH---------hhCCCChhHHHHHH
Confidence            344456667778888888877   5565555554    4455567788888888885         35677788888888


Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--------CChhHHHHHHHHHHhcCChHHHHHHhhcCC------CCChhhHHHHHHHHH
Q 036340          210 MCYAKAGDVVSAREIFEQMLE--------RDTFSWNTMISGYIHVLDMEEASNLFVKMP------HPDTLTWNAMVSGYA  275 (579)
Q Consensus       210 ~~~~~~~~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------~~~~~~~~~l~~~~~  275 (579)
                      ..--.+|+.+...+++++-+.        -+...|..=...+-..|..--+..+.....      ..-..||..-...|.
T Consensus       448 ~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~  527 (913)
T KOG0495|consen  448 KLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCE  527 (913)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHH
Confidence            888888888888888776532        144455555555555565555555554443      222357777777888


Q ss_pred             hcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHH
Q 036340          276 QIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQI  352 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  352 (579)
                      +.+.++-|..+|....+   .+...|...+..--..|..+.-..+|++....- +-....+.......-..|+...|+.+
T Consensus       528 k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~i  606 (913)
T KOG0495|consen  528 KRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVI  606 (913)
T ss_pred             hcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHH
Confidence            88888888888887776   345567777766667788888888888887653 22334444444566677888888888


Q ss_pred             HHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh
Q 036340          353 HQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY  431 (579)
Q Consensus       353 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  431 (579)
                      +...-...+.+..++..-+........++.|..+|.+.. ..|+...|.--+....-.++.++|++++++.++  ..|+.
T Consensus       607 l~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk--~fp~f  684 (913)
T KOG0495|consen  607 LDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALK--SFPDF  684 (913)
T ss_pred             HHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH--hCCch
Confidence            888666666788888888888889999999999998875 567777787777777778889999999988885  46776


Q ss_pred             h-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 036340          432 I-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALLGA  508 (579)
Q Consensus       432 ~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~  508 (579)
                      . .|..+.+.+.+.++.+.|...|..-.+.  .+..+..|..|+..-.+.|...+|..++++.  ..+-+...|...++.
T Consensus       685 ~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~  762 (913)
T KOG0495|consen  685 HKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRM  762 (913)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHH
Confidence            6 7777778888899999998888766532  2335678888888888888999999999887  334477888889998


Q ss_pred             HhhcCCHHHHHHHHHHHhhcCCCC------------------------------CCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          509 CRVHNNVELAQVAAEALMKVEPEN------------------------------STPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       509 ~~~~~~~~~A~~~~~~~~~~~p~~------------------------------~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      -.+.|+.+.|.....++++-.|.+                              +..+...+..+....++++|++-|.+
T Consensus       763 ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~R  842 (913)
T KOG0495|consen  763 ELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFER  842 (913)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            889999999998888888755543                              33455667777778888899999988


Q ss_pred             HHhCCCC
Q 036340          559 MKSNNIK  565 (579)
Q Consensus       559 ~~~~~~~  565 (579)
                      ..+.+..
T Consensus       843 avk~d~d  849 (913)
T KOG0495|consen  843 AVKKDPD  849 (913)
T ss_pred             HHccCCc
Confidence            8765543

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.77  E-value=2.4e-17  Score=145.60  Aligned_cols=443  Identities=13%  Similarity=0.075  Sum_probs=291.3

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      ...+...|..+....+|+..++-+++.. ..|.....-..++..+.+..++.+|+++|+......++..+    ......
T Consensus       204 l~nlaqqy~~ndm~~ealntyeiivknk-mf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink----~~riki  278 (840)
T KOG2003|consen  204 LFNLAQQYEANDMTAEALNTYEIIVKNK-MFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINK----DMRIKI  278 (840)
T ss_pred             HHHHHHHhhhhHHHHHHhhhhhhhhccc-ccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccch----hhHHHH
Confidence            3345566666677778888887776652 33433344456677788888888888888776632111110    112344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCChHHHHHHhhcCC----------------CCChhh
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLE--RDTFSWNTMISGYIHVLDMEEASNLFVKMP----------------HPDTLT  266 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----------------~~~~~~  266 (579)
                      .+.+.-.+.+.|+++.|+..|+...+  |+..+-..++-++...|+.++..+.|.++.                .|+...
T Consensus       279 l~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~l  358 (840)
T KOG2003|consen  279 LNNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNL  358 (840)
T ss_pred             HhhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHH
Confidence            55556667788888888888887755  455555566667777788888888887775                122222


Q ss_pred             HHHHH-----HHHHhcCC--HHHHH----HHHccCCCCChhh---H----------H--------HHHHHHHhCCCchHH
Q 036340          267 WNAMV-----SGYAQIGN--LELAL----DFFKRMPQKNLVS---W----------N--------SMIAGCETNKDYEGA  314 (579)
Q Consensus       267 ~~~l~-----~~~~~~g~--~~~A~----~~~~~~~~~~~~~---~----------~--------~l~~~~~~~~~~~~a  314 (579)
                      .+..+     .-.-+.++  .++++    +++.-+..|+...   |          .        .-...+.++|+++.|
T Consensus       359 l~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~a  438 (840)
T KOG2003|consen  359 LNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGA  438 (840)
T ss_pred             HHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHH
Confidence            22222     11111111  12221    2222222232110   1          1        112347889999999


Q ss_pred             HHHHHHHHHcCCCCChhhHHHH--HHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC
Q 036340          315 IKLFIQMQVEGEKPDRHTFSSI--LSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKL  392 (579)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  392 (579)
                      +++++-..+...+.....-+.+  +..+....++..|.++-+.......-++.....-.+.....|++++|.+.|++.. 
T Consensus       439 ieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal-  517 (840)
T KOG2003|consen  439 IEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEAL-  517 (840)
T ss_pred             HHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHH-
Confidence            9999888765544333333333  3333445667777777666444444555555444555566799999999999987 


Q ss_pred             CCCeeeHHHH---HHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcc
Q 036340          393 LKNVVSWNAM---IGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIE  468 (579)
Q Consensus       393 ~~~~~~~~~l---~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  468 (579)
                      ..|...-..|   .-.+-..|+.++|++.|-++.  ++-. +...+..+...|....+..+|++++.+...  -++.|+.
T Consensus       518 ~ndasc~ealfniglt~e~~~~ldeald~f~klh--~il~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~  593 (840)
T KOG2003|consen  518 NNDASCTEALFNIGLTAEALGNLDEALDCFLKLH--AILLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPA  593 (840)
T ss_pred             cCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHH--HHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHH
Confidence            4444433333   334667899999999999887  4333 445777888899999999999999987752  3444788


Q ss_pred             hhHHHHHHhhccCChHHHHHHHH-hCCC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIK-GMPF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV  546 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~-~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  546 (579)
                      +...|++.|-+.|+...|.+..- .... +.+..+...+...|....-+++|+..|+++.-+.|+...+...++.++.+.
T Consensus       594 ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrs  673 (840)
T KOG2003|consen  594 ILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRS  673 (840)
T ss_pred             HHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhc
Confidence            99999999999999999998654 4453 447888888888888888999999999999999999887666667778899


Q ss_pred             CCchHHHHHHHHHHhCCCCCCCcceeeEeccC
Q 036340          547 GRWDDANEVRLLMKSNNIKKPTGYSWVDFSPC  578 (579)
Q Consensus       547 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  578 (579)
                      |+|++|..+++.+.+ .++.+-.|.-..+..|
T Consensus       674 gnyqka~d~yk~~hr-kfpedldclkflvri~  704 (840)
T KOG2003|consen  674 GNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIA  704 (840)
T ss_pred             ccHHHHHHHHHHHHH-hCccchHHHHHHHHHh
Confidence            999999999999865 3444444444444444

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.75  E-value=4.5e-15  Score=132.70  Aligned_cols=215  Identities=15%  Similarity=0.077  Sum_probs=166.4

Q ss_pred             cCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHH
Q 036340          341 SGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALEL  418 (579)
Q Consensus       341 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~  418 (579)
                      .-.|+.-.+..-++..-...+.+...|-.+..+|....+.++....|....  .+.++.+|.--...+.-.+++++|..=
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aD  416 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIAD  416 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHH
Confidence            345666666666666444445455557778888888888888888888775  345677787777778888889999999


Q ss_pred             HHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC
Q 036340          419 FKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE  496 (579)
Q Consensus       419 ~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  496 (579)
                      |++.++  +.|+.. .|.-+..+..++++++++...|++..++  ++..+++|+..++++..++++++|.+.|+.. ...
T Consensus       417 F~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  417 FQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            999884  567544 7777777778889999999999999764  4557788999999999999999999999876 333


Q ss_pred             CC---------HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          497 PD---------KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       497 ~~---------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      |.         +.+...++ .+.-.+++..|+.+++++.+++|....++..|+.+..++|+.++|+++|++..
T Consensus       493 ~~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             cccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33         22222222 23345899999999999999999999999999999999999999999998754

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.74  E-value=5.9e-14  Score=125.12  Aligned_cols=419  Identities=12%  Similarity=0.107  Sum_probs=209.0

Q ss_pred             hcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHH
Q 036340          103 QNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEAR  179 (579)
Q Consensus       103 ~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  179 (579)
                      .++++..|..+|++...   .+...|...+..-.++..+..|..++++++.   ..|.-...|...+.+--..|++..|.
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt---~lPRVdqlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVT---ILPRVDQLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHH---hcchHHHHHHHHHHHHHHhcccHHHH
Confidence            34444444444444433   2333344444444444455555555555444   22322333433333334444555555


Q ss_pred             HHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc--CCCChhHHHHHHHHHHhcCChHHHHHHhh
Q 036340          180 KLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM--LERDTFSWNTMISGYIHVLDMEEASNLFV  257 (579)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (579)
                      ++|++..          ...|+...|++.++.-.+.+.++.|..+|++.  ..|++.+|-..+.--.+.|+...+..+|+
T Consensus       162 qiferW~----------~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vye  231 (677)
T KOG1915|consen  162 QIFERWM----------EWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYE  231 (677)
T ss_pred             HHHHHHH----------cCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            5554443          23445555555555555555555555555443  23444444444444444455444444444


Q ss_pred             cCC------CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--C---ChhhHHHHHHHHHhCCCchHHHHH--------H
Q 036340          258 KMP------HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--K---NLVSWNSMIAGCETNKDYEGAIKL--------F  318 (579)
Q Consensus       258 ~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~l~~~~~~~~~~~~a~~~--------~  318 (579)
                      .+.      ..+...+.+....-.++..++.|.-+|+-..+  |   ....|......--+-|+.....+.        |
T Consensus       232 rAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qY  311 (677)
T KOG1915|consen  232 RAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQY  311 (677)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHH
Confidence            443      01112233333333334445555555443332  1   122233333322333443322222        2


Q ss_pred             HHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCch-------HHHHHH---HHhhhcCCHHHHHHHHH
Q 036340          319 IQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVP-------INNALI---TMYARCGAIVEARIIFE  388 (579)
Q Consensus       319 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~l~---~~~~~~~~~~~A~~~~~  388 (579)
                      +.++..+ .-|-.++-..+......|+.+...++++..-..+||-..       +|.-+=   -.-....+.+.+.++|+
T Consensus       312 E~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq  390 (677)
T KOG1915|consen  312 EKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQ  390 (677)
T ss_pred             HHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            2222221 223334444444444555555555555554444444211       111111   11123466677777776


Q ss_pred             hcc--CCCCeeeH----HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhC
Q 036340          389 EMK--LLKNVVSW----NAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYG  462 (579)
Q Consensus       389 ~~~--~~~~~~~~----~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  462 (579)
                      ...  ++....++    .....-..++.+...|.+++...+  |.-|...+|...|..-.+.++++....+|++.+   .
T Consensus       391 ~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfl---e  465 (677)
T KOG1915|consen  391 ACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFL---E  465 (677)
T ss_pred             HHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH---h
Confidence            553  22333343    333333456677777777777777  667777777777777777777888888877776   3


Q ss_pred             CCC-CcchhHHHHHHhhccCChHHHHHHHHhCCCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCch
Q 036340          463 IEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYV  537 (579)
Q Consensus       463 ~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  537 (579)
                      ..| +..+|...+..-...|+.+.|..+|.-+-..|.    ...|...+.--...|.++.|..+|+++++..+-.. .|.
T Consensus       466 ~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k-vWi  544 (677)
T KOG1915|consen  466 FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK-VWI  544 (677)
T ss_pred             cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch-HHH
Confidence            345 566777777777777888888777776643442    23455555555667778888888888776665533 344


Q ss_pred             hhhh
Q 036340          538 LLYN  541 (579)
Q Consensus       538 ~l~~  541 (579)
                      ..+.
T Consensus       545 sFA~  548 (677)
T KOG1915|consen  545 SFAK  548 (677)
T ss_pred             hHHH
Confidence            4443

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.71  E-value=2.5e-13  Score=121.17  Aligned_cols=449  Identities=15%  Similarity=0.128  Sum_probs=334.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHhhcCCC---CchhhHHHHHHHHHhcCChhhHHHHHccCCC--CC-cchHHHHHHHHHhC
Q 036340           62 TWNTVISGYAKTGEMEEALRLFNSMPA---RNVVSWNAMISGFLQNGDVANAIEFFDRMPG--RD-SASLSALVSGLIQN  135 (579)
Q Consensus        62 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~  135 (579)
                      .|.....--..++++..|..+|+++..   .+...|.-.+..=.++..+..|..++++...  |. ...|...+.+--..
T Consensus        75 ~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~L  154 (677)
T KOG1915|consen   75 VWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEML  154 (677)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHh
Confidence            333444444456788899999999984   4556777788888999999999999998764  32 34677777777889


Q ss_pred             CCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhc
Q 036340          136 GELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKA  215 (579)
Q Consensus       136 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  215 (579)
                      |++..|.++|++...-    .|+..+|.+.+..-.+-..++.|..+|++..          -+.|++.+|.-.+..-.+.
T Consensus       155 gNi~gaRqiferW~~w----~P~eqaW~sfI~fElRykeieraR~IYerfV----------~~HP~v~~wikyarFE~k~  220 (677)
T KOG1915|consen  155 GNIAGARQIFERWMEW----EPDEQAWLSFIKFELRYKEIERARSIYERFV----------LVHPKVSNWIKYARFEEKH  220 (677)
T ss_pred             cccHHHHHHHHHHHcC----CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHh----------eecccHHHHHHHHHHHHhc
Confidence            9999999999998864    7888999999999999999999999999987          4579999999999999999


Q ss_pred             CCHHHHHHHHHhcCCC------ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCC--hhhHHHHHHHHHhcCCHHHHH
Q 036340          216 GDVVSAREIFEQMLER------DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPD--TLTWNAMVSGYAQIGNLELAL  284 (579)
Q Consensus       216 ~~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~--~~~~~~l~~~~~~~g~~~~A~  284 (579)
                      |+...|..+|+..++.      +...+.+.+.--.+...++.|..+|+-..   +.+  ...|..+...--+-|+.....
T Consensus       221 g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIE  300 (677)
T KOG1915|consen  221 GNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIE  300 (677)
T ss_pred             CcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhH
Confidence            9999999999988663      23345555555566778888888887666   222  345666665555566654444


Q ss_pred             HHHc--------cCCCC---ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCCh-------hhHHHHHHhc---cCC
Q 036340          285 DFFK--------RMPQK---NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDR-------HTFSSILSMS---SGI  343 (579)
Q Consensus       285 ~~~~--------~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~---~~~  343 (579)
                      +..-        .....   |-.+|-..+..-...|+.+...++|++.+.. ++|-.       ..|..+=-++   ...
T Consensus       301 d~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~  379 (677)
T KOG1915|consen  301 DAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEA  379 (677)
T ss_pred             HHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3332        22223   4456777777778889999999999999864 44421       1222221222   367


Q ss_pred             CchhhHHHHHHHHhhcCCCCchHHHHHHHHh----hhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHH
Q 036340          344 VDLHLGMQIHQMVTKTVIPDVPINNALITMY----ARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALEL  418 (579)
Q Consensus       344 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~  418 (579)
                      .+.+...++++....-+|....+|..+--+|    .++.++..|.+++.... ..|...++...|..-.+.++++.+..+
T Consensus       380 ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkL  459 (677)
T KOG1915|consen  380 EDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKL  459 (677)
T ss_pred             hhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHH
Confidence            8899999999996667777777766555444    46789999999998764 678888899999999999999999999


Q ss_pred             HHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC
Q 036340          419 FKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE  496 (579)
Q Consensus       419 ~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  496 (579)
                      +++.++-  .| +..+|......-...|+.+.|..+|+-++....+......+...+..-...|.+++|..+++.+ ...
T Consensus       460 YEkfle~--~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt  537 (677)
T KOG1915|consen  460 YEKFLEF--SPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRT  537 (677)
T ss_pred             HHHHHhc--ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhc
Confidence            9999965  45 4558888877778899999999999998875333333445666666667899999999999987 334


Q ss_pred             CCHHHHHHHHHHHh-----hcC-----------CHHHHHHHHHHHhh
Q 036340          497 PDKAVWGALLGACR-----VHN-----------NVELAQVAAEALMK  527 (579)
Q Consensus       497 ~~~~~~~~l~~~~~-----~~~-----------~~~~A~~~~~~~~~  527 (579)
                      +...+|..+..--.     +.+           ....|..+|+++..
T Consensus       538 ~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  538 QHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             ccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            44556666553322     333           56788899998875

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.69  E-value=1.4e-15  Score=141.43  Aligned_cols=281  Identities=16%  Similarity=0.093  Sum_probs=226.6

Q ss_pred             CCHHHHHHHHccCCC--CCh-hhHHHHHHHHHhCCCchHHHHHHHHHHHcCC--CCChhhHHHHHHhccCCCchhhHHHH
Q 036340          278 GNLELALDFFKRMPQ--KNL-VSWNSMIAGCETNKDYEGAIKLFIQMQVEGE--KPDRHTFSSILSMSSGIVDLHLGMQI  352 (579)
Q Consensus       278 g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~  352 (579)
                      -+..+|...|.++..  +|. .....+..+|...+++++|.++|+.+.+...  .-+..+|.+++--+.    -+.+...
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq----~~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQ----DEVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHH----hhHHHHH
Confidence            356788888888543  343 3445677889999999999999998876431  224566666654332    1223333


Q ss_pred             HHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC
Q 036340          353 HQM-VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP  429 (579)
Q Consensus       353 ~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  429 (579)
                      +.. .....+..+.+|.++.++|.-.++.+.|++.|++.. ..| ...+|+.+..-+.....++.|...|+..+  ++.|
T Consensus       409 Laq~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al--~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL--GVDP  486 (638)
T ss_pred             HHHHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh--cCCc
Confidence            444 556677889999999999999999999999999875 444 56788888888999999999999999998  6677


Q ss_pred             Chh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHH
Q 036340          430 TYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGAL  505 (579)
Q Consensus       430 ~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l  505 (579)
                      ... .|..+...|.++++++.|.-.|++++   .+.| +......++..+.+.|+.++|+.+++++ ..+| |+..--..
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            666 88888999999999999999999887   6677 5667778889999999999999999998 4444 66666666


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCC
Q 036340          506 LGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKP  567 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  567 (579)
                      +..+...+++++|+..+|++.++-|++..++..++.+|.+.|+.+.|+..|--+.+..++.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            77788899999999999999999999999999999999999999999999998887665543

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.67  E-value=7.3e-17  Score=146.72  Aligned_cols=253  Identities=17%  Similarity=0.186  Sum_probs=110.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHccCC-C----CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCC
Q 036340          269 AMVSGYAQIGNLELALDFFKRMP-Q----KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGI  343 (579)
Q Consensus       269 ~l~~~~~~~g~~~~A~~~~~~~~-~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  343 (579)
                      .+...+.+.|++++|.+++++.. .    .|+..|..+...+...++++.|...++++...+..                
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~----------------   76 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA----------------   76 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc----------------
Confidence            34556666677777777774322 1    23334445555555666666666666666554322                


Q ss_pred             CchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHh
Q 036340          344 VDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSM  422 (579)
Q Consensus       344 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  422 (579)
                                         ++..+..++.. ...+++++|..++...- ..+++..+..++..+.+.++++++..+++.+
T Consensus        77 -------------------~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~  136 (280)
T PF13429_consen   77 -------------------NPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKL  136 (280)
T ss_dssp             -------------------------------------------------------------H-HHHTT-HHHHHHHHHHH
T ss_pred             -------------------ccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHH
Confidence                               23333445554 57788888888776642 3456677778888889999999999999997


Q ss_pred             HhCC-CCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhCC--CCCC
Q 036340          423 RSFK-VLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMP--FEPD  498 (579)
Q Consensus       423 ~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~  498 (579)
                      .... .+++...|..+...+.+.|+.++|++.++++++.   .| +......++..+...|+.+++..+++...  .+.|
T Consensus       137 ~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~  213 (280)
T PF13429_consen  137 EELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDD  213 (280)
T ss_dssp             HH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTS
T ss_pred             HhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCH
Confidence            7533 2345557778888889999999999999999864   56 57778889999999999999888887762  2446


Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          499 KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       499 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +..+..+..++...|+.++|+..++++.+.+|+|+.++..++.++...|+.++|..+.+++.
T Consensus       214 ~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  214 PDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             CCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            67788899999999999999999999999999999999999999999999999999988764

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.67  E-value=4.9e-13  Score=119.91  Aligned_cols=414  Identities=12%  Similarity=0.017  Sum_probs=255.5

Q ss_pred             HHHHHHHhcCChhhHHHHHccCCC--CC-cchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhC
Q 036340           96 AMISGFLQNGDVANAIEFFDRMPG--RD-SASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR  172 (579)
Q Consensus        96 ~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  172 (579)
                      ..++-|.++|.+++|++.+....+  |+ +..|.....+|...|++++..+.-.++++   -.|..+.++..-..++-..
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE---l~P~Y~KAl~RRA~A~E~l  196 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE---LNPDYVKALLRRASAHEQL  196 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh---cCcHHHHHHHHHHHHHHhh
Confidence            345667777888888888877654  44 66777778888888888888777777776   4566666777777777777


Q ss_pred             CCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCCh
Q 036340          173 GRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDM  249 (579)
Q Consensus       173 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  249 (579)
                      |++++|+.=..-.--       ..|+... .+ ..++.-..+.--..++.+-+..-..   |++....+....+...  +
T Consensus       197 g~~~eal~D~tv~ci-------~~~F~n~-s~-~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~--~  265 (606)
T KOG0547|consen  197 GKFDEALFDVTVLCI-------LEGFQNA-SI-EPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD--P  265 (606)
T ss_pred             ccHHHHHHhhhHHHH-------hhhcccc-hh-HHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc--c
Confidence            777776432221100       0011111 01 0111111111111222222221111   1221112221111100  0


Q ss_pred             HHHHHHhhcCCCCChhhHHHHHHHHHhc-CCHHHHHHHHccCC-------CCC---h------hhHHHHHHHHHhCCCch
Q 036340          250 EEASNLFVKMPHPDTLTWNAMVSGYAQI-GNLELALDFFKRMP-------QKN---L------VSWNSMIAGCETNKDYE  312 (579)
Q Consensus       250 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~-------~~~---~------~~~~~l~~~~~~~~~~~  312 (579)
                      .  ........+.|...-..+-..+... ..+..|.+.+.+-.       ..+   .      .+.......+.-.|+.-
T Consensus       266 ~--~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~  343 (606)
T KOG0547|consen  266 K--PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSL  343 (606)
T ss_pred             c--ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCch
Confidence            0  0000000001111111111111111 12444444433221       111   1      11222222344568899


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-
Q 036340          313 GAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-  391 (579)
Q Consensus       313 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-  391 (579)
                      .|..-|+..+.....++.. |..+..+|....+.+.....|.+...-.+.++.+|..-..++.-.+++++|..=|++.. 
T Consensus       344 ~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~  422 (606)
T KOG0547|consen  344 GAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS  422 (606)
T ss_pred             hhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999998765544332 66777788999999999999999888899999999999999999999999999999875 


Q ss_pred             CC-CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----
Q 036340          392 LL-KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----  466 (579)
Q Consensus       392 ~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----  466 (579)
                      .. .+...|..+..+..+.+++++++..|++.++. .+.-+..|+.....+..+++++.|.+.|+..+.   +.|.    
T Consensus       423 L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~---LE~~~~~~  498 (606)
T KOG0547|consen  423 LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE---LEPREHLI  498 (606)
T ss_pred             cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh---hccccccc
Confidence            33 35666777777778889999999999999863 333445999999999999999999999998874   3443    


Q ss_pred             ---cch--hHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          467 ---IEH--FASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       467 ---~~~--~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                         +..  ...++.. .-.+++..|..++.+. ...| ....+..+...-.++|+.++|+++|++...+-..
T Consensus       499 ~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lArt  569 (606)
T KOG0547|consen  499 IVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLART  569 (606)
T ss_pred             cccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence               111  1222222 2348999999999988 6667 4568889999999999999999999999876544

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.67  E-value=6.5e-13  Score=121.43  Aligned_cols=349  Identities=13%  Similarity=0.051  Sum_probs=242.3

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc-CChHHHHHHhhcCC-----CCChhhHHHHHHHHHhcCCHHH
Q 036340          209 IMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHV-LDMEEASNLFVKMP-----HPDTLTWNAMVSGYAQIGNLEL  282 (579)
Q Consensus       209 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~  282 (579)
                      ...|....+.++|...|.+.+..|+..+..+...-... --..+-..+++...     ..+......+.....-...-+.
T Consensus       148 gk~y~al~n~~~ar~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~  227 (611)
T KOG1173|consen  148 GKVYVALDNREEARDKYKEALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEE  227 (611)
T ss_pred             eehhhhhccHHHHHHHHHHHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcccc
Confidence            34566777889999999988887776655543322211 11112233333211     1122222222111100000000


Q ss_pred             HHHHH--ccCC--CCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhh
Q 036340          283 ALDFF--KRMP--QKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTK  358 (579)
Q Consensus       283 A~~~~--~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  358 (579)
                      ....-  ..+.  +.++........-+...+++.+..++.+...+.. ++....+..-|.++...|+...-..+-...-.
T Consensus       228 ~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~  306 (611)
T KOG1173|consen  228 SLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVD  306 (611)
T ss_pred             ccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            00000  0000  1344455555666778899999999999987653 34555555555666677766555544444667


Q ss_pred             cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHH
Q 036340          359 TVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFI  435 (579)
Q Consensus       359 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~  435 (579)
                      ..|..+.+|.+++.-|...|++.+|++.|.+.. ..| =...|..++.+|.-.|..++|+..+....+.  -|... .+.
T Consensus       307 ~yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~L  384 (611)
T KOG1173|consen  307 LYPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSL  384 (611)
T ss_pred             hCCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHH
Confidence            788888999999999999999999999999875 222 3457999999999999999999999887743  34333 455


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhCC--------CCC-CHHHHHHH
Q 036340          436 SVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMP--------FEP-DKAVWGAL  505 (579)
Q Consensus       436 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l  505 (579)
                      .+..-|.+.++...|.++|..+.   ++-| |+...+.++-+....+.+.+|..+|+..-        ..+ -..+++.+
T Consensus       385 Ylgmey~~t~n~kLAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NL  461 (611)
T KOG1173|consen  385 YLGMEYMRTNNLKLAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNL  461 (611)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhH
Confidence            55667888999999999999887   6667 67777888888888999999999998761        112 34578899


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          506 LGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +.++.+.+.+++|+..+++++.+.|.++.++..++-+|...|+++.|.+.|.+..-..
T Consensus       462 GH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  462 GHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999876433

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=1.4e-12  Score=116.33  Aligned_cols=352  Identities=16%  Similarity=0.086  Sum_probs=199.4

Q ss_pred             CchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCc--hhhHHHHH
Q 036340           89 RNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDL--VRAYNTLI  166 (579)
Q Consensus        89 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~~l~  166 (579)
                      .|+..+...+..+-+.|..+.|+..|......-+..|.+.+....-..+.+.+..+..       +.+.+  ...-..+.
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~-------~l~~~~h~M~~~F~~  234 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVV-------GLPSDMHWMKKFFLK  234 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHh-------cCcccchHHHHHHHH
Confidence            3444444444555566666777776666555444444444333222222222222211       11211  11112234


Q ss_pred             HHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh------hHHHHHH
Q 036340          167 VGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT------FSWNTMI  240 (579)
Q Consensus       167 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~l~  240 (579)
                      .++......+++..-.+...        ..|++.+...-+..+.+.-...|+++|+.+|+++.+.|+      .+|..++
T Consensus       235 ~a~~el~q~~e~~~k~e~l~--------~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L  306 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLS--------SVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL  306 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHH--------hccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH
Confidence            45555556666666666665        556665555555555666667777777777777766543      3444433


Q ss_pred             HHHHhcCChH-HHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCC---hhhHHHHHHHHHhCCCchHHHH
Q 036340          241 SGYIHVLDME-EASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKN---LVSWNSMIAGCETNKDYEGAIK  316 (579)
Q Consensus       241 ~~~~~~~~~~-~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~  316 (579)
                      -+........ -|..++ .+.+-.+.|...+.+-|+-.++.++|..+|++..+-|   ...|+.+.+-|....+...|++
T Consensus       307 Yv~~~~skLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~  385 (559)
T KOG1155|consen  307 YVKNDKSKLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIE  385 (559)
T ss_pred             HHHhhhHHHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHH
Confidence            2222111111 111111 1112233455555555666666666666666655422   2355556666666666666666


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCC
Q 036340          317 LFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLK  394 (579)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~  394 (579)
                      -|+..++-                                   .|.|-..|..+.++|.-.+.+.-|+-.|++..  .+.
T Consensus       386 sYRrAvdi-----------------------------------~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn  430 (559)
T KOG1155|consen  386 SYRRAVDI-----------------------------------NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN  430 (559)
T ss_pred             HHHHHHhc-----------------------------------CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC
Confidence            66655543                                   33445556677788888888888888887764  344


Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhh---C-CCC-Ccch
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEY---G-IEP-RIEH  469 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~-~~~-~~~~  469 (579)
                      |...|.+|+.+|.+.++.++|++.|.+....| ..+...+..|...|.+.++..+|...|++.++..   | +.| ....
T Consensus       431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka  509 (559)
T KOG1155|consen  431 DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKA  509 (559)
T ss_pred             chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHH
Confidence            67788888888888888888888888888755 3455678888888888888888888888776532   1 122 1222


Q ss_pred             hHHHHHHhhccCChHHHHHHHHh
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKG  492 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~  492 (579)
                      ..-|+.-+.+.+++++|..+...
T Consensus       510 ~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  510 RLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHH
Confidence            23355556677777776655443

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=6.2e-13  Score=118.48  Aligned_cols=252  Identities=12%  Similarity=0.089  Sum_probs=164.5

Q ss_pred             HHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCC---CchHHHHHHHHhhhcCC
Q 036340          303 AGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIP---DVPINNALITMYARCGA  379 (579)
Q Consensus       303 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~  379 (579)
                      .++....+.+++..-.......|..-+...-+....+.....++++|+.+|+.+.+..|-   |..+|..++-.-....+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            344444456666666666665555544444444445555666677777777664444432   33444444332222111


Q ss_pred             HH-HHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          380 IV-EARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       380 ~~-~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      +. -|..++.--  +-.+.|..++.+-|+-.++.++|+..|++..+  +.|... .|+.+..-|....+...|++.|+.+
T Consensus       315 Ls~LA~~v~~id--KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk--LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  315 LSYLAQNVSNID--KYRPETCCIIANYYSLRSEHEKAVMYFKRALK--LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHHHHHhc--cCCccceeeehhHHHHHHhHHHHHHHHHHHHh--cCcchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            11 122222211  23345566666777777778888888888774  456554 5666666778888888888888877


Q ss_pred             HHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          458 VNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       458 ~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      +   .+.| |-..|..|+++|.-.+.+.-|+-+|++. ..+| |+..|.+++.+|.+.++.++|+..|.++......+..
T Consensus       391 v---di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~  467 (559)
T KOG1155|consen  391 V---DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS  467 (559)
T ss_pred             H---hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH
Confidence            7   4455 6777888888888888888888888877 4555 6778888888888888888888888888877777777


Q ss_pred             CchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          535 PYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ++..|+.+|.+.++.++|...+++-.+
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            788888888888888888887776554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=2.4e-12  Score=113.63  Aligned_cols=351  Identities=15%  Similarity=0.172  Sum_probs=200.1

Q ss_pred             HHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCC
Q 036340          113 FFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRG  192 (579)
Q Consensus       113 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  192 (579)
                      ++-+.......++..++.++++-...+.|.+++++....  ....+..+||.+|.+-.-..    ..+++.+|.      
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~--k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMi------  265 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAA--KGKVYREAFNGLIGASSYSV----GKKLVAEMI------  265 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHh--hheeeHHhhhhhhhHHHhhc----cHHHHHHHH------
Confidence            444444556677777777777777777787777777665  55666667777776543322    256666776      


Q ss_pred             CCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHH----hc----CCCChhHHHHHHHHHHhcCChHH-HHHHhhcCC---
Q 036340          193 EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFE----QM----LERDTFSWNTMISGYIHVLDMEE-ASNLFVKMP---  260 (579)
Q Consensus       193 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~----~~----~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~---  260 (579)
                        ...+.||..|+|+++.+..+.|+++.|.+.+-    +|    ++|...+|..++..+.+.++..+ +..++.++.   
T Consensus       266 --sqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~l  343 (625)
T KOG4422|consen  266 --SQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSL  343 (625)
T ss_pred             --HhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhh
Confidence              55667788888888887777777765544433    33    44667777777777777776644 333333322   


Q ss_pred             ---------CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--------CC---hhhHHHHHHHHHhCCCchHHHHHHHH
Q 036340          261 ---------HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--------KN---LVSWNSMIAGCETNKDYEGAIKLFIQ  320 (579)
Q Consensus       261 ---------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~---~~~~~~l~~~~~~~~~~~~a~~~~~~  320 (579)
                               +.|..-|...+..|.+..+.+.|.++-.-+..        ++   ..-|..+....++....+.-+..|+.
T Consensus       344 tGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~  423 (625)
T KOG4422|consen  344 TGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYED  423 (625)
T ss_pred             ccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                     22344555666666677777777766554432        11   11344555666777778888888888


Q ss_pred             HHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeee-
Q 036340          321 MQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVS-  398 (579)
Q Consensus       321 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-  398 (579)
                      |+-.-.-|+..+...++++....+.++...+++.. ...|...+......+...+++..             ..|+... 
T Consensus       424 lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k-------------~hp~tp~r  490 (625)
T KOG4422|consen  424 LVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK-------------LHPLTPER  490 (625)
T ss_pred             hccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC-------------CCCCChHH
Confidence            88777778888888888888888888777777766 44444433333333333333321             1222111 


Q ss_pred             --HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH---HH
Q 036340          399 --WNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA---SL  473 (579)
Q Consensus       399 --~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l  473 (579)
                        +.....-++ ..-.+.....-.+|.....+|  ...+.++-.+.+.|..++|.+++..+.++.+--|.....+   .+
T Consensus       491 ~Ql~~~~ak~a-ad~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El  567 (625)
T KOG4422|consen  491 EQLQVAFAKCA-ADIKEAYESQPIRQRAQDWPA--TSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAEL  567 (625)
T ss_pred             HHHHHHHHHHH-HHHHHHHHhhHHHHHhccCCh--hHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHH
Confidence              111111111 011112222223344333333  3334444445666777777777666654433334333334   33


Q ss_pred             HHHhhccCChHHHHHHHHhC
Q 036340          474 VDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       474 ~~~~~~~g~~~~A~~~~~~~  493 (579)
                      .+.-.+..+...|...++-+
T Consensus       568 ~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  568 MDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHHHHhcCCHHHHHHHHHHH
Confidence            34444566666666666655

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.64  E-value=1.9e-12  Score=118.49  Aligned_cols=486  Identities=11%  Similarity=-0.022  Sum_probs=308.6

Q ss_pred             hhHHHHHHHHHHHcCCCCChHHHHHHHhhCC--CCCcchHHHHHHHHHccCCHHHHHHHhhcCC--CCchhhHHHHHHHH
Q 036340           26 VVSWNVMISGYISSRGSGFLEEARYLFDIMP--ERDCVTWNTVISGYAKTGEMEEALRLFNSMP--ARNVVSWNAMISGF  101 (579)
Q Consensus        26 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~  101 (579)
                      ..-+..+++-+..+.+   +..|.-+-+++.  ..||...-.++.++.-.|+++.|-.++..-.  ..+..+......++
T Consensus        16 ~~~~~~~~r~~l~q~~---y~~a~f~adkV~~l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l   92 (611)
T KOG1173|consen   16 LEKYRRLVRDALMQHR---YKTALFWADKVAGLTNDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCL   92 (611)
T ss_pred             HHHHHHHHHHHHHHHh---hhHHHHHHHHHHhccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHH
Confidence            4445566665666666   888888888876  5677777788899999999999988877554  67777877888888


Q ss_pred             HhcCChhhHHHHHccCCC-CCcchHHHH--HHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHH
Q 036340          102 LQNGDVANAIEFFDRMPG-RDSASLSAL--VSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEA  178 (579)
Q Consensus       102 ~~~~~~~~A~~~~~~~~~-~~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  178 (579)
                      .+..++++|..++..... .++..+...  +..+..++..        +..    +.......+..-...|....++++|
T Consensus        93 ~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~--------~~~----~~~~essic~lRgk~y~al~n~~~a  160 (611)
T KOG1173|consen   93 VKLKEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAG--------EDL----MINLESSICYLRGKVYVALDNREEA  160 (611)
T ss_pred             HHHHHHHHHHHHhcccchhhcchhhcchhhhceeccCccc--------ccc----cccchhceeeeeeehhhhhccHHHH
Confidence            999999999999885411 111111100  0000000000        000    1111122233344455556666777


Q ss_pred             HHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC--------ChhHHHHHHHHHHhcCChH
Q 036340          179 RKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER--------DTFSWNTMISGYIHVLDME  250 (579)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~  250 (579)
                      ...|.++.            ..|+..+..+...-..  ..-.+.+.++.+...        +......+.........-+
T Consensus       161 r~~Y~~Al------------~~D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~  226 (611)
T KOG1173|consen  161 RDKYKEAL------------LADAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNE  226 (611)
T ss_pred             HHHHHHHH------------hcchhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccc
Confidence            77776665            3333333332221110  111111112211111        1111111111110000000


Q ss_pred             HHHHHh--hcCC--CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCCh---hhHHHHHHHHHhCCCchHHHHHHHHHHH
Q 036340          251 EASNLF--VKMP--HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNL---VSWNSMIAGCETNKDYEGAIKLFIQMQV  323 (579)
Q Consensus       251 ~a~~~~--~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  323 (579)
                      .....-  ..+.  ..++.......+-+...+++.+..++++.+.+.++   ..+..-|.++...|+..+-..+=.++++
T Consensus       227 ~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~  306 (611)
T KOG1173|consen  227 ESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVD  306 (611)
T ss_pred             cccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            000000  0000  34455555566677788888988888888876443   3455556677888888887777777776


Q ss_pred             cCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHH
Q 036340          324 EGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNA  401 (579)
Q Consensus       324 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~  401 (579)
                      .- +-...+|-.+..-|...|+...|++++.+...-.+.-...|..++..|.-.|..++|...+....  .+..-..+.-
T Consensus       307 ~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LY  385 (611)
T KOG1173|consen  307 LY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLY  385 (611)
T ss_pred             hC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHH
Confidence            53 33566777777777778899999999888666666666778888899999999999998887653  1222233444


Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhC-CCC----CcchhHHHHH
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYG-IEP----RIEHFASLVD  475 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~~l~~  475 (579)
                      +.--|.+.++.+.|.++|.+..  ++.|+.. .++.+.-.....+.+.+|..+|+..+.... ..+    ...+++.|+.
T Consensus       386 lgmey~~t~n~kLAe~Ff~~A~--ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH  463 (611)
T KOG1173|consen  386 LGMEYMRTNNLKLAEKFFKQAL--AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGH  463 (611)
T ss_pred             HHHHHHHhccHHHHHHHHHHHH--hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHH
Confidence            5556788899999999999988  6777554 777777777888999999999988763211 111    3356788999


Q ss_pred             HhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          476 IVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      ++.+.+.+++|+..+++. ... .+..++..++-.+...|+++.|+..|.+++.+.|++..+-..|..+.
T Consensus       464 ~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  464 AYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            999999999999999987 333 48889999999999999999999999999999999976555554433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.62  E-value=5.2e-12  Score=111.58  Aligned_cols=348  Identities=12%  Similarity=0.170  Sum_probs=229.8

Q ss_pred             HhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCC----CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCC
Q 036340           82 LFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR----DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGED  157 (579)
Q Consensus        82 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  157 (579)
                      ++-+..+....++..+|.++++-...+.|.+++++....    +..+++.++.+-.-.    .-.+++.+|...  ...|
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisq--km~P  271 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQ--KMTP  271 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHh--hcCC
Confidence            445555677889999999999999999999999998653    556677776654432    226777788776  7899


Q ss_pred             chhhHHHHHHHHhhCCCHHH----HHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHH-HHHHHHhcC---
Q 036340          158 LVRAYNTLIVGYGQRGRVEE----ARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVS-AREIFEQML---  229 (579)
Q Consensus       158 ~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~---  229 (579)
                      +..++|+++.+..+.|+++.    |.+++.+|.        +.|+.|...+|..++..+.+.++..+ +..++..+.   
T Consensus       272 nl~TfNalL~c~akfg~F~~ar~aalqil~EmK--------eiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~l  343 (625)
T KOG4422|consen  272 NLFTFNALLSCAAKFGKFEDARKAALQILGEMK--------EIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSL  343 (625)
T ss_pred             chHhHHHHHHHHHHhcchHHHHHHHHHHHHHHH--------HhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhh
Confidence            99999999999999998876    456777777        78999999999999999999888754 344444331   


Q ss_pred             -----C---C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC--------CCC---hhhHHHHHHHHHhcCCHHHHHHHHcc
Q 036340          230 -----E---R-DTFSWNTMISGYIHVLDMEEASNLFVKMP--------HPD---TLTWNAMVSGYAQIGNLELALDFFKR  289 (579)
Q Consensus       230 -----~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--------~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~  289 (579)
                           +   | |...|...+..|.+..+.+-|.++..-..        .|+   ...|..+....+.....+.-..+|+.
T Consensus       344 tGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~  423 (625)
T KOG4422|consen  344 TGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYED  423 (625)
T ss_pred             ccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 1   1 55667888888889999888887765544        233   23567777888888899999999999


Q ss_pred             CCC----CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCch
Q 036340          290 MPQ----KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVP  365 (579)
Q Consensus       290 ~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  365 (579)
                      +..    |+..+...++.+....|.++-.-+++..++..|..-.......++..+++               ....|+..
T Consensus       424 lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~---------------~k~hp~tp  488 (625)
T KOG4422|consen  424 LVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLAR---------------DKLHPLTP  488 (625)
T ss_pred             hccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhc---------------CCCCCCCh
Confidence            885    77778888888888889999999999988877644333332222222221               11112111


Q ss_pred             HHHHHHHHhhhc-CCHHH-HHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC-CCCChhh---HHHHH
Q 036340          366 INNALITMYARC-GAIVE-ARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK-VLPTYIT---FISVL  438 (579)
Q Consensus       366 ~~~~l~~~~~~~-~~~~~-A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~~---~~~l~  438 (579)
                      ....+-....++ -++.+ .+..-..+. ........+.+.-.+.+.|..++|.+++..+.+.+ --|....   ...++
T Consensus       489 ~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~  568 (625)
T KOG4422|consen  489 EREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELM  568 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHH
Confidence            111111111110 00111 111111111 23344455666666777777777777777774433 2232223   33455


Q ss_pred             HHhcccCcHHHHHHHHHHhH
Q 036340          439 SACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~  458 (579)
                      ..-...+....|..+++-+.
T Consensus       569 d~a~~~~spsqA~~~lQ~a~  588 (625)
T KOG4422|consen  569 DSAKVSNSPSQAIEVLQLAS  588 (625)
T ss_pred             HHHHhcCCHHHHHHHHHHHH
Confidence            55566677777777777664

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.62  E-value=2.9e-13  Score=128.76  Aligned_cols=276  Identities=10%  Similarity=0.041  Sum_probs=183.0

Q ss_pred             cCCHHHHHHHHccCCCC--ChhhHHHH-HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHH--HHHHhccCCCchhhHHH
Q 036340          277 IGNLELALDFFKRMPQK--NLVSWNSM-IAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFS--SILSMSSGIVDLHLGMQ  351 (579)
Q Consensus       277 ~g~~~~A~~~~~~~~~~--~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~  351 (579)
                      .|+++.|++.+....+.  ++..+..+ .....+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666666654431  22222222 33335667777777777776553  33332222  22445666777777777


Q ss_pred             HHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC--CCCee--------eHHHHHHHHHhcCChHHHHHHHHH
Q 036340          352 IHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKL--LKNVV--------SWNAMIGGCASHGFATEALELFKS  421 (579)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~--------~~~~l~~~~~~~~~~~~A~~~~~~  421 (579)
                      .++......|.++.+...+...|.+.|++++|.+++..+..  ..+..        .|..++.......+.+...++++.
T Consensus       175 ~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        175 GVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            77776566666777778888888888888888888887751  11111        222333333344555666677776


Q ss_pred             hHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CH
Q 036340          422 MRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DK  499 (579)
Q Consensus       422 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~  499 (579)
                      +.+. .+.+......+...+...|+.++|.+.+++..+.   +|+.....  +.+....++.+++++.++.. +..| |+
T Consensus       255 lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~~--l~~~l~~~~~~~al~~~e~~lk~~P~~~  328 (398)
T PRK10747        255 QSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLVL--LIPRLKTNNPEQLEKVLRQQIKQHGDTP  328 (398)
T ss_pred             CCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHHH--HHhhccCCChHHHHHHHHHHHhhCCCCH
Confidence            6542 2345567778888888999999999998888753   44543332  23334558888888888877 3444 56


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ..+..+.+.+...+++++|...|+++.+..|++.. +..|+.++.+.|+.++|..++++-..
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~-~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYD-YAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            67778888899999999999999999999988654 67888999999999999999887643

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.61  E-value=5.9e-13  Score=113.12  Aligned_cols=263  Identities=14%  Similarity=0.145  Sum_probs=183.0

Q ss_pred             hcCCHHHHHHHHHhcCCCChhHH---HHHHHHHHhcCChHHHHHHhhcCC-CCChh------hHHHHHHHHHhcCCHHHH
Q 036340          214 KAGDVVSAREIFEQMLERDTFSW---NTMISGYIHVLDMEEASNLFVKMP-HPDTL------TWNAMVSGYAQIGNLELA  283 (579)
Q Consensus       214 ~~~~~~~A~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~------~~~~l~~~~~~~g~~~~A  283 (579)
                      -+++.++|.+.|-+|.+.|+.++   .++.+.|.+.|..+.|+++.+.+. .||..      ....|..-|...|-+|.|
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hhcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            45678899999999988766554   457788888888888888888877 55532      345566778888888888


Q ss_pred             HHHHccCCCCC---hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcC
Q 036340          284 LDFFKRMPQKN---LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV  360 (579)
Q Consensus       284 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  360 (579)
                      +++|..+.+.+   ......|+..|-...+|++|++.-+++.+.+..+...-.                           
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI---------------------------  179 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI---------------------------  179 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH---------------------------
Confidence            88888887633   345667788888888888888888888776544332211                           


Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVL  438 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~  438 (579)
                         ...|..+...+....+.+.|..++.+..  .+..+..-..+.+.....|+++.|++.++...+....--..+...|.
T Consensus       180 ---AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~  256 (389)
T COG2956         180 ---AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLY  256 (389)
T ss_pred             ---HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHH
Confidence               1234456666666778888888887764  23344555567777888888888888888888764333344677777


Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHH-HhCCCCCCHHHHHHHHHHH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLI-KGMPFEPDKAVWGALLGAC  509 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~~~~~~~~~l~~~~  509 (579)
                      .+|...|+.++...++..+.+.   .+.......+.+......-.+.|..++ +.+.-+|+...+..++..-
T Consensus       257 ~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~  325 (389)
T COG2956         257 ECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYH  325 (389)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhh
Confidence            8888888888888888887743   455555555555555555555555544 4446677777777777553

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.61  E-value=5.8e-13  Score=126.71  Aligned_cols=283  Identities=8%  Similarity=-0.018  Sum_probs=197.4

Q ss_pred             hcCCHHHHHHHHHhcCCC--ChhH-HHHHHHHHHhcCChHHHHHHhhcCC--CCChhhHH--HHHHHHHhcCCHHHHHHH
Q 036340          214 KAGDVVSAREIFEQMLER--DTFS-WNTMISGYIHVLDMEEASNLFVKMP--HPDTLTWN--AMVSGYAQIGNLELALDF  286 (579)
Q Consensus       214 ~~~~~~~A~~~~~~~~~~--~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~--~l~~~~~~~g~~~~A~~~  286 (579)
                      -.|+++.|++.+....+.  ++.. +........+.|+++.|...+.++.  .|+.....  .....+...|+++.|...
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            368999999888876543  2333 3333445578888999998888887  44443332  335678888899998888


Q ss_pred             HccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCC
Q 036340          287 FKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD  363 (579)
Q Consensus       287 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  363 (579)
                      ++++.+   .++.....+...|.+.|++++|.+++..+.+.+..++. ....+-.                         
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~~-------------------------  229 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLEQ-------------------------  229 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-------------------------
Confidence            888775   34556777888888889999999888888877654222 1111100                         


Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHh
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC  441 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  441 (579)
                       ..+..++.......+.+...++++.+.  .+.++.....+...+...|+.++|.+++++..+.  +|+....  ++.+.
T Consensus       230 -~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~  304 (398)
T PRK10747        230 -QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPR  304 (398)
T ss_pred             -HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhh
Confidence             011222333333344556666666664  3446667778888888899999999999888863  4554322  23344


Q ss_pred             cccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHH
Q 036340          442 AHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNNVELAQV  520 (579)
Q Consensus       442 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~  520 (579)
                      ...++.+++.+..+...+.  .+.|+..+..++..+.+.|++++|.+.|+.. ...|+...+..+..++.+.|+.++|..
T Consensus       305 l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~  382 (398)
T PRK10747        305 LKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAA  382 (398)
T ss_pred             ccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            4568889999998888764  2345667788889999999999999999887 667888888888899999999999999


Q ss_pred             HHHHHhhcC
Q 036340          521 AAEALMKVE  529 (579)
Q Consensus       521 ~~~~~~~~~  529 (579)
                      .|++.+.+.
T Consensus       383 ~~~~~l~~~  391 (398)
T PRK10747        383 MRRDGLMLT  391 (398)
T ss_pred             HHHHHHhhh
Confidence            999887654

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.61  E-value=2.7e-14  Score=133.08  Aligned_cols=247  Identities=13%  Similarity=0.129  Sum_probs=198.8

Q ss_pred             CCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCC---CCchHHHHHHHHhhhcCCHH-HHH
Q 036340          309 KDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVI---PDVPINNALITMYARCGAIV-EAR  384 (579)
Q Consensus       309 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~-~A~  384 (579)
                      -+..+|+..|.+.... +.-.......+..+|...++++++..+|+.+.+..+   .+..+|...+-.+.+.-... -|.
T Consensus       333 y~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            4578899999984443 333447777788899999999999999998554443   46677777665554321111 122


Q ss_pred             HHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC
Q 036340          385 IIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGI  463 (579)
Q Consensus       385 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  463 (579)
                      .+.+..  +..+.+|.+++.+|.-+++.+.|++.|++.+  .+.|+ ..+|+.+..-+.....+|.|...|+..+   ++
T Consensus       412 ~Li~~~--~~sPesWca~GNcfSLQkdh~~Aik~f~RAi--Qldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~  484 (638)
T KOG1126|consen  412 DLIDTD--PNSPESWCALGNCFSLQKDHDTAIKCFKRAI--QLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GV  484 (638)
T ss_pred             HHHhhC--CCCcHHHHHhcchhhhhhHHHHHHHHHHHhh--ccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cC
Confidence            233332  4567899999999999999999999999999  46784 5589988888899999999999999887   45


Q ss_pred             CC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          464 EP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       464 ~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      .| +-..|..++..|.++++++.|+-.|+++ .+.| +.+....++..+.+.|+.++|+.+++++..++|.|+..-+..+
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence            55 3456667888999999999999999998 6667 6677788888899999999999999999999999999999999


Q ss_pred             hhhhhcCCchHHHHHHHHHHhCC
Q 036340          541 NMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       541 ~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .++...+++++|+..++++++.-
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~v  587 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELV  587 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhC
Confidence            99999999999999999998654

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.58  E-value=1.9e-11  Score=112.67  Aligned_cols=433  Identities=12%  Similarity=0.126  Sum_probs=225.8

Q ss_pred             HHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCH
Q 036340           99 SGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRV  175 (579)
Q Consensus        99 ~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  175 (579)
                      +.+...|++++|.....++..   .+...+.+-+-++.+.+++++|+.+.+.-..    .......+.--+.+..+.+..
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~----~~~~~~~~fEKAYc~Yrlnk~   95 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA----LLVINSFFFEKAYCEYRLNKL   95 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch----hhhcchhhHHHHHHHHHcccH
Confidence            344455555555555555443   2334455555555666666666644443211    011111112223344456666


Q ss_pred             HHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHH-HhcCChHHHHH
Q 036340          176 EEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGY-IHVLDMEEASN  254 (579)
Q Consensus       176 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~  254 (579)
                      ++|...++-..            +.+..+...-...+.+.|++++|.++|+.+.+.+...+..-+.+- ...+.-..+- 
T Consensus        96 Dealk~~~~~~------------~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-  162 (652)
T KOG2376|consen   96 DEALKTLKGLD------------RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-  162 (652)
T ss_pred             HHHHHHHhccc------------ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-
Confidence            66666665332            222334444555566666666666666666554433332222211 1111111111 


Q ss_pred             HhhcCC-CC--ChhhHHHHHHHHHhcCCHHHHHHHHccCC--------CCCh----------hhHHHHHHHHHhCCCchH
Q 036340          255 LFVKMP-HP--DTLTWNAMVSGYAQIGNLELALDFFKRMP--------QKNL----------VSWNSMIAGCETNKDYEG  313 (579)
Q Consensus       255 ~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~----------~~~~~l~~~~~~~~~~~~  313 (579)
                      +.+... .|  +-..+......+...|++.+|+++++...        +.|.          ..--.|...+...|+..+
T Consensus       163 ~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  163 LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            122221 11  11122223344566677777777776651        1110          012234455667788888


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHH---HHhccCCCchhh--HHHHHHH------------HhhcCCCCchHHHHHHHHhhh
Q 036340          314 AIKLFIQMQVEGEKPDRHTFSSI---LSMSSGIVDLHL--GMQIHQM------------VTKTVIPDVPINNALITMYAR  376 (579)
Q Consensus       314 a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~--a~~~~~~------------~~~~~~~~~~~~~~l~~~~~~  376 (579)
                      |..+|...++... +|......+   +-+...-.++-.  ....++.            ..+........-+.++.+|  
T Consensus       243 a~~iy~~~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--  319 (652)
T KOG2376|consen  243 ASSIYVDIIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--  319 (652)
T ss_pred             HHHHHHHHHHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--
Confidence            8888888776643 233222211   122222222111  1111111            1111111111122333333  


Q ss_pred             cCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHH--hcCChHHHHHHHHHhHhCCCCCCh--hhHHHHHHHhcccCcHHHHH
Q 036340          377 CGAIVEARIIFEEMK-LLKNVVSWNAMIGGCA--SHGFATEALELFKSMRSFKVLPTY--ITFISVLSACAHAGLVEEGR  451 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~--~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~  451 (579)
                      .+..+.+.++-..+. ..|. ..+.+++....  +...+..+.+++....+.  .|..  ......+.....+|+++.|.
T Consensus       320 tnk~~q~r~~~a~lp~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~  396 (652)
T KOG2376|consen  320 TNKMDQVRELSASLPGMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVAL  396 (652)
T ss_pred             hhhHHHHHHHHHhCCccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHH
Confidence            355666777666665 2222 23444444332  233577888888887753  3433  35556667788999999999


Q ss_pred             HHHH--------HhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-----CCCCCHH----HHHHHHHHHhhcCC
Q 036340          452 QHFK--------SMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-----PFEPDKA----VWGALLGACRVHNN  514 (579)
Q Consensus       452 ~~~~--------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~~----~~~~l~~~~~~~~~  514 (579)
                      +++.        .+.   .+...+.+...+...+.+.++.+.|..++.+.     ...+...    ++..++..-.++|+
T Consensus       397 ~il~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~  473 (652)
T KOG2376|consen  397 EILSLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGN  473 (652)
T ss_pred             HHHHHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCc
Confidence            9998        443   22334566677778888888888777777665     1112222    33333344456799


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          515 VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      .++|..+++++.+.+|++...+..++.+|.... .+.|..+-+.
T Consensus       474 ~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k~  516 (652)
T KOG2376|consen  474 EEEASSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESLSKK  516 (652)
T ss_pred             hHHHHHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhhc
Confidence            999999999999999999999999998887764 5666666443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.57  E-value=8.3e-11  Score=101.52  Aligned_cols=73  Identities=14%  Similarity=0.083  Sum_probs=35.6

Q ss_pred             hHHHHHHHhhCCC----CCcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccC
Q 036340           45 LEEARYLFDIMPE----RDCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRM  117 (579)
Q Consensus        45 ~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  117 (579)
                      +.-|+.+++--..    ....+-..+..++.+.|++++|...+.-+.   .++...+-.|.-++.-.|.+.+|..+-...
T Consensus        38 ytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka  117 (557)
T KOG3785|consen   38 YTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKA  117 (557)
T ss_pred             chhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhC
Confidence            5555555544331    111223344445555566666666555444   233444444555555555555655555443

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.56  E-value=2.2e-14  Score=130.53  Aligned_cols=248  Identities=17%  Similarity=0.162  Sum_probs=64.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcC-C---C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcC
Q 036340          207 SMIMCYAKAGDVVSAREIFEQML-E---R-DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIG  278 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~~-~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g  278 (579)
                      .+...+.+.|++++|++++++.. .   + |+..|..+.......++++.|...++++.   +.++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            56788888999999999985432 2   1 44445556666667777777777777776   2233455555555 5677


Q ss_pred             CHHHHHHHHccCCC--CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcC-CCCChhhHHHHHHhccCCCchhhHHHHHHH
Q 036340          279 NLELALDFFKRMPQ--KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEG-EKPDRHTFSSILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       279 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      ++++|.+++...-+  +++..+..++..+...++++++..+++++.... ..++...|......+.+.|+.+.|...++.
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777777766543  455556666677777777777777777765432 123344444444444555555555555555


Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-Chh
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYI  432 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~  432 (579)
                      .....|.+..+...++..+...|+.+++.+++....  .+.|+..+..+..++...|++++|+.+|++..+.  .| |..
T Consensus       172 al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~--~p~d~~  249 (280)
T PF13429_consen  172 ALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKL--NPDDPL  249 (280)
T ss_dssp             HHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH--STT-HH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccc--cccccc
Confidence            444444445555555555555555555444444432  1233344444555555555555555555554432  22 333


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      ....+..++...|+.++|.++.+++
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHT---------------
T ss_pred             ccccccccccccccccccccccccc
Confidence            4444444555555555555544443

>TIGR00540 hemY_coli hemY protein

Probab=99.55  E-value=2.5e-12  Score=123.19  Aligned_cols=278  Identities=12%  Similarity=-0.008  Sum_probs=139.2

Q ss_pred             cCCHHHHHHHHccCCC--CChh-hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChh--hHHHHHHhccCCCchhhHHH
Q 036340          277 IGNLELALDFFKRMPQ--KNLV-SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRH--TFSSILSMSSGIVDLHLGMQ  351 (579)
Q Consensus       277 ~g~~~~A~~~~~~~~~--~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~  351 (579)
                      .|+++.|.+.+.+..+  |++. .+-....+....|+++.|...+.+..+..  |+..  ........+...|+++.|..
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            4555555555544332  2211 12222334444455555555555544322  2221  12222344444555555555


Q ss_pred             HHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC--CCCeeeHH----HHHHHHHhcCChHHHHHHHHHhHhC
Q 036340          352 IHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKL--LKNVVSWN----AMIGGCASHGFATEALELFKSMRSF  425 (579)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~----~l~~~~~~~~~~~~A~~~~~~~~~~  425 (579)
                      .++......|.++.+...+...+...|++++|.+.+..+..  ..+...+.    .........+..+++.+.+..+.+.
T Consensus       175 ~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~  254 (409)
T TIGR00540       175 GVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKN  254 (409)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            55554444444555556666666666666666666665541  11222121    1111112222222233344443332


Q ss_pred             CC---CCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcch---hHHHHHHhhccCChHHHHHHHHhC-CCCC-
Q 036340          426 KV---LPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEH---FASLVDIVGRHGRLEDAMDLIKGM-PFEP-  497 (579)
Q Consensus       426 ~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-  497 (579)
                      ..   +.+...+..+...+...|+.++|.+.+++.++.   .|+...   ...........++.+.+.+.+++. ...| 
T Consensus       255 ~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       255 QPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            11   124456666666777777777777777777653   333221   111111222345666666666655 2333 


Q ss_pred             CH--HHHHHHHHHHhhcCCHHHHHHHHH--HHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          498 DK--AVWGALLGACRVHNNVELAQVAAE--ALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       498 ~~--~~~~~l~~~~~~~~~~~~A~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      |+  .....+++.+.+.|++++|.+.|+  .+.+..|++.. +..++.++.+.|+.++|.+++++..
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~-~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAND-LAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33  455667777777777777777777  45556666544 5577777777777777777777643

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.55  E-value=2.3e-10  Score=106.58  Aligned_cols=510  Identities=13%  Similarity=0.154  Sum_probs=293.1

Q ss_pred             hhHHHHHHHHHHHcCCCCChHHHHHHHhhCC-----CCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHH
Q 036340           26 VVSWNVMISGYISSRGSGFLEEARYLFDIMP-----ERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISG  100 (579)
Q Consensus        26 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~  100 (579)
                      |..|...+.....+++   ....+..|+..+     .....+|...+......|-.+-++.++++..+.++..-+-.+..
T Consensus       102 pRIwl~Ylq~l~~Q~~---iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~  178 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGL---ITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEY  178 (835)
T ss_pred             CHHHHHHHHHHHhcch---HHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            4566666777777777   888888877765     23445788888888888888899999999887777777888888


Q ss_pred             HHhcCChhhHHHHHccCCCC----------CcchHHHHHHHHHhCCCHH---HHHHHHHHhccCCCCCCCchhhHHHHHH
Q 036340          101 FLQNGDVANAIEFFDRMPGR----------DSASLSALVSGLIQNGELD---EAARVLVKCGSRCDGGEDLVRAYNTLIV  167 (579)
Q Consensus       101 ~~~~~~~~~A~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~~~~~~~~~~~~~~~l~~  167 (579)
                      +.+.+++++|.+.+......          +...|..+.....+.-+.-   ....+++.+..+  -...-...|.+|+.
T Consensus       179 L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAd  256 (835)
T KOG2047|consen  179 LAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLAD  256 (835)
T ss_pred             HHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHH
Confidence            99999999999888887642          3334555555555443322   234455555543  22333457889999


Q ss_pred             HHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhc----------------C------CHHHHHHHH
Q 036340          168 GYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKA----------------G------DVVSAREIF  225 (579)
Q Consensus       168 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------------~------~~~~A~~~~  225 (579)
                      .|.+.|.+++|..+|++....          ..+..-+..+.++|+.-                |      +++-.+..|
T Consensus       257 YYIr~g~~ekarDvyeeai~~----------v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~  326 (835)
T KOG2047|consen  257 YYIRSGLFEKARDVYEEAIQT----------VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARF  326 (835)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh----------heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHH
Confidence            999999999999999987622          12222233333333221                1      122333344


Q ss_pred             HhcCCC---------------ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CC------ChhhHHHHHHHHHhcCCHH
Q 036340          226 EQMLER---------------DTFSWNTMISGYIHVLDMEEASNLFVKMP---HP------DTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       226 ~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~------~~~~~~~l~~~~~~~g~~~  281 (579)
                      +.+.+.               ++..|..-+  -+..|+..+-+..|.++.   .|      -...|..+...|-..|+++
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~  404 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLD  404 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHH
Confidence            444332               112222222  223455666666665554   11      1235778888899999999


Q ss_pred             HHHHHHccCCCCChh-------hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC-----------------hhhHHHHH
Q 036340          282 LALDFFKRMPQKNLV-------SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD-----------------RHTFSSIL  337 (579)
Q Consensus       282 ~A~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------------~~~~~~l~  337 (579)
                      .|..+|++..+-+-.       +|..-...-.+..+++.|+++++......-.|.                 ...|...+
T Consensus       405 ~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~  484 (835)
T KOG2047|consen  405 DARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYA  484 (835)
T ss_pred             HHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHH
Confidence            999999998874433       344444444566778888888777643211111                 11222222


Q ss_pred             HhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc---CCCCe-eeHHHHHHHHHh---cC
Q 036340          338 SMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK---LLKNV-VSWNAMIGGCAS---HG  410 (579)
Q Consensus       338 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~-~~~~~l~~~~~~---~~  410 (579)
                      ...-..|-++.-..+++.+-.--.-++.+....+..+....-++++.++|+.-.   ..|++ ..|+..+..+.+   ..
T Consensus       485 DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~  564 (835)
T KOG2047|consen  485 DLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGT  564 (835)
T ss_pred             HHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCC
Confidence            222334445555555555222222233333334444555566788888887642   23443 257766666554   34


Q ss_pred             ChHHHHHHHHHhHhCCCCCChhhHHHHHH--HhcccCcHHHHHHHHHHhHHhhCCCCC--cchhHHHHHHhhccCChHHH
Q 036340          411 FATEALELFKSMRSFKVLPTYITFISVLS--ACAHAGLVEEGRQHFKSMVNEYGIEPR--IEHFASLVDIVGRHGRLEDA  486 (579)
Q Consensus       411 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A  486 (579)
                      ..+.|..+|++.++ |.+|...-+..|+.  .-.+-|-...|+.+++++..  ++++.  ...|+.++.--...=-+...
T Consensus       565 klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv~~T  641 (835)
T KOG2047|consen  565 KLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGVPRT  641 (835)
T ss_pred             CHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCCccc
Confidence            68889999999888 77776553222222  22345777888888888754  44442  34455444322111112222


Q ss_pred             HHHHHhC-CCCCCHHHHHH---HHHHHhhcCCHHHHHHHHHHHhhcCCCC--CCCchhhhhhhhhcCCchHHHHH
Q 036340          487 MDLIKGM-PFEPDKAVWGA---LLGACRVHNNVELAQVAAEALMKVEPEN--STPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       487 ~~~~~~~-~~~~~~~~~~~---l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      ..+++++ ..-|+...-..   ....-.+.|..++|..+|...-++.|..  ...|...-..-.+.|+-+.-.+.
T Consensus       642 R~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keM  716 (835)
T KOG2047|consen  642 REIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEM  716 (835)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHH
Confidence            3333333 12244333322   3344457788888888888777765442  33466665666677774433333

>TIGR00540 hemY_coli hemY protein

Probab=99.51  E-value=2.7e-11  Score=116.11  Aligned_cols=145  Identities=14%  Similarity=0.072  Sum_probs=79.3

Q ss_pred             HHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHH-HHHHhccCCCchhhHHHHHHH
Q 036340          280 LELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFS-SILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       280 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      .+.....+....+   .++..+..++..+...|++++|.+.+++..+..  ||..... .++..+               
T Consensus       245 ~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~---------------  307 (409)
T TIGR00540       245 IDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPI---------------  307 (409)
T ss_pred             HHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHh---------------
Confidence            3444555555543   367777888888888888888888888887753  3322110 011100               


Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-e--eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-V--VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY  431 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  431 (579)
                                       .....++.+.+.+.++... ..|+ +  ....++...+.+.|++++|.+.|+........|+.
T Consensus       308 -----------------~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~  370 (409)
T TIGR00540       308 -----------------PRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA  370 (409)
T ss_pred             -----------------hhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH
Confidence                             1111233344444444332 2222 2  33445666666666666666666643332345666


Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      ..+..+...+.+.|+.++|.++|++..
T Consensus       371 ~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       371 NDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666666666666666666666666543

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.50  E-value=7.7e-10  Score=103.18  Aligned_cols=508  Identities=15%  Similarity=0.158  Sum_probs=323.7

Q ss_pred             hhhhcCCCHHHHHHHhccCCC-----CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHH
Q 036340            3 SGYVKRREMAKARKLFDEMPQ-----RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEME   77 (579)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   77 (579)
                      +.+.++|+...-+..|++++.     .....|...+.-.-..+.   ++-+..+++.-++-+|..-+-.+..+...++++
T Consensus       110 q~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~l---Pets~rvyrRYLk~~P~~~eeyie~L~~~d~~~  186 (835)
T KOG2047|consen  110 QFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGL---PETSIRVYRRYLKVAPEAREEYIEYLAKSDRLD  186 (835)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCC---hHHHHHHHHHHHhcCHHHHHHHHHHHHhccchH
Confidence            456788999999999999875     355678888877777777   899999999999888888889999999999999


Q ss_pred             HHHHHhhcCCC----------CchhhHHHHHHHHHhcCC---hhhHHHHHccCCCC----CcchHHHHHHHHHhCCCHHH
Q 036340           78 EALRLFNSMPA----------RNVVSWNAMISGFLQNGD---VANAIEFFDRMPGR----DSASLSALVSGLIQNGELDE  140 (579)
Q Consensus        78 ~A~~~~~~~~~----------~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~  140 (579)
                      +|-+.+.....          .+...|..+-+...++-+   --....+++.+...    -...|..|+.-|.+.|.++.
T Consensus       187 eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ek  266 (835)
T KOG2047|consen  187 EAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEK  266 (835)
T ss_pred             HHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHH
Confidence            99999998872          233456666665555433   22344555555542    23568889999999999999


Q ss_pred             HHHHHHHhccCCCCCCCchhhHHHHHHHHhhCC----------------------CHHHHHHHHccccccCCCCCCC---
Q 036340          141 AARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRG----------------------RVEEARKLFDKIPVNCDRGEGN---  195 (579)
Q Consensus       141 A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----------------------~~~~A~~~~~~~~~~~~~~~~~---  195 (579)
                      |.++|++.+..    .....-|..+...|....                      +++-...-|+.+....+.....   
T Consensus       267 arDvyeeai~~----v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlL  342 (835)
T KOG2047|consen  267 ARDVYEEAIQT----VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLL  342 (835)
T ss_pred             HHHHHHHHHHh----heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHH
Confidence            99999998774    222333444444444321                      1112222222222000000000   


Q ss_pred             ccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-C--------hhHHHHHHHHHHhcCChHHHHHHhhcCCCCC---
Q 036340          196 VRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-D--------TFSWNTMISGYIHVLDMEEASNLFVKMPHPD---  263 (579)
Q Consensus       196 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  263 (579)
                      ..-+.+...|..-+.  +..|+..+-...|.+++.. |        ...|..+.+.|-..|+.+.|..+|++..+.+   
T Consensus       343 RQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~  420 (835)
T KOG2047|consen  343 RQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKT  420 (835)
T ss_pred             hcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccc
Confidence            000122223322222  2346666677777766432 1        2358889999999999999999999998332   


Q ss_pred             ----hhhHHHHHHHHHhcCCHHHHHHHHccCCC---------------------CChhhHHHHHHHHHhCCCchHHHHHH
Q 036340          264 ----TLTWNAMVSGYAQIGNLELALDFFKRMPQ---------------------KNLVSWNSMIAGCETNKDYEGAIKLF  318 (579)
Q Consensus       264 ----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------------------~~~~~~~~l~~~~~~~~~~~~a~~~~  318 (579)
                          ..+|......-.+..+++.|.++++....                     ++...|...+..--..|-++....+|
T Consensus       421 v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vY  500 (835)
T KOG2047|consen  421 VEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVY  500 (835)
T ss_pred             hHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHH
Confidence                23555566666678889999999887653                     12335666666667778999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCC-CC-chHHHHHHHHhhh---cCCHHHHHHHHHhcc-C
Q 036340          319 IQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVI-PD-VPINNALITMYAR---CGAIVEARIIFEEMK-L  392 (579)
Q Consensus       319 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~~l~~~~~~---~~~~~~A~~~~~~~~-~  392 (579)
                      +++++..+.. +.........+.....++.+.++++..-.-++ |+ -.+|+..+.-+.+   ..+++.|..+|++.. .
T Consensus       501 driidLriaT-Pqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~  579 (835)
T KOG2047|consen  501 DRIIDLRIAT-PQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDG  579 (835)
T ss_pred             HHHHHHhcCC-HHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhc
Confidence            9998876542 22222233334455667777777777333332 33 2345544433332   347899999999875 2


Q ss_pred             CCCeeeHHHHHHHHH----hcCChHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC
Q 036340          393 LKNVVSWNAMIGGCA----SHGFATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR  466 (579)
Q Consensus       393 ~~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  466 (579)
                      -| +.....+.-.|+    ..|-...|+.++++... ++.+...  .|+..|.--...=.+.....+|+++++...-...
T Consensus       580 Cp-p~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~  657 (835)
T KOG2047|consen  580 CP-PEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKA  657 (835)
T ss_pred             CC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHH
Confidence            23 222222222233    45888899999999775 4555443  7888777444444455667788888764221122


Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhCC--CCC--CHHHHHHHHHHHhhcCCHHHHHHHH
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGMP--FEP--DKAVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~--~~~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      .......++.-.+.|..+.|..++.-..  .+|  +...|...-.--.++|+-+.-.+++
T Consensus       658 r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keML  717 (835)
T KOG2047|consen  658 REMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEML  717 (835)
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHHH
Confidence            3445566777789999999999987662  234  5667777766667888854444443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.48  E-value=2.4e-09  Score=102.64  Aligned_cols=453  Identities=16%  Similarity=0.180  Sum_probs=210.6

Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCc-hhhHHHHHHHHHhcCChhhHHHHHccCCCC---
Q 036340           45 LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARN-VVSWNAMISGFLQNGDVANAIEFFDRMPGR---  120 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---  120 (579)
                      +++|+.+|++-.+     |..|=+.|...|.+++|.++-+.-..-. ..+|......+-..+|.+.|++.|++...+   
T Consensus       816 lEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafe  890 (1416)
T KOG3617|consen  816 LEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFE  890 (1416)
T ss_pred             HHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHH
Confidence            5666665555432     3344445555566666666554332211 124444445555556666666666554221   


Q ss_pred             --------------------CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHH
Q 036340          121 --------------------DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARK  180 (579)
Q Consensus       121 --------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  180 (579)
                                          |...|.-..+-+-..|+.+.|+.+|..+..           |..++...|-+|+.++|-+
T Consensus       891 v~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D-----------~fs~VrI~C~qGk~~kAa~  959 (1416)
T KOG3617|consen  891 VFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD-----------YFSMVRIKCIQGKTDKAAR  959 (1416)
T ss_pred             HHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh-----------hhhheeeEeeccCchHHHH
Confidence                                222222222333345555555555554332           4445555555555555555


Q ss_pred             HHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcC-------------
Q 036340          181 LFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVL-------------  247 (579)
Q Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-------------  247 (579)
                      +-++-              -|......+.+.|-..|++.+|..+|.+.     .++.+.|+.|-.++             
T Consensus       960 iA~es--------------gd~AAcYhlaR~YEn~g~v~~Av~FfTrA-----qafsnAIRlcKEnd~~d~L~nlal~s~ 1020 (1416)
T KOG3617|consen  960 IAEES--------------GDKAACYHLARMYENDGDVVKAVKFFTRA-----QAFSNAIRLCKENDMKDRLANLALMSG 1020 (1416)
T ss_pred             HHHhc--------------ccHHHHHHHHHHhhhhHHHHHHHHHHHHH-----HHHHHHHHHHHhcCHHHHHHHHHhhcC
Confidence            55443              24445556666666667766666666554     22222222221111             


Q ss_pred             --ChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--------------CChhhHHHHHHHHHhCCCc
Q 036340          248 --DMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--------------KNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       248 --~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------------~~~~~~~~l~~~~~~~~~~  311 (579)
                        +.-.|-++|++..    .-+...+..|.+.|.+.+|+++--+-.+              .|+...+.-...++...++
T Consensus      1021 ~~d~v~aArYyEe~g----~~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qy 1096 (1416)
T KOG3617|consen 1021 GSDLVSAARYYEELG----GYAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQY 1096 (1416)
T ss_pred             chhHHHHHHHHHHcc----hhhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHH
Confidence              1122223333221    0111223345555555555554332222              2344445555556666666


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH--HhhcCCCC----chHHHHHHHHhhhcCCHHHHHH
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM--VTKTVIPD----VPINNALITMYARCGAIVEARI  385 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~~~~~----~~~~~~l~~~~~~~~~~~~A~~  385 (579)
                      ++|..++-...+         |...+..|...+ +..-.++-++  ..+...|+    ..+...+...+.+.|.+..|-+
T Consensus      1097 ekAV~lL~~ar~---------~~~AlqlC~~~n-v~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtK 1166 (1416)
T KOG3617|consen 1097 EKAVNLLCLARE---------FSGALQLCKNRN-VRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATK 1166 (1416)
T ss_pred             HHHHHHHHHHHH---------HHHHHHHHhcCC-CchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHH
Confidence            666666544432         222333332222 2222222222  11212222    2345567777788888888877


Q ss_pred             HHHhccCCCCeeeHHHHHHHHHhcCChHHH----------------HHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHH
Q 036340          386 IFEEMKLLKNVVSWNAMIGGCASHGFATEA----------------LELFKSMRSFKVLPTYITFISVLSACAHAGLVEE  449 (579)
Q Consensus       386 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A----------------~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  449 (579)
                      -|.+...+      ...++++.+.|+.++.                -.+++.   ...+.++.+...++..|.+...++.
T Consensus      1167 KfTQAGdK------l~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQt---lDWq~~pq~mK~I~tFYTKgqafd~ 1237 (1416)
T KOG3617|consen 1167 KFTQAGDK------LSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQT---LDWQDNPQTMKDIETFYTKGQAFDH 1237 (1416)
T ss_pred             HHhhhhhH------HHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhh---cccccChHHHhhhHhhhhcchhHHH
Confidence            77665411      2345556666654441                122221   1344455555555555555544554


Q ss_pred             HHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCC-HHHHHHH----------HHHHh-hcCCHHH
Q 036340          450 GRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPD-KAVWGAL----------LGACR-VHNNVEL  517 (579)
Q Consensus       450 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l----------~~~~~-~~~~~~~  517 (579)
                      --.+|....+     ...+-|..+-.   ..|-.++|...+.++..+.+ ...++.|          ++... -..|..+
T Consensus      1238 LanFY~~cAq-----iEiee~q~ydK---a~gAl~eA~kCl~ka~~k~~~~t~l~~Lq~~~a~vk~~l~~~q~~~eD~~~ 1309 (1416)
T KOG3617|consen 1238 LANFYKSCAQ-----IEIEELQTYDK---AMGALEEAAKCLLKAEQKNMSTTGLDALQEDLAKVKVQLRKLQIMKEDAAD 1309 (1416)
T ss_pred             HHHHHHHHHH-----hhHHHHhhhhH---HhHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            4444443321     01111211111   12334455555544432211 1122222          22211 1224555


Q ss_pred             HHHHHHHHhhcCCCCC------CCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          518 AQVAAEALMKVEPENS------TPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       518 A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .+...+.+++ .|..+      ..+..|+..|....+|..|.+.+++|.++..
T Consensus      1310 ~i~qc~~lle-ep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p 1361 (1416)
T KOG3617|consen 1310 GIRQCTTLLE-EPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVP 1361 (1416)
T ss_pred             HHHHHHHHhh-CcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCC
Confidence            5555554443 23332      2367788888999999999999999876553

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.48  E-value=2.5e-10  Score=98.67  Aligned_cols=463  Identities=12%  Similarity=0.063  Sum_probs=234.2

Q ss_pred             HHHHHccCCHHHHHHHhhcCCCC---ch-hhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHH
Q 036340           67 ISGYAKTGEMEEALRLFNSMPAR---NV-VSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELD  139 (579)
Q Consensus        67 ~~~~~~~g~~~~A~~~~~~~~~~---~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~  139 (579)
                      +.-+....|+..|+.+++--...   .. .+-.-+..++.+.||+++|...+.-+..   ++...+..++-.+.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            34445567777777776654411   11 1222234555666777777766665543   23444555555555666666


Q ss_pred             HHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHH
Q 036340          140 EAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVV  219 (579)
Q Consensus       140 ~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  219 (579)
                      +|..+...+.+       ++..-..+.....+.|+-++-..+.+.+.             ....--.+|+......-.+.
T Consensus       109 eA~~~~~ka~k-------~pL~~RLlfhlahklndEk~~~~fh~~Lq-------------D~~EdqLSLAsvhYmR~HYQ  168 (557)
T KOG3785|consen  109 EAKSIAEKAPK-------TPLCIRLLFHLAHKLNDEKRILTFHSSLQ-------------DTLEDQLSLASVHYMRMHYQ  168 (557)
T ss_pred             HHHHHHhhCCC-------ChHHHHHHHHHHHHhCcHHHHHHHHHHHh-------------hhHHHHHhHHHHHHHHHHHH
Confidence            66666555322       22223334444555566555555555543             11122333444444444566


Q ss_pred             HHHHHHHhcCCCChh--HHHH-HHHHHHhcCChHHHHHHhhcCC--CCC-hhhHHHHHHHHHhcCCHHHHHHHHccCCCC
Q 036340          220 SAREIFEQMLERDTF--SWNT-MISGYIHVLDMEEASNLFVKMP--HPD-TLTWNAMVSGYAQIGNLELALDFFKRMPQK  293 (579)
Q Consensus       220 ~A~~~~~~~~~~~~~--~~~~-l~~~~~~~~~~~~a~~~~~~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  293 (579)
                      +|+++|+.++..++.  ..|. +.-+|.+..-++-+.++++...  -|| +...+..+....+.=+-..|++-.+.+.+.
T Consensus       169 eAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN  248 (557)
T KOG3785|consen  169 EAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADN  248 (557)
T ss_pred             HHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhc
Confidence            677777766554332  2232 2334455555555555554443  233 233333333333322211222222221111


Q ss_pred             ChhhHHHHHHHHHhC-----CCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHH-
Q 036340          294 NLVSWNSMIAGCETN-----KDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPIN-  367 (579)
Q Consensus       294 ~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-  367 (579)
                      -...|.. +.-.++.     .+-+.|++++--+.+.  .|.  .-..++--+.+.+++..|..+.+...   |.++.-| 
T Consensus       249 ~~~~~~f-~~~l~rHNLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~---PttP~Eyi  320 (557)
T KOG3785|consen  249 IDQEYPF-IEYLCRHNLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLD---PTTPYEYI  320 (557)
T ss_pred             ccccchh-HHHHHHcCeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcC---CCChHHHH
Confidence            1111111 1111111     2334555555444331  222  22233444667777777766654422   1122222 


Q ss_pred             ------HHHHHHhhhcCCHHHHHHHHHhcc----CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHH
Q 036340          368 ------NALITMYARCGAIVEARIIFEEMK----LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISV  437 (579)
Q Consensus       368 ------~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  437 (579)
                            ..+..-........-|.+.|.-..    ...+..--.++...+.-..++++.+-.+.....-- ..|..-...+
T Consensus       321 lKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~  399 (557)
T KOG3785|consen  321 LKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNL  399 (557)
T ss_pred             HHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHH
Confidence                  222222222233445556665443    12233345566666666677777777777776532 2233333346


Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHH-HHHHHhhcCCHH
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGA-LLGACRVHNNVE  516 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~  516 (579)
                      ..+.+..|.+.+|.++|-.+... .++.+......|+++|.+.++++-|.+++-++..+.+..+... +..-|.+.+++-
T Consensus       400 AQAk~atgny~eaEelf~~is~~-~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFy  478 (557)
T KOG3785|consen  400 AQAKLATGNYVEAEELFIRISGP-EIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFY  478 (557)
T ss_pred             HHHHHHhcChHHHHHHHhhhcCh-hhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence            67888888888888888766421 2222333335677888888888888888887764444444444 446688888888


Q ss_pred             HHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCCc
Q 036340          517 LAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTG  569 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  569 (579)
                      -|.+.|..+..++|. |..|.         |+--....+|..+....-.+.|+
T Consensus       479 yaaKAFd~lE~lDP~-pEnWe---------GKRGACaG~f~~l~~~~~~~~p~  521 (557)
T KOG3785|consen  479 YAAKAFDELEILDPT-PENWE---------GKRGACAGLFRQLANHKTDPIPI  521 (557)
T ss_pred             HHHHhhhHHHccCCC-ccccC---------CccchHHHHHHHHHcCCCCCCch
Confidence            888888888777776 34343         33334456666665544444443

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.48  E-value=5.7e-11  Score=101.29  Aligned_cols=282  Identities=14%  Similarity=0.144  Sum_probs=180.8

Q ss_pred             CCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHh
Q 036340          135 NGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK  214 (579)
Q Consensus       135 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  214 (579)
                      +.+.++|.+.|-++.+   ..+.+..+..+|++.|.+.|..|.|+.+...+..++     +..+..-..+...|..-|..
T Consensus        48 s~Q~dKAvdlF~e~l~---~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~sp-----dlT~~qr~lAl~qL~~Dym~  119 (389)
T COG2956          48 SNQPDKAVDLFLEMLQ---EDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESP-----DLTFEQRLLALQQLGRDYMA  119 (389)
T ss_pred             hcCcchHHHHHHHHHh---cCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCC-----CCchHHHHHHHHHHHHHHHH
Confidence            5678899999999888   667777888899999999999999999998887321     11222234455667788888


Q ss_pred             cCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCChHHHHHHhhcCCCCChh--------hHHHHHHHHHhcCCHHHH
Q 036340          215 AGDVVSAREIFEQMLERD---TFSWNTMISGYIHVLDMEEASNLFVKMPHPDTL--------TWNAMVSGYAQIGNLELA  283 (579)
Q Consensus       215 ~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~l~~~~~~~g~~~~A  283 (579)
                      .|-++.|+.+|..+.+.+   ..+...++..|....+|++|+++-+++.+.+..        .|.-|...+....+.+.|
T Consensus       120 aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A  199 (389)
T COG2956         120 AGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRA  199 (389)
T ss_pred             hhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHH
Confidence            999999999999887743   345667788888888888888877766522222        244445555556677777


Q ss_pred             HHHHccCCCCC---hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcC
Q 036340          284 LDFFKRMPQKN---LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV  360 (579)
Q Consensus       284 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  360 (579)
                      ..++.+..+.|   +..--.+...+...|++..|++.++...+.+..-                                
T Consensus       200 ~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~y--------------------------------  247 (389)
T COG2956         200 RELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEY--------------------------------  247 (389)
T ss_pred             HHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHH--------------------------------
Confidence            77777766533   2334455566777777777777777776653221                                


Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLS  439 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  439 (579)
                        -+.+...|..+|...|+.++....+..+. ..+++..-..+...-....-.+.|..++.+-..  -.|+...+..++.
T Consensus       248 --l~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~--r~Pt~~gf~rl~~  323 (389)
T COG2956         248 --LSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLR--RKPTMRGFHRLMD  323 (389)
T ss_pred             --HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHh--hCCcHHHHHHHHH
Confidence              12233456667777777777777766653 344444444444444334444555555554443  2577777776766


Q ss_pred             Hhc---ccCcHHHHHHHHHHhHHh
Q 036340          440 ACA---HAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       440 ~~~---~~~~~~~a~~~~~~~~~~  460 (579)
                      ...   ..|...+-...++.|+.+
T Consensus       324 ~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         324 YHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             hhhccccccchhhhHHHHHHHHHH
Confidence            432   233455555556666543

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.47  E-value=7e-11  Score=104.02  Aligned_cols=274  Identities=15%  Similarity=0.119  Sum_probs=156.3

Q ss_pred             CCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHh
Q 036340          135 NGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK  214 (579)
Q Consensus       135 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  214 (579)
                      .|++..|++.+.+..+.  + +.....|..-+.+....||.+.+-.++.++.        +..-.++.....+..+....
T Consensus        97 eG~~~qAEkl~~rnae~--~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaa--------e~~~~~~l~v~ltrarlll~  165 (400)
T COG3071          97 EGDFQQAEKLLRRNAEH--G-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAA--------ELAGDDTLAVELTRARLLLN  165 (400)
T ss_pred             cCcHHHHHHHHHHhhhc--C-cchHHHHHHHHHHHHhcccHHHHHHHHHHHh--------ccCCCchHHHHHHHHHHHHh
Confidence            46666666666665443  1 2223344455555556666666666666665        11113344455555556666


Q ss_pred             cCCHHHHHHHHHhcCC---CChhHHHHHHHHHHhcCChHHHHHHhhcCCC-----------CChhhHHHHHHHHHhcCCH
Q 036340          215 AGDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDMEEASNLFVKMPH-----------PDTLTWNAMVSGYAQIGNL  280 (579)
Q Consensus       215 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~~l~~~~~~~g~~  280 (579)
                      .|+++.|..-.+++.+   .++.......++|.+.|++.....++.++.+           -...++..+++-....+..
T Consensus       166 ~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         166 RRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            6666666655555543   2444555555666666666666666655541           1123566666655555556


Q ss_pred             HHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHh
Q 036340          281 ELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT  357 (579)
Q Consensus       281 ~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  357 (579)
                      +.-...++...+   .++..-..++.-+...|+.++|.++..+..+.+..|...+    +-.+.+.++...-.+..+...
T Consensus       246 ~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~----~~~~l~~~d~~~l~k~~e~~l  321 (400)
T COG3071         246 EGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCR----LIPRLRPGDPEPLIKAAEKWL  321 (400)
T ss_pred             hHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHH----HHhhcCCCCchHHHHHHHHHH
Confidence            666667777664   4566777788888899999999999999888877666221    223445555555555555544


Q ss_pred             hcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhc-cCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhH
Q 036340          358 KTVIPDVPINNALITMYARCGAIVEARIIFEEM-KLLKNVVSWNAMIGGCASHGFATEALELFKSMR  423 (579)
Q Consensus       358 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  423 (579)
                      +..+.++..+.+|...|.+.+.+.+|...|+.. ...|+..+|+.+..++.+.|+..+|.+..++..
T Consensus       322 ~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         322 KQHPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            444444455555555555555555555555543 244555555555555555555555555555544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.45  E-value=8.3e-12  Score=111.18  Aligned_cols=199  Identities=11%  Similarity=0.050  Sum_probs=163.7

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      ....+..+...+...|++++|...+++.. ..| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            35567778889999999999999998864 233 45677888889999999999999999998653 3344577778888


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|.+.+++++...........+..++.++...|++++|...+.+. ...| +...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999764222224556778889999999999999999887 3334 566788888999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      ...++++.+..|.++..+..++.++...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999988888888888999999999999999998887643

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.44  E-value=8.3e-12  Score=106.35  Aligned_cols=238  Identities=12%  Similarity=0.022  Sum_probs=160.5

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC
Q 036340          299 NSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCG  378 (579)
Q Consensus       299 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  378 (579)
                      +.+..+|.+.|.+.+|...++...+.  .|-..||..+-++|.+..++..|..++......+|.++.....+.+.+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHH
Confidence            44566666667777776666665554  3444456556666666666666666666655556666666666777788888


Q ss_pred             CHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHH
Q 036340          379 AIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKS  456 (579)
Q Consensus       379 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  456 (579)
                      +.++|.++|+...  .+.++.....+...|.-.++++-|+.+++++.+.|+ -+...|+.+.-+|...+++|-++..|++
T Consensus       305 ~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             hHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            8888888888764  234566666667777778888888888888888774 3456777777788888888888888887


Q ss_pred             hHHhhCCCCC--cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          457 MVNEYGIEPR--IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       457 ~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      .... .-.|+  .++|..+..+....||+.-|.+.|+-. ...| ....++.+...-.+.|++++|..++..+....|+-
T Consensus       384 Alst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m  462 (478)
T KOG1129|consen  384 ALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDM  462 (478)
T ss_pred             HHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccc
Confidence            7653 33343  456677777777777777777777655 2233 45567777766667777777777777777777765


Q ss_pred             CCCchhhh
Q 036340          533 STPYVLLY  540 (579)
Q Consensus       533 ~~~~~~l~  540 (579)
                      ......+.
T Consensus       463 ~E~~~Nl~  470 (478)
T KOG1129|consen  463 AEVTTNLQ  470 (478)
T ss_pred             ccccccee
Confidence            54444443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.44  E-value=2.6e-09  Score=102.50  Aligned_cols=396  Identities=14%  Similarity=0.143  Sum_probs=228.0

Q ss_pred             hhhcCCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC------------CCCcchHHHHHHHHH
Q 036340            4 GYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMP------------ERDCVTWNTVISGYA   71 (579)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~------------~~~~~~~~~l~~~~~   71 (579)
                      .|+.-|+.+.|.+..+.+..  ...|..+...+.+.++   ++-|.-.+-.|.            +.+..+-..+.....
T Consensus       737 fyvtiG~MD~AfksI~~IkS--~~vW~nmA~McVkT~R---LDVAkVClGhm~~aRgaRAlR~a~q~~~e~eakvAvLAi  811 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIKS--DSVWDNMASMCVKTRR---LDVAKVCLGHMKNARGARALRRAQQNGEEDEAKVAVLAI  811 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHhh--hHHHHHHHHHhhhhcc---ccHHHHhhhhhhhhhhHHHHHHHHhCCcchhhHHHHHHH
Confidence            46778899999888777653  4458888888888777   666655554443            222244444555556


Q ss_pred             ccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCC-CcchHHHHHHHHHhCCCHHHHHHHHHHhcc
Q 036340           72 KTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR-DSASLSALVSGLIQNGELDEAARVLVKCGS  150 (579)
Q Consensus        72 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  150 (579)
                      ..|.+++|+.+|.+-..     |..|=..|...|.+++|.++.+.-.+- -..+|...+.-+-..++.+.|++.|++...
T Consensus       812 eLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~  886 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGV  886 (1416)
T ss_pred             HHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCC
Confidence            78999999999988753     344556777889999999988775442 345778888888888999999999987432


Q ss_pred             CCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 036340          151 RCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE  230 (579)
Q Consensus       151 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  230 (579)
                            +....+..|.      .++.....+.+.+.              |...|.-....+-..|+.+.|+.+|...  
T Consensus       887 ------hafev~rmL~------e~p~~~e~Yv~~~~--------------d~~L~~WWgqYlES~GemdaAl~~Y~~A--  938 (1416)
T KOG3617|consen  887 ------HAFEVFRMLK------EYPKQIEQYVRRKR--------------DESLYSWWGQYLESVGEMDAALSFYSSA--  938 (1416)
T ss_pred             ------hHHHHHHHHH------hChHHHHHHHHhcc--------------chHHHHHHHHHHhcccchHHHHHHHHHh--
Confidence                  1111222221      12333344444443              3345555566666677777777777654  


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC-CC-------hhhHHHHH
Q 036340          231 RDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ-KN-------LVSWNSMI  302 (579)
Q Consensus       231 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-------~~~~~~l~  302 (579)
                         .-|..+++..+-.|+.++|-++-++  ..|......|.+.|-..|++.+|..+|.+... .|       ...-..|.
T Consensus       939 ---~D~fs~VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqafsnAIRlcKEnd~~d~L~ 1013 (1416)
T KOG3617|consen  939 ---KDYFSMVRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQAFSNAIRLCKENDMKDRLA 1013 (1416)
T ss_pred             ---hhhhhheeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence               3456666667777777777777666  35666666777777777777777777776542 00       00011111


Q ss_pred             HHHHhC--CCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHH---------HHHHhhcC--CCCchHHHH
Q 036340          303 AGCETN--KDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQI---------HQMVTKTV--IPDVPINNA  369 (579)
Q Consensus       303 ~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~---------~~~~~~~~--~~~~~~~~~  369 (579)
                      ..+...  .+.-.|-.+|++.   |.     -+......|.+.|.+.+|.++         ++.+.+..  ..|+...+.
T Consensus      1014 nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~R 1085 (1416)
T KOG3617|consen 1014 NLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRR 1085 (1416)
T ss_pred             HHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHH
Confidence            111111  1222333334332   11     122223344455555555443         22222222  235666666


Q ss_pred             HHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC-CCCChh----hHHHHHHHhccc
Q 036340          370 LITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK-VLPTYI----TFISVLSACAHA  444 (579)
Q Consensus       370 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~----~~~~l~~~~~~~  444 (579)
                      -.+.++...++++|..++-...      .|...+..| ...+..-..++-+.|.-.. -.|+..    ....+...|.++
T Consensus      1086 cadFF~~~~qyekAV~lL~~ar------~~~~AlqlC-~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQ 1158 (1416)
T KOG3617|consen 1086 CADFFENNQQYEKAVNLLCLAR------EFSGALQLC-KNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQ 1158 (1416)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHH------HHHHHHHHH-hcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhc
Confidence            7777777777777777765543      122223322 2333333444444443221 223322    445566678888


Q ss_pred             CcHHHHHHHHHHh
Q 036340          445 GLVEEGRQHFKSM  457 (579)
Q Consensus       445 ~~~~~a~~~~~~~  457 (579)
                      |.+..|-+-|.++
T Consensus      1159 G~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1159 GAYHAATKKFTQA 1171 (1416)
T ss_pred             cchHHHHHHHhhh
Confidence            8888777666554

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=8.4e-10  Score=97.45  Aligned_cols=274  Identities=11%  Similarity=0.019  Sum_probs=196.8

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHH---HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHH
Q 036340          261 HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNS---MIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSIL  337 (579)
Q Consensus       261 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  337 (579)
                      +.|......+..++...|+.++|+..|++..--|+.+...   ....+...|++++...+...+....- -....|..-.
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~  307 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVHA  307 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhhh
Confidence            5677777888888888888888888888776544443332   23344566777777777666654221 1112222222


Q ss_pred             HhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CC-CCeeeHHHHHHHHHhcCChHHH
Q 036340          338 SMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LL-KNVVSWNAMIGGCASHGFATEA  415 (579)
Q Consensus       338 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~A  415 (579)
                      ......+++..|..+-++.-...+.+...+..-..++...+++++|.=.|++.. .. -+...|..|+.+|...|++.+|
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA  387 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEA  387 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHH
Confidence            333455666666666666444455566667677788888999999999998875 23 4778899999999999999999


Q ss_pred             HHHHHHhHhCCCCCChhhHHHHH-HH-hcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHh
Q 036340          416 LELFKSMRSFKVLPTYITFISVL-SA-CAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKG  492 (579)
Q Consensus       416 ~~~~~~~~~~~~~p~~~~~~~l~-~~-~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~  492 (579)
                      .......... ++.+..+...+. .. +.....-++|.+++++.+   .+.|+ ......+++.+...|...+++.++++
T Consensus       388 ~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  388 NALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            9888776642 334445666553 33 334455688999998776   55775 56677888999999999999999988


Q ss_pred             C-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          493 M-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       493 ~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      . ...||....+.+...+...+.+.+|...|..++.++|++-.+...|
T Consensus       464 ~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~sl~Gl  511 (564)
T KOG1174|consen  464 HLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKRTLRGL  511 (564)
T ss_pred             HHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchHHHHHH
Confidence            7 6678999999999999999999999999999999999987655554

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.42  E-value=3.4e-10  Score=109.39  Aligned_cols=425  Identities=12%  Similarity=0.082  Sum_probs=236.8

Q ss_pred             CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC
Q 036340          120 RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK  199 (579)
Q Consensus       120 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  199 (579)
                      +++.++..++..-...|+.+.|..++.+|.++  |.|-..+.|..++.+   .++...+..+++-|.        ..|+.
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~--gfpir~HyFwpLl~g---~~~~q~~e~vlrgmq--------e~gv~  268 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEK--GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQ--------EKGVQ  268 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHc--CCCcccccchhhhhc---CccchHHHHHHHHHH--------HhcCC
Confidence            57778888888888999999999999999998  778777777777655   778888888888887        77999


Q ss_pred             cchHHHHHHHHHHHhcCCHHHHHH-----------HHHhcCC-----------------------------CChhHHHHH
Q 036340          200 RNIVSWNSMIMCYAKAGDVVSARE-----------IFEQMLE-----------------------------RDTFSWNTM  239 (579)
Q Consensus       200 ~~~~~~~~l~~~~~~~~~~~~A~~-----------~~~~~~~-----------------------------~~~~~~~~l  239 (579)
                      |+..|+...+..+..+|....+.+           ++..+..                             .....|...
T Consensus       269 p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c  348 (1088)
T KOG4318|consen  269 PGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMC  348 (1088)
T ss_pred             CCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHH
Confidence            999998877776666444221111           1111100                             011122222


Q ss_pred             HHHHHhcCChHHHHHHhhcCC-------CCChhhHHHHHHHHHhc----------------------CCHHHHHHHHccC
Q 036340          240 ISGYIHVLDMEEASNLFVKMP-------HPDTLTWNAMVSGYAQI----------------------GNLELALDFFKRM  290 (579)
Q Consensus       240 ~~~~~~~~~~~~a~~~~~~~~-------~~~~~~~~~l~~~~~~~----------------------g~~~~A~~~~~~~  290 (579)
                      . -....|.-+...++-..+.       ..++..|..++.-|.+.                      ....+..+.....
T Consensus       349 ~-~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l  427 (1088)
T KOG4318|consen  349 E-KLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL  427 (1088)
T ss_pred             H-HHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh
Confidence            2 1222566666666655554       12233343333333221                      1111111111111


Q ss_pred             CCCCh-----------------hh-----------HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccC
Q 036340          291 PQKNL-----------------VS-----------WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG  342 (579)
Q Consensus       291 ~~~~~-----------------~~-----------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (579)
                      . ||.                 ..           -+.++..+++.-+..+++..-++.... ..|  ..|..++..+..
T Consensus       428 r-kns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~-lf~--g~ya~Li~l~~~  503 (1088)
T KOG4318|consen  428 R-KNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDL-LFA--GLYALLIKLMDL  503 (1088)
T ss_pred             C-cchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhh--hHHHHHhhhHHH
Confidence            1 111                 01           123333444444444444332222211 111  456677777777


Q ss_pred             CCchhhHHHHHHH---HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCC-eeeHHHHHHHHHhcCChHH
Q 036340          343 IVDLHLGMQIHQM---VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK----LLKN-VVSWNAMIGGCASHGFATE  414 (579)
Q Consensus       343 ~~~~~~a~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~-~~~~~~l~~~~~~~~~~~~  414 (579)
                      ....+.|..+.+.   ....+..+...+..+.+.+.+.+...++..++.++.    ..|+ ..++--++......|+.+.
T Consensus       504 hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~  583 (1088)
T KOG4318|consen  504 HDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEK  583 (1088)
T ss_pred             HHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHH
Confidence            7777777777666   233344566677788888888888888888888775    2222 1223334444555666655


Q ss_pred             HHHHHHHhHhCCCC------------------------------CChhhHHHHHHH---------------------hcc
Q 036340          415 ALELFKSMRSFKVL------------------------------PTYITFISVLSA---------------------CAH  443 (579)
Q Consensus       415 A~~~~~~~~~~~~~------------------------------p~~~~~~~l~~~---------------------~~~  443 (579)
                      ..++++-+...|+.                              |.+.....+.+.                     |.+
T Consensus       584 Lkkl~d~lvslgl~etgPl~~vhLrkdd~s~a~ea~e~~~qkyk~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k  663 (1088)
T KOG4318|consen  584 LKKLADILVSLGLSETGPLWMVHLRKDDQSAAQEAPEPEEQKYKPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEK  663 (1088)
T ss_pred             HHHHHHHHHHhhhhhcccceEEEeeccchhhhhhcchHHHHHhcCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHh
Confidence            55555554443322                              211111111111                     122


Q ss_pred             cCcHHHHHHHHHHhHHhhCCC--C--C--------------------cchhHHHHHHhhccCChHHHHHHHHhCCCCCCH
Q 036340          444 AGLVEEGRQHFKSMVNEYGIE--P--R--------------------IEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDK  499 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~--~--~--------------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  499 (579)
                      .|++.+|..+.+.    .|+.  +  |                    ......|...|.+.|+++.|..++.++++.|+.
T Consensus       664 ~g~~~~a~di~et----pG~r~r~~RDr~~de~e~~~lEll~elt~~lg~~dRLL~sy~~~g~~erA~glwnK~QV~k~~  739 (1088)
T KOG4318|consen  664 LGSCVDAGDITET----PGVRCRNGRDRDTDEGEIVPLELLLELTHELGKNDRLLQSYLEEGRIERASGLWNKDQVSKSP  739 (1088)
T ss_pred             cccccchhhcccc----CcccccCCCccccccCccccHHHHHHHHhHhHHHHHHHHHHHhhhHHHHHHhHHhhCcCCcch
Confidence            2222222222210    0110  0  0                    011123566788899999999999999888888


Q ss_pred             HHHHHHHHHHhhcC---CHHHHHHHHHHHhhcCCCCCCC---chhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          500 AVWGALLGACRVHN---NVELAQVAAEALMKVEPENSTP---YVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       500 ~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      .+...++..+.+..   |..++...-+++.+..|..+.+   +...+....+-...+.|.+.+.+..+.....
T Consensus       740 ~~l~~LAsIlr~~n~evdvPe~q~e~ekas~~~~~f~ttt~~~~~~a~~a~q~~qkkaAkk~f~r~eeq~~v~  812 (1088)
T KOG4318|consen  740 MKLFHLASILRRMNEEVDVPEIQAETEKASELRTLFPTTTCYYEGYAFFATQTEQKKAAKKCFERLEEQLTVS  812 (1088)
T ss_pred             HHHHHHHHHHHhhchhccchhHHHHHHHHHhcccccccchHhhhhhHHHHhhHHHHHHHHHHHHHHHHccCCC
Confidence            88888877775543   5667777777777777665543   3344444455555557888888887775443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.42  E-value=1.1e-09  Score=104.48  Aligned_cols=416  Identities=13%  Similarity=0.072  Sum_probs=250.8

Q ss_pred             CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC
Q 036340          120 RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK  199 (579)
Q Consensus       120 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  199 (579)
                      .++..|..+.-++...|+++.+.+.|++...   ..-.....|+.+...+...|.-..|..+++.....       ..-+
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~---~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~-------~~~p  390 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALP---FSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKK-------SEQP  390 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhH---hhhhhHHHHHHHHHHHHHhccchHHHHHHHhhccc-------ccCC
Confidence            3556667777888889999999999999877   55556677888888899999988899998887611       1113


Q ss_pred             cchHHHHHHHHHHH-hcCCHHHHHHHHHhcCC--------CChhHHHHHHHHHHhc-----------CChHHHHHHhhcC
Q 036340          200 RNIVSWNSMIMCYA-KAGDVVSAREIFEQMLE--------RDTFSWNTMISGYIHV-----------LDMEEASNLFVKM  259 (579)
Q Consensus       200 ~~~~~~~~l~~~~~-~~~~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~  259 (579)
                      +++..+......|. +.+..++++.+-.+++.        -.+..+..+.-+|...           ....++++.+++.
T Consensus       391 s~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~a  470 (799)
T KOG4162|consen  391 SDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEA  470 (799)
T ss_pred             CcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHH
Confidence            34445544444444 34666666666665543        1344455544444322           1244566666666


Q ss_pred             C---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC----CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhh
Q 036340          260 P---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ----KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHT  332 (579)
Q Consensus       260 ~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  332 (579)
                      .   +.|+.+...+.--|+..++++.|.+..++..+    .+...|..|...+...+++..|+.+.+.....-.. |...
T Consensus       471 v~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~-N~~l  549 (799)
T KOG4162|consen  471 VQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD-NHVL  549 (799)
T ss_pred             HhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh-hhhh
Confidence            4   34444444455557778888888888877654    46678888888888888898888888776543110 1111


Q ss_pred             HHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC---CC-C-eeeHHHHHHHHH
Q 036340          333 FSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKL---LK-N-VVSWNAMIGGCA  407 (579)
Q Consensus       333 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~-~-~~~~~~l~~~~~  407 (579)
                      ...-+..-...++.+.+.........-...-.        .....++-....+....+..   .| + +.++..+..-..
T Consensus       550 ~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~--------~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a  621 (799)
T KOG4162|consen  550 MDGKIHIELTFNDREEALDTCIHKLALWEAEY--------GVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVA  621 (799)
T ss_pred             chhhhhhhhhcccHHHHHHHHHHHHHHHHhhh--------hHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHH
Confidence            11111122223444444333221000000000        00011112222333333321   11 1 112222221111


Q ss_pred             hcC---ChHHHHHHHHHhHhCCCCCChh--------hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHH
Q 036340          408 SHG---FATEALELFKSMRSFKVLPTYI--------TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVD  475 (579)
Q Consensus       408 ~~~---~~~~A~~~~~~~~~~~~~p~~~--------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~  475 (579)
                      ..+   ..+..      +.+....|...        .|......+...+..++|...+.+..   ++.| ....|...+.
T Consensus       622 ~~~~~~~se~~------Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~  692 (799)
T KOG4162|consen  622 SQLKSAGSELK------LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGL  692 (799)
T ss_pred             hhhhhcccccc------cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhH
Confidence            111   11111      22222223222        23344456777888888888877775   3344 5667777778


Q ss_pred             HhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHH--HHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          476 IVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQV--AAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      .+...|..++|.+.|... ...| ++.....+...+.+.|+..-|..  ++..+++++|.++.+|+.|+.++...|+.++
T Consensus       693 ~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~  772 (799)
T KOG4162|consen  693 LLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQ  772 (799)
T ss_pred             HHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHH
Confidence            888899999999888776 5566 45678888888989998877777  9999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCC
Q 036340          552 ANEVRLLMKSNN  563 (579)
Q Consensus       552 A~~~~~~~~~~~  563 (579)
                      |.+.|....+..
T Consensus       773 Aaecf~aa~qLe  784 (799)
T KOG4162|consen  773 AAECFQAALQLE  784 (799)
T ss_pred             HHHHHHHHHhhc
Confidence            999998776544

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.42  E-value=3.4e-10  Score=99.77  Aligned_cols=275  Identities=13%  Similarity=0.137  Sum_probs=134.0

Q ss_pred             CCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHH
Q 036340          278 GNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQ  354 (579)
Q Consensus       278 g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  354 (579)
                      |++.+|++...+..+   .....|..-+.+....||.+.+-.++.+..+....++..............|+.+.|..-..
T Consensus        98 G~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~  177 (400)
T COG3071          98 GDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVD  177 (400)
T ss_pred             CcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHH
Confidence            445555554444332   11122222333344445555555555554443223333333333344444555555554444


Q ss_pred             HHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCC-----------CeeeHHHHHHHHHhcCChHHHHHHHHHhH
Q 036340          355 MVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLK-----------NVVSWNAMIGGCASHGFATEALELFKSMR  423 (579)
Q Consensus       355 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  423 (579)
                      ......+.++.+......+|.+.|++.....++.++. +.           ...+|+.+++-....+..+.-...|+...
T Consensus       178 ~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~-ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~p  256 (400)
T COG3071         178 QLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLR-KAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQP  256 (400)
T ss_pred             HHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHH-HccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhcc
Confidence            4444444445555555566666666666666655553 11           11234444444443344444444444443


Q ss_pred             hCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHH
Q 036340          424 SFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAV  501 (579)
Q Consensus       424 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~  501 (579)
                      . ..+-++..-..++.-+...|+.++|.++.++..++ +.+|.   ...++ ...+-++...=++..++.  ..+.++..
T Consensus       257 r-~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~p~L  330 (400)
T COG3071         257 R-KLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQHPEDPLL  330 (400)
T ss_pred             H-HhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhCCCChhH
Confidence            3 12333344444555556666666666666666554 44443   11111 122344444433333333  11223456


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +.+++..|.+++.+.+|...++.+++..|+.. .+..++.++.+.|+..+|....++..
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~-~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALKLRPSAS-DYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhcCCChh-hHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            66666666666666666666666666666643 36666666666666666666666544

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.41  E-value=3.1e-10  Score=108.19  Aligned_cols=426  Identities=13%  Similarity=0.089  Sum_probs=278.9

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHH
Q 036340           88 ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT  164 (579)
Q Consensus        88 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  164 (579)
                      ..++..|..|.-++.+.|+++.+.+.|++...   .....|+.+...+...|.-..|..+++...... ..|++...+..
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~-~~ps~~s~~Lm  398 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKS-EQPSDISVLLM  398 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccc-cCCCcchHHHH
Confidence            35777889999999999999999999998765   356778889999999999999999999987753 12445555555


Q ss_pred             HHHHHh-hCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhc-----------CCHHHHHHHHHhcCCC-
Q 036340          165 LIVGYG-QRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKA-----------GDVVSAREIFEQMLER-  231 (579)
Q Consensus       165 l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~-  231 (579)
                      ....|. +.+.+++++.+-.++......   ..+ ...+..|..+.-+|...           ....++.+.+++.++. 
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~---~~~-~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d  474 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGG---QRS-HLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD  474 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhh---hhh-hhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC
Confidence            555554 467788888877777643211   111 22334455555555432           1234667777777543 


Q ss_pred             --ChhHHHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccCCCC---ChhhHHHHH
Q 036340          232 --DTFSWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQK---NLVSWNSMI  302 (579)
Q Consensus       232 --~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~  302 (579)
                        |+.....+.--|.-.++.+.|.+..++..    ..+...|..|...+...+++.+|+.+.+.....   |......-+
T Consensus       475 ~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~  554 (799)
T KOG4162|consen  475 PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKI  554 (799)
T ss_pred             CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhh
Confidence              56666666677788899999999888776    456788999999999999999999999887652   222222223


Q ss_pred             HHHHhCCCchHHHHHHHHHHHcC--CCCChhhHHHHHHhccCCCchhhHHHHHHH---HhhcCCCCchHHHHHHHHhhhc
Q 036340          303 AGCETNKDYEGAIKLFIQMQVEG--EKPDRHTFSSILSMSSGIVDLHLGMQIHQM---VTKTVIPDVPINNALITMYARC  377 (579)
Q Consensus       303 ~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~~~~~~~~~~~~~l~~~~~~~  377 (579)
                      ..-..-++.++++.....+..--  ..+-..+           ++-....+....   ........+.++..+.......
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~-----------~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~  623 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQT-----------LDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQ  623 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhh-----------hhhhhhhhhhcccccCcccccccchhhHHHHHHHHhh
Confidence            33334677788877776664310  0000000           000000111000   0001111112222222111111


Q ss_pred             CCHHHHHHHHHhccCCCCe--------eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHH
Q 036340          378 GAIVEARIIFEEMKLLKNV--------VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVE  448 (579)
Q Consensus       378 ~~~~~A~~~~~~~~~~~~~--------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~  448 (579)
                      +....-...+......|..        ..|......+.+.++.++|...+.+...  +.|-. ..|......+...|.++
T Consensus       624 ~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~  701 (799)
T KOG4162|consen  624 LKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLE  701 (799)
T ss_pred             hhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhH
Confidence            1100000001111112222        1355666778888999999988888874  45544 47777777888999999


Q ss_pred             HHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHH--HHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHH
Q 036340          449 EGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMD--LIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAE  523 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~--~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  523 (579)
                      +|.+.|...+   .+.| ++.....++.++.+.|+..-|..  ++..+ ..+| ++..|..++..+.+.|+.+.|.+.|.
T Consensus       702 EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~  778 (799)
T KOG4162|consen  702 EAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQ  778 (799)
T ss_pred             HHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHH
Confidence            9999998876   5677 57888999999999998887777  77777 5666 78899999999999999999999999


Q ss_pred             HHhhcCCCCCC
Q 036340          524 ALMKVEPENST  534 (579)
Q Consensus       524 ~~~~~~p~~~~  534 (579)
                      .+.++.+.+|.
T Consensus       779 aa~qLe~S~PV  789 (799)
T KOG4162|consen  779 AALQLEESNPV  789 (799)
T ss_pred             HHHhhccCCCc
Confidence            99999888764

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.40  E-value=3.5e-09  Score=99.14  Aligned_cols=123  Identities=14%  Similarity=0.052  Sum_probs=69.9

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKGMP--FEPDKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  509 (579)
                      ++..++..+-..|+++.|..+++.++   +..|+ ++.|..-++++...|++++|..++++..  ..||...-..-+.-.
T Consensus       373 t~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYm  449 (700)
T KOG1156|consen  373 TLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYM  449 (700)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHH
Confidence            44455566667777777777777666   33554 4555555666777777777777777662  233433333445555


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCC------CCC-Cchh--hhhhhhhcCCchHHHHHHHH
Q 036340          510 RVHNNVELAQVAAEALMKVEPE------NST-PYVL--LYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~------~~~-~~~~--l~~~~~~~g~~~~A~~~~~~  558 (579)
                      .+.++.++|.++..+-.+-.-+      +.. .|+.  =+.+|.++|++-.|++-+..
T Consensus       450 LrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~  507 (700)
T KOG1156|consen  450 LRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHE  507 (700)
T ss_pred             HHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhh
Confidence            5667777777666555432211      011 1222  25577777777766654433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.38  E-value=3.2e-08  Score=94.15  Aligned_cols=74  Identities=11%  Similarity=0.053  Sum_probs=35.9

Q ss_pred             HhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHH
Q 036340          476 IVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      ++.+.+++..|.++-+.-.-..-+..+..-.+.....|++-+|..++-++  ..|+      ....-|...+.|.+|+++
T Consensus      1056 mfi~dndwa~aervae~h~~~~l~dv~tgqar~aiee~d~~kae~fllra--nkp~------i~l~yf~e~~lw~dalri 1127 (1636)
T KOG3616|consen 1056 MFIHDNDWAAAERVAEAHCEDLLADVLTGQARGAIEEGDFLKAEGFLLRA--NKPD------IALNYFIEAELWPDALRI 1127 (1636)
T ss_pred             HhhhcccHHHHHHHHHhhChhhhHHHHhhhhhccccccchhhhhhheeec--CCCc------hHHHHHHHhccChHHHHH
Confidence            44455555555555443211111233444445556667777776665332  2233      122345566667666655


Q ss_pred             HH
Q 036340          556 RL  557 (579)
Q Consensus       556 ~~  557 (579)
                      -+
T Consensus      1128 ~k 1129 (1636)
T KOG3616|consen 1128 AK 1129 (1636)
T ss_pred             HH
Confidence            43

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.37  E-value=6.7e-10  Score=108.68  Aligned_cols=542  Identities=15%  Similarity=0.078  Sum_probs=322.5

Q ss_pred             CCHHHHHHHhccCCCCch---hHHHHHHHHHHHcCCCCChHHHHHHHhhCCC---CCcchHHHHHHHHHccCCHHHHHHH
Q 036340            9 REMAKARKLFDEMPQRDV---VSWNVMISGYISSRGSGFLEEARYLFDIMPE---RDCVTWNTVISGYAKTGEMEEALRL   82 (579)
Q Consensus         9 ~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~   82 (579)
                      .+...|+..|=+..+.|+   ..|..|...|...-+   ...|.+.|++..+   .|......+...|.+..+++.|..+
T Consensus       472 K~~~~al~ali~alrld~~~apaf~~LG~iYrd~~D---m~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVSLAPAFAFLGQIYRDSDD---MKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHH---HHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHH
Confidence            345667777766666443   357777777776655   7888888888874   4445677888899999999999888


Q ss_pred             hhcCCCCc-----hhhHHHHHHHHHhcCChhhHHHHHccCCCC---CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCC
Q 036340           83 FNSMPARN-----VVSWNAMISGFLQNGDVANAIEFFDRMPGR---DSASLSALVSGLIQNGELDEAARVLVKCGSRCDG  154 (579)
Q Consensus        83 ~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  154 (579)
                      .-...+..     ...|..+.-.|.+.++..+|+.-|+...+.   |...|..+..+|.+.|.+..|.++|.++..   -
T Consensus       549 ~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~---L  625 (1238)
T KOG1127|consen  549 CLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL---L  625 (1238)
T ss_pred             HHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh---c
Confidence            44433222     234455666788889999999999988764   445677899999999999999999988776   3


Q ss_pred             CCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC----
Q 036340          155 GEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE----  230 (579)
Q Consensus       155 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----  230 (579)
                      .|.+...-.......+..|++.+|...+..+.......  ..+...-..++..+...+.-.|-..+|...++..++    
T Consensus       626 rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e--~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~  703 (1238)
T KOG1127|consen  626 RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLE--RTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIV  703 (1238)
T ss_pred             CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH--HHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            45555455555666778899999998888775221000  001111222333333333333444444444443321    


Q ss_pred             -------CChhHHHHHHHHHHhcCCh--HH----HHHH----hhcCC---------------------CCChhhHHHHHH
Q 036340          231 -------RDTFSWNTMISGYIHVLDM--EE----ASNL----FVKMP---------------------HPDTLTWNAMVS  272 (579)
Q Consensus       231 -------~~~~~~~~l~~~~~~~~~~--~~----a~~~----~~~~~---------------------~~~~~~~~~l~~  272 (579)
                             .+...|-.+..++.-.-..  +.    ...+    ++.+.                     ..++.+|..|+.
T Consensus       704 ~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGi  783 (1238)
T KOG1127|consen  704 SLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGI  783 (1238)
T ss_pred             HHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhH
Confidence                   1222232222221110000  00    0000    11111                     112333444444


Q ss_pred             HHHh----cC----CHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhcc
Q 036340          273 GYAQ----IG----NLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSS  341 (579)
Q Consensus       273 ~~~~----~g----~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  341 (579)
                      .|.+    .|    +...|+..+.+..+   .+...|+.|... ...|++.-|...|-+-.... +....+|..+...+.
T Consensus       784 nylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l  861 (1238)
T KOG1127|consen  784 NYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVL  861 (1238)
T ss_pred             HHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEE
Confidence            3332    11    23356666665553   556677776655 45567777777776655432 235566777777788


Q ss_pred             CCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-------CCCCeeeHHHHHHHHHhcCChHH
Q 036340          342 GIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-------LLKNVVSWNAMIGGCASHGFATE  414 (579)
Q Consensus       342 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~  414 (579)
                      ...+++.|...+.+...-.|.+...+..........|+.-++..+|..-.       ..++..-|.....-...+|+.++
T Consensus       862 ~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~  941 (1238)
T KOG1127|consen  862 ENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEE  941 (1238)
T ss_pred             ecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHH
Confidence            88888888888888888888888777776666677787777777776521       12233333333334455666555


Q ss_pred             HHHHHHHhHhC---------CCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH----HHHHHhhccC
Q 036340          415 ALELFKSMRSF---------KVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA----SLVDIVGRHG  481 (579)
Q Consensus       415 A~~~~~~~~~~---------~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g  481 (579)
                      -+...+.+...         +.+.....|........+.+.+..|.+...+.+.-....-+...|+    .+.+.+...|
T Consensus       942 ~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslg 1021 (1238)
T KOG1127|consen  942 SINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLG 1021 (1238)
T ss_pred             HHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhc
Confidence            44433332221         2233445777777777778888877777665542111122333333    4566677888


Q ss_pred             ChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC---CchhhhhhhhhcCCchHHHHHHHH
Q 036340          482 RLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST---PYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       482 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      .++.|..-+.......+......-+.. ...|+++++.+.|++++.+..++..   ....++.....++..+.|...+-+
T Consensus      1022 efe~A~~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe 1100 (1238)
T KOG1127|consen 1022 EFESAKKASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFE 1100 (1238)
T ss_pred             chhhHhhhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHH
Confidence            888887777665433344333333322 5678999999999999987655544   344556666777888888887666


Q ss_pred             HHh
Q 036340          559 MKS  561 (579)
Q Consensus       559 ~~~  561 (579)
                      ...
T Consensus      1101 ~~~ 1103 (1238)
T KOG1127|consen 1101 VKS 1103 (1238)
T ss_pred             HHH
Confidence            543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=2.5e-09  Score=99.02  Aligned_cols=417  Identities=12%  Similarity=0.034  Sum_probs=253.1

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHH
Q 036340          127 ALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWN  206 (579)
Q Consensus       127 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (579)
                      .=+..+...|++++|.+...+++.   ..|.+..++..-+-+..+.+++++|..+.+.-.          +...+..-+.
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~---~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~----------~~~~~~~~~f   83 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILS---IVPDDEDAIRCKVVALIQLDKYEDALKLIKKNG----------ALLVINSFFF   83 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHh---cCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcc----------hhhhcchhhH
Confidence            345566778999999999999998   567788888888889999999999997776543          1122222222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHH-HHhcCCHHHHHH
Q 036340          207 SMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSG-YAQIGNLELALD  285 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~  285 (579)
                      .-+-+..+.+..++|+..++.....+..+...-...+.+.|++++|..+|+.+.+.+...+...+.+ +...+-...+. 
T Consensus        84 EKAYc~Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-  162 (652)
T KOG2376|consen   84 EKAYCEYRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-  162 (652)
T ss_pred             HHHHHHHHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-
Confidence            3445666899999999999966555666777788999999999999999999974444443332221 11111112222 


Q ss_pred             HHccCCCCChhhHH---HHHHHHHhCCCchHHHHHHHHHHHcC-------CCCC------h-hhHHHHHHhccCCCchhh
Q 036340          286 FFKRMPQKNLVSWN---SMIAGCETNKDYEGAIKLFIQMQVEG-------EKPD------R-HTFSSILSMSSGIVDLHL  348 (579)
Q Consensus       286 ~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~------~-~~~~~l~~~~~~~~~~~~  348 (579)
                      +.+........+|.   .....+...|++.+|+++++...+.+       ..-+      . ..-..+...+...|+..+
T Consensus       163 ~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  163 LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            34444332233343   34556778999999999999883221       1111      1 112233445678899999


Q ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHh---hhcCCH-H-HHHHHHHhcc-------------CCCCeeeHH-HHHHHHHhc
Q 036340          349 GMQIHQMVTKTVIPDVPINNALITMY---ARCGAI-V-EARIIFEEMK-------------LLKNVVSWN-AMIGGCASH  409 (579)
Q Consensus       349 a~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~-~-~A~~~~~~~~-------------~~~~~~~~~-~l~~~~~~~  409 (579)
                      |..++....+..++|........+-+   ....++ + .++..++...             .+......| .++..|  .
T Consensus       243 a~~iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--t  320 (652)
T KOG2376|consen  243 ASSIYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--T  320 (652)
T ss_pred             HHHHHHHHHHhcCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--h
Confidence            99999886666666654333222211   111111 1 1222222221             001111122 222222  2


Q ss_pred             CChHHHHHHHHHhHhCCCCCChhhHHHHHHHh--cccCcHHHHHHHHHHhHHhhCCCCC--cchhHHHHHHhhccCChHH
Q 036340          410 GFATEALELFKSMRSFKVLPTYITFISVLSAC--AHAGLVEEGRQHFKSMVNEYGIEPR--IEHFASLVDIVGRHGRLED  485 (579)
Q Consensus       410 ~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~  485 (579)
                      +..+.+.++-....  +..|.. .+..++..+  .+...+..+.+++....+.   .|.  ..+....+......|+++.
T Consensus       321 nk~~q~r~~~a~lp--~~~p~~-~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~---~p~~s~~v~L~~aQl~is~gn~~~  394 (652)
T KOG2376|consen  321 NKMDQVRELSASLP--GMSPES-LFPILLQEATKVREKKHKKAIELLLQFADG---HPEKSKVVLLLRAQLKISQGNPEV  394 (652)
T ss_pred             hhHHHHHHHHHhCC--ccCchH-HHHHHHHHHHHHHHHHHhhhHHHHHHHhcc---CCchhHHHHHHHHHHHHhcCCHHH
Confidence            33344444444333  233433 333444422  2233577788887776543   332  3455667778889999999


Q ss_pred             HHHHHH--------hC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC-------CCCCCCchhhhhhhhhcCCc
Q 036340          486 AMDLIK--------GM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVE-------PENSTPYVLLYNMYADVGRW  549 (579)
Q Consensus       486 A~~~~~--------~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~  549 (579)
                      |.+++.        .. .....+.+...+...+.+.++.+.|..++..+++..       +.-...+..++..-.+.|+-
T Consensus       395 A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  395 ALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence            999998        33 233455666677777888888888888888887522       22223455666677788999


Q ss_pred             hHHHHHHHHHHhCCCC
Q 036340          550 DDANEVRLLMKSNNIK  565 (579)
Q Consensus       550 ~~A~~~~~~~~~~~~~  565 (579)
                      ++|..+++++.+.+.+
T Consensus       475 ~ea~s~leel~k~n~~  490 (652)
T KOG2376|consen  475 EEASSLLEELVKFNPN  490 (652)
T ss_pred             HHHHHHHHHHHHhCCc
Confidence            9999999999875543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.35  E-value=9.6e-09  Score=97.56  Aligned_cols=308  Identities=17%  Similarity=0.189  Sum_probs=147.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHH--hcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHH
Q 036340          207 SMIMCYAKAGDVVSAREIFE--QMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELAL  284 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  284 (579)
                      +.+..|.+.|.+.+|.+...  ..+..|......+..++.+..-+++|-.+|+++..++.     .+.+|.+-.-+.+|.
T Consensus       620 aaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dk-----ale~fkkgdaf~kai  694 (1636)
T KOG3616|consen  620 AAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDK-----ALECFKKGDAFGKAI  694 (1636)
T ss_pred             HHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHH-----HHHHHHcccHHHHHH
Confidence            34566666666666654432  12223444444555555555555555555554433221     122222222233333


Q ss_pred             HHHccCCCCChhh-HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCC
Q 036340          285 DFFKRMPQKNLVS-WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD  363 (579)
Q Consensus       285 ~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  363 (579)
                      ++-+-.-...++. -......+...|+++.|+..|-+..         .....+.+......+.+|..+++..... ...
T Consensus       695 elarfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdq-k~~  764 (1636)
T KOG3616|consen  695 ELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQ-KTA  764 (1636)
T ss_pred             HHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhh-ccc
Confidence            3332222111111 1122233444555555555554331         1223344455555666666665542111 111


Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH  443 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  443 (579)
                      ..-|..+...|...|+++.|+++|.+..      .++..|..|.+.|+++.|.++-.+..  |.......|..-..-+-.
T Consensus       765 s~yy~~iadhyan~~dfe~ae~lf~e~~------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedlde  836 (1636)
T KOG3616|consen  765 SGYYGEIADHYANKGDFEIAEELFTEAD------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDE  836 (1636)
T ss_pred             cccchHHHHHhccchhHHHHHHHHHhcc------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHh
Confidence            2234556666777777777777776543      34455666777777777766665554  333334455544445556


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Q 036340          444 AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAE  523 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  523 (579)
                      .|++.+|.++|-.+-     .|+     .-+.+|-+.|..++.+++..+-.-..-..+...+..-+-..|+...|...|-
T Consensus       837 hgkf~eaeqlyiti~-----~p~-----~aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  837 HGKFAEAEQLYITIG-----EPD-----KAIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             hcchhhhhheeEEcc-----Cch-----HHHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHH
Confidence            666666666554331     222     2334555666666666666554222223344445555555566655555554


Q ss_pred             HHhhcCCCCCCCchhhhhhhhhcCCchHHHHH
Q 036340          524 ALMKVEPENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       524 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      ++-+        |..-++.|...+.|++|.++
T Consensus       907 ea~d--------~kaavnmyk~s~lw~dayri  930 (1636)
T KOG3616|consen  907 EAGD--------FKAAVNMYKASELWEDAYRI  930 (1636)
T ss_pred             hhhh--------HHHHHHHhhhhhhHHHHHHH
Confidence            3321        33334444445555554443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.33  E-value=4e-11  Score=97.47  Aligned_cols=161  Identities=12%  Similarity=0.125  Sum_probs=128.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHH
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDI  476 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  476 (579)
                      ..-|.-.|.+.|+...|..-+++.+++  .|+.. ++..+...|.+.|..+.|.+.|++.++   +.| +-.+.+..+..
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhhHH
Confidence            445667788888888888888888864  56655 788888888888888888888888873   455 56777888888


Q ss_pred             hhccCChHHHHHHHHhCCCCC----CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHH
Q 036340          477 VGRHGRLEDAMDLIKGMPFEP----DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDA  552 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  552 (579)
                      ++.+|++++|...|++.-..|    -..+|.+++.+..+.|+.+.|...|++.++.+|+.+.....++..+...|++-+|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            888888888888888873222    3457888887778888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhCCC
Q 036340          553 NEVRLLMKSNNI  564 (579)
Q Consensus       553 ~~~~~~~~~~~~  564 (579)
                      ..+++.....+.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            888888776665

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=1.6e-08  Score=89.53  Aligned_cols=267  Identities=10%  Similarity=-0.029  Sum_probs=196.4

Q ss_pred             CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhH-HHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHH
Q 036340          293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTF-SSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALI  371 (579)
Q Consensus       293 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  371 (579)
                      .|+.....+..++...|+.++|+..|++..-.  .|+..+- -.....+...|+.+....+....-.........|..-+
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            57788889999999999999999999987653  3332221 11122345667777666665553333333333344444


Q ss_pred             HHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHH
Q 036340          372 TMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVE  448 (579)
Q Consensus       372 ~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  448 (579)
                      ......++++.|+.+-++..  .+.+...+..-...+...|++++|.-.|+....  +.|. -.+|..|+.+|...|.+.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHH
Confidence            55566788999998887764  234555676677888999999999999999884  5664 459999999999999999


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhHHHH-HHhh-ccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHH
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFASLV-DIVG-RHGRLEDAMDLIKGM-PFEPD-KAVWGALLGACRVHNNVELAQVAAEA  524 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~  524 (579)
                      +|.-.-+...+.  ++.+..+...++ ..+. ...--++|.+++++. ...|+ ....+.+...+...|.+++++.++++
T Consensus       386 EA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  386 EANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            999887777653  344555555442 2222 333457899999886 66775 45777888889999999999999999


Q ss_pred             HhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          525 LMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       525 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      .+...|+.. .+..|+.++...+.+++|.+.|......++..
T Consensus       464 ~L~~~~D~~-LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  464 HLIIFPDVN-LHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHhhccccH-HHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            999999964 49999999999999999999999887666543

>PRK12370 invasion protein regulator; Provisional

Probab=99.31  E-value=3.8e-10  Score=112.51  Aligned_cols=242  Identities=13%  Similarity=0.015  Sum_probs=168.8

Q ss_pred             CchHHHHHHHHHHHcCCCCCh-hhHHHHHHhcc---------CCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCC
Q 036340          310 DYEGAIKLFIQMQVEGEKPDR-HTFSSILSMSS---------GIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGA  379 (579)
Q Consensus       310 ~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  379 (579)
                      ++++|..+|++..+.  .|+. ..+..+..++.         ..++.+.|...++......|.+...+..+...+...|+
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            356777777777654  3332 23333222211         23446777777777666667778888888889999999


Q ss_pred             HHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHH
Q 036340          380 IVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKS  456 (579)
Q Consensus       380 ~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~  456 (579)
                      +++|...|++.. ..| +...+..+..++...|++++|+..+++..+.  .|+.. .+..++..+...|++++|...+++
T Consensus       354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        354 YIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            999999999864 344 4567888899999999999999999999864  56543 333444456678999999999998


Q ss_pred             hHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHhhcCCHHHHHHHHHHHhhc---CC
Q 036340          457 MVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDK-AVWGALLGACRVHNNVELAQVAAEALMKV---EP  530 (579)
Q Consensus       457 ~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~p  530 (579)
                      +...  .+| ++..+..++.++...|+.++|...+.++ +..|+. ...+.+...+...|+  +|...++++.+.   .|
T Consensus       432 ~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        432 LRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNSE--RALPTIREFLESEQRID  507 (553)
T ss_pred             HHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccHH--HHHHHHHHHHHHhhHhh
Confidence            8753  234 4455777888999999999999999887 344543 344555566666664  777777777653   34


Q ss_pred             CCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          531 ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       531 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .++.   .+..+|.-.|+-+.+... +++.+.+
T Consensus       508 ~~~~---~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        508 NNPG---LLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cCch---HHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            4433   366777788887776666 7776554

>PRK12370 invasion protein regulator; Provisional

Probab=99.30  E-value=1.6e-10  Score=115.16  Aligned_cols=236  Identities=11%  Similarity=0.011  Sum_probs=155.3

Q ss_pred             CCHHHHHHHhhcCCC--C-chhhHHHHHHHHHh---------cCChhhHHHHHccCCCC---CcchHHHHHHHHHhCCCH
Q 036340           74 GEMEEALRLFNSMPA--R-NVVSWNAMISGFLQ---------NGDVANAIEFFDRMPGR---DSASLSALVSGLIQNGEL  138 (579)
Q Consensus        74 g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~  138 (579)
                      +++++|+..|++...  | +...|..+..++..         .+++++|...+++..+.   +...+..+...+...|++
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCH
Confidence            456788888887762  3 34455555554432         24477888888876652   445666777777888888


Q ss_pred             HHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc-hHHHHHHHHHHHhcCC
Q 036340          139 DEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN-IVSWNSMIMCYAKAGD  217 (579)
Q Consensus       139 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~  217 (579)
                      ++|+..++++++   ..|.+..++..++.++...|++++|...++++.          .+.|+ ...+..++..+...|+
T Consensus       355 ~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al----------~l~P~~~~~~~~~~~~~~~~g~  421 (553)
T PRK12370        355 IVGSLLFKQANL---LSPISADIKYYYGWNLFMAGQLEEALQTINECL----------KLDPTRAAAGITKLWITYYHTG  421 (553)
T ss_pred             HHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH----------hcCCCChhhHHHHHHHHHhccC
Confidence            888888888887   456667778888888888888888888888886          22343 2233344555666788


Q ss_pred             HHHHHHHHHhcCC---C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC--CCC-hhhHHHHHHHHHhcCCHHHHHHHHccC
Q 036340          218 VVSAREIFEQMLE---R-DTFSWNTMISGYIHVLDMEEASNLFVKMP--HPD-TLTWNAMVSGYAQIGNLELALDFFKRM  290 (579)
Q Consensus       218 ~~~A~~~~~~~~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~  290 (579)
                      +++|...++++++   + ++..+..+..++...|+.++|...++++.  .|+ ....+.+...|...|  ++|...++.+
T Consensus       422 ~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~l  499 (553)
T PRK12370        422 IDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREF  499 (553)
T ss_pred             HHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHH
Confidence            8888888887753   2 34456677778888888888888888876  233 233455555666666  4676666665


Q ss_pred             CC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcC
Q 036340          291 PQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEG  325 (579)
Q Consensus       291 ~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  325 (579)
                      .+   ........+-..+.-.|+.+.+..+ +++.+.+
T Consensus       500 l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        500 LESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             HHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            53   1111112244455566777777666 7776654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.29  E-value=5.5e-10  Score=99.41  Aligned_cols=199  Identities=17%  Similarity=0.094  Sum_probs=131.9

Q ss_pred             hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          295 LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       295 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      ...+..+...+...|++++|...+++..+..  |                                 .+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~--p---------------------------------~~~~~~~~la~~~   75 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD--P---------------------------------DDYLAYLALALYY   75 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--c---------------------------------ccHHHHHHHHHHH
Confidence            3456667777777777777777777766532  2                                 2233445566666


Q ss_pred             hhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHH
Q 036340          375 ARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGR  451 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~  451 (579)
                      ...|++++|.+.+++..  .+.+...+..+...+...|++++|...+++.......|. ...+..+...+...|++++|.
T Consensus        76 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (234)
T TIGR02521        76 QQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAE  155 (234)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHH
Confidence            67777777777776653  223344566677777777888888888887775432232 335666667778888888888


Q ss_pred             HHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          452 QHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      ..+++....  .+.+...+..++.++...|++++|...+++. .. +++...+..++..+...|+.++|....+.+....
T Consensus       156 ~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       156 KYLTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            888877643  1224556777788888888888888887776 22 2355566666677777888888888877776554


Q ss_pred             C
Q 036340          530 P  530 (579)
Q Consensus       530 p  530 (579)
                      |
T Consensus       234 ~  234 (234)
T TIGR02521       234 P  234 (234)
T ss_pred             c
Confidence            3

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.28  E-value=1.2e-08  Score=99.03  Aligned_cols=463  Identities=13%  Similarity=0.090  Sum_probs=271.2

Q ss_pred             CCCcchHHHHHHHHHccCCHHHHHHHhhcCC----CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHH
Q 036340           57 ERDCVTWNTVISGYAKTGEMEEALRLFNSMP----ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGL  132 (579)
Q Consensus        57 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~  132 (579)
                      .||..||..+|.-|+..|+.+.|- +|.-|.    +.+...++.++..+.+.++.+.+.       .|.+.+|..+..+|
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~Ll~ay   93 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYTNLLKAY   93 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHHHHHHHH
Confidence            788899999999999999999998 887776    345667889999999999887776       68889999999999


Q ss_pred             HhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHH
Q 036340          133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCY  212 (579)
Q Consensus       133 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  212 (579)
                      ...|++..    |+.+.+          ....+...+...|.-..-..++..+..       ..++-||..+   ++...
T Consensus        94 r~hGDli~----fe~veq----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c-------~p~~lpda~n---~illl  149 (1088)
T KOG4318|consen   94 RIHGDLIL----FEVVEQ----------DLESINQSFSDHGVGSPERWFLMKIHC-------CPHSLPDAEN---AILLL  149 (1088)
T ss_pred             HhccchHH----HHHHHH----------HHHHHHhhhhhhccCcHHHHHHhhccc-------CcccchhHHH---HHHHH
Confidence            99999766    333222          133344555666666666666666541       2344555443   44455


Q ss_pred             HhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHh-cCChHHHHHHhhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHH
Q 036340          213 AKAGDVVSAREIFEQMLER---DTFSWNTMISGYIH-VLDMEEASNLFVKMP-HPDTLTWNAMVSGYAQIGNLELALDFF  287 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  287 (579)
                      ...|-++.+++++..+...   .+...  +++-+.. ...+++-...-+... .+++.++..++.+-...|+.+.|..++
T Consensus       150 v~eglwaqllkll~~~Pvsa~~~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll  227 (1088)
T KOG4318|consen  150 VLEGLWAQLLKLLAKVPVSAWNAPFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLL  227 (1088)
T ss_pred             HHHHHHHHHHHHHhhCCcccccchHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHH
Confidence            5667777777777666432   22111  2333322 233444444444444 489999999999999999999999999


Q ss_pred             ccCCCCC----hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHH------------
Q 036340          288 KRMPQKN----LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQ------------  351 (579)
Q Consensus       288 ~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~------------  351 (579)
                      .+|.+..    .+-|-.|+-+   .++...+..+++-|.+.|+.|+..|+...+..+...|....+..            
T Consensus       228 ~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAav  304 (1088)
T KOG4318|consen  228 YEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAV  304 (1088)
T ss_pred             HHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHH
Confidence            9998733    3333344433   78888899999999999999999999887766655333211111            


Q ss_pred             ------------HHHH-------------HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-----C-CCCeeeHH
Q 036340          352 ------------IHQM-------------VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-----L-LKNVVSWN  400 (579)
Q Consensus       352 ------------~~~~-------------~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~-~~~~~~~~  400 (579)
                                  .++.             ...++.....+|..... ....|+-+..+++-..+.     . ..++..|.
T Consensus       305 rsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~  383 (1088)
T KOG4318|consen  305 RSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFG  383 (1088)
T ss_pred             HHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHH
Confidence                        1110             01111112222322222 222455555665555553     1 11233344


Q ss_pred             HHHHHHHhcC----------------------ChHHHHHHHHHhHhCCCCCChh--------------------------
Q 036340          401 AMIGGCASHG----------------------FATEALELFKSMRSFKVLPTYI--------------------------  432 (579)
Q Consensus       401 ~l~~~~~~~~----------------------~~~~A~~~~~~~~~~~~~p~~~--------------------------  432 (579)
                      .++.-|.+.-                      +..+..+.+...     .||..                          
T Consensus       384 ~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~Lss~Eler~he~~~~~~h~i  458 (1088)
T KOG4318|consen  384 ALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGLSSTELERSHEPWPLIAHLI  458 (1088)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhhhHHHHhcccccchhhhhHH
Confidence            4444333211                      111111111111     12111                          


Q ss_pred             --hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC-----CCCCHHHHHHH
Q 036340          433 --TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP-----FEPDKAVWGAL  505 (579)
Q Consensus       433 --~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l  505 (579)
                        .-+.++..|+..-+..++...-+.. +..-   -...|..|++........+.|..+..+..     ...|...+..+
T Consensus       459 rdi~~ql~l~l~se~n~lK~l~~~eky-e~~l---f~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l  534 (1088)
T KOG4318|consen  459 RDIANQLHLTLNSEYNKLKILCDEEKY-EDLL---FAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSL  534 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH---hhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHH
Confidence              1122222333333333333322222 1101   12556677777777777777777777662     22344555666


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhh---cCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          506 LGACRVHNNVELAQVAAEALMK---VEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      .+.+.+.+...++..+++.+.+   ..|.....+..+.......|+.+.-.++.+-+...|+.-
T Consensus       535 ~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  535 QDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            6667777777777777776665   223333445555666667777777777777666666655

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.27  E-value=1.9e-10  Score=104.70  Aligned_cols=116  Identities=9%  Similarity=-0.114  Sum_probs=55.4

Q ss_pred             CCCchHHHHHHHHHHHcC-CCCC--hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHH
Q 036340          308 NKDYEGAIKLFIQMQVEG-EKPD--RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEAR  384 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  384 (579)
                      .+..+.++.-+.+++... ..|+  ...+......+...|+.+.|...++......|.++..++.+...+...|++++|.
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            344555555555555432 1111  1223333344445555555555555544444444555555555555555555555


Q ss_pred             HHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhH
Q 036340          385 IIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMR  423 (579)
Q Consensus       385 ~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  423 (579)
                      ..|+... ..| +..+|..++.++...|++++|++.+++..
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al  159 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFY  159 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            5555442 222 23344445555555555555555555554

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=1.8e-08  Score=92.54  Aligned_cols=247  Identities=12%  Similarity=0.028  Sum_probs=155.7

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCC------CchHHHHH
Q 036340          298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIP------DVPINNAL  370 (579)
Q Consensus       298 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~------~~~~~~~l  370 (579)
                      ...+.....+..+++.|++.+....+..  .+..-++....++...|........... .+.|...      -...+..+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4456666667777888888887777654  3444444555566666666555544333 2222111      11122234


Q ss_pred             HHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHH
Q 036340          371 ITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVE  448 (579)
Q Consensus       371 ~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~  448 (579)
                      ..+|.+.++++.|+..|.+.. ...+       -....+....++++.......  -+.|... -...-...+++.|++.
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt-------~~~ls~lk~~Ek~~k~~e~~a--~~~pe~A~e~r~kGne~Fk~gdy~  375 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRT-------PDLLSKLKEAEKALKEAERKA--YINPEKAEEEREKGNEAFKKGDYP  375 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcC-------HHHHHHHHHHHHHHHHHHHHH--hhChhHHHHHHHHHHHHHhccCHH
Confidence            456777788888888887753 1111       122333444556666555544  2344432 2223356778899999


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      .|+..|.++++.  .+.|...|...+-+|.+.|.+..|++-.+.. ...| ....|..-+.++....+++.|.+.|.+++
T Consensus       376 ~Av~~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  376 EAVKHYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999998864  2347788889999999999999998887766 4444 44466666666777788999999999999


Q ss_pred             hcCCCCCCCchhhhhhhhhcCCchHHHHHHH
Q 036340          527 KVEPENSTPYVLLYNMYADVGRWDDANEVRL  557 (579)
Q Consensus       527 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  557 (579)
                      +.+|++..+...+..++..+.......++.+
T Consensus       454 e~dp~~~e~~~~~~rc~~a~~~~~~~ee~~~  484 (539)
T KOG0548|consen  454 ELDPSNAEAIDGYRRCVEAQRGDETPEETKR  484 (539)
T ss_pred             hcCchhHHHHHHHHHHHHHhhcCCCHHHHHH
Confidence            9999988777776666655433333344433

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.25  E-value=4.8e-10  Score=106.23  Aligned_cols=193  Identities=18%  Similarity=0.171  Sum_probs=144.8

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc---------CCCC-eeeHHHHHHHHHhcCChHHHHHHHHHhHh-----CCCCC-Ch
Q 036340          368 NALITMYARCGAIVEARIIFEEMK---------LLKN-VVSWNAMIGGCASHGFATEALELFKSMRS-----FKVLP-TY  431 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~---------~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~~p-~~  431 (579)
                      +.+...|...+++++|..+|+++.         ..|. ..+++.|...|.+.|++++|...+++..+     .|..+ ..
T Consensus       245 ~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v  324 (508)
T KOG1840|consen  245 NILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEV  324 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHH
Confidence            357778888899998888888763         1222 34577788889999998888777766542     12222 22


Q ss_pred             h-hHHHHHHHhcccCcHHHHHHHHHHhHHhhC--CCCC----cchhHHHHHHhhccCChHHHHHHHHhC---------CC
Q 036340          432 I-TFISVLSACAHAGLVEEGRQHFKSMVNEYG--IEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM---------PF  495 (579)
Q Consensus       432 ~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~  495 (579)
                      . .++.+...|...+++++|..+++...+.+.  ..++    ..++..|+..|...|++++|.++++++         +.
T Consensus       325 ~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~  404 (508)
T KOG1840|consen  325 AAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKK  404 (508)
T ss_pred             HHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCc
Confidence            2 566677788999999999999987766443  2222    367889999999999999999999887         12


Q ss_pred             CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhc----CCCCC---CCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          496 EP-DKAVWGALLGACRVHNNVELAQVAAEALMKV----EPENS---TPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       496 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .+ ....++.+...|.+.+.+++|.++|++...+    .|+.+   .+|..|+.+|..+|++++|.++.+...
T Consensus       405 ~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  405 DYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             ChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33 2457788888899999999999999988753    35544   458899999999999999999988764

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.24  E-value=1.5e-08  Score=97.46  Aligned_cols=46  Identities=20%  Similarity=0.281  Sum_probs=41.5

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      .=.++|.++++-+.+..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       471 dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  471 DPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            3468899999999999999999999999999999999999887764

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.23  E-value=1.1e-08  Score=88.23  Aligned_cols=315  Identities=14%  Similarity=0.100  Sum_probs=198.5

Q ss_pred             cchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHH---HHHHhcCChHHHHHHhhcCC--CCChhh-HHHHHHH
Q 036340          200 RNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI---SGYIHVLDMEEASNLFVKMP--HPDTLT-WNAMVSG  273 (579)
Q Consensus       200 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~~~--~~~~~~-~~~l~~~  273 (579)
                      .++.-...+...+...|++..|+..|...++-|+..|.++.   ..|...|+..-|+.-+.+.+  +||-.. -..-...
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~v  115 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchh
Confidence            35555667888899999999999999999999888887765   46788888888888777776  566432 2334466


Q ss_pred             HHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHH
Q 036340          274 YAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIH  353 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  353 (579)
                      +.+.|.++.|..=|+.+.+.++.-           |...+|.+-+....      ........+..+...|+...++...
T Consensus       116 llK~Gele~A~~DF~~vl~~~~s~-----------~~~~eaqskl~~~~------e~~~l~~ql~s~~~~GD~~~ai~~i  178 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHEPSN-----------GLVLEAQSKLALIQ------EHWVLVQQLKSASGSGDCQNAIEMI  178 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCCc-----------chhHHHHHHHHhHH------HHHHHHHHHHHHhcCCchhhHHHHH
Confidence            788999999999888887633210           00000000000000      0011122223334445555555544


Q ss_pred             HHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh
Q 036340          354 QMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY  431 (579)
Q Consensus       354 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  431 (579)
                      ..+..-.+.+...+..-..+|...|++..|+.-++...  ...+.....-+-..+...|+.+.++...++..+  +.|+.
T Consensus       179 ~~llEi~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdH  256 (504)
T KOG0624|consen  179 THLLEIQPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPDH  256 (504)
T ss_pred             HHHHhcCcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcch
Confidence            44444455555566666666666666666665555443  123333444444555566666666666666653  45553


Q ss_pred             h-hHH---HH---------HHHhcccCcHHHHHHHHHHhHHhhCCCCC-----cchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          432 I-TFI---SV---------LSACAHAGLVEEGRQHFKSMVNEYGIEPR-----IEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       432 ~-~~~---~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      . +|.   .|         +......++|.++.+..+..++.   .|.     ...+..+..++...|++.+|++...+.
T Consensus       257 K~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~ev  333 (504)
T KOG0624|consen  257 KLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEV  333 (504)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHH
Confidence            3 111   11         11234567777777777777643   343     345566777888899999999988887


Q ss_pred             -CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCc
Q 036340          494 -PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPY  536 (579)
Q Consensus       494 -~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  536 (579)
                       .+.|+ +.++..-..+|.-..+++.|+.-|+++.+.+|++..+-
T Consensus       334 L~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~r  378 (504)
T KOG0624|consen  334 LDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAR  378 (504)
T ss_pred             HhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHH
Confidence             56664 77888888899888999999999999999999886543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.22  E-value=7e-09  Score=87.75  Aligned_cols=408  Identities=12%  Similarity=0.078  Sum_probs=251.7

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      +.+.+..+.+..++++|++++..-.+   ..|.+....+.++.+|....++..|-..++++.          ...|...-
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~E---r~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~----------ql~P~~~q   79 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELE---RSPRSRAGLSLLGYCYYRLQEFALAAECYEQLG----------QLHPELEQ   79 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHh---cCccchHHHHHHHHHHHHHHHHHHHHHHHHHHH----------hhChHHHH
Confidence            55566667778888888888887666   445566778888889999999999999998885          22454444


Q ss_pred             HH-HHHHHHHhcCCHHHHHHHHHhcCCCCh-hH--HHHHHHHHHhcCChHHHHHHhhcCC-CCChhhHHHHHHHHHhcCC
Q 036340          205 WN-SMIMCYAKAGDVVSAREIFEQMLERDT-FS--WNTMISGYIHVLDMEEASNLFVKMP-HPDTLTWNAMVSGYAQIGN  279 (579)
Q Consensus       205 ~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~--~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~  279 (579)
                      |. .-...+.+.+.+..|+++...|.+.+. ..  ...-.......+++..+..++++.. +.+..+.+.......+.|+
T Consensus        80 YrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   80 YRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeecccc
Confidence            43 335667788889999999988877522 11  1111233456788888888888876 4666777777777889999


Q ss_pred             HHHHHHHHccCCC----CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhc-cCCCchhhHHHHHH
Q 036340          280 LELALDFFKRMPQ----KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMS-SGIVDLHLGMQIHQ  354 (579)
Q Consensus       280 ~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~  354 (579)
                      ++.|.+-|+...+    .....|+.-+ +..+.|+++.|+++..++++.|++..+. ++.-+..- ...+.+..-..++.
T Consensus       160 yEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE-lgIGm~tegiDvrsvgNt~~lh~  237 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE-LGIGMTTEGIDVRSVGNTLVLHQ  237 (459)
T ss_pred             HHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc-cCccceeccCchhcccchHHHHH
Confidence            9999999998876    3345666544 4457889999999999999998763221 11000000 00000000000000


Q ss_pred             HHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC
Q 036340          355 MVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK----LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT  430 (579)
Q Consensus       355 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  430 (579)
                      .      .-+..++.-...+.+.++++.|.+.+..|+    ...|+++...+.-.- ..+++.+..+-++-+.+  +.|-
T Consensus       238 S------al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~--~nPf  308 (459)
T KOG4340|consen  238 S------ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQ--QNPF  308 (459)
T ss_pred             H------HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHh--cCCC
Confidence            0      012334555566778899999999999986    234666665543322 24556666666666664  4553


Q ss_pred             -hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC-CCCcchhHHHHHHhh-ccCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 036340          431 -YITFISVLSACAHAGLVEEGRQHFKSMVNEYGI-EPRIEHFASLVDIVG-RHGRLEDAMDLIKGMPFEPDKAVWGALLG  507 (579)
Q Consensus       431 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  507 (579)
                       ..||..++-.|++..-++.|-.++.+-... .. -.+...|+ +.+++. ..-..++|.+-+..+........-...+.
T Consensus       309 P~ETFANlLllyCKNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~  386 (459)
T KOG4340|consen  309 PPETFANLLLLYCKNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQ  386 (459)
T ss_pred             ChHHHHHHHHHHhhhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             459999999999999999998876432110 00 01222233 333333 34566777766655421110111111111


Q ss_pred             H--HhhcCC---HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          508 A--CRVHNN---VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       508 ~--~~~~~~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      .  -...++   ...+++-|+..+++.-   .+....++.|.+..++..+.++|+.-.+
T Consensus       387 vQe~r~~~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  387 VQEARHNRDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            1  111111   2345555666655432   1367778999999999999999987543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.21  E-value=1.7e-08  Score=94.71  Aligned_cols=386  Identities=12%  Similarity=0.129  Sum_probs=237.1

Q ss_pred             HHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHH
Q 036340          162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNT  238 (579)
Q Consensus       162 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~  238 (579)
                      |..++. +...+++...++..+.+..         +++....+.....-.+...|+.++|.......+..   +.+.|..
T Consensus        11 F~~~lk-~yE~kQYkkgLK~~~~iL~---------k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv   80 (700)
T KOG1156|consen   11 FRRALK-CYETKQYKKGLKLIKQILK---------KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHV   80 (700)
T ss_pred             HHHHHH-HHHHHHHHhHHHHHHHHHH---------hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHH
Confidence            334444 3455677777777777762         33444455555555667778888888888777665   3456777


Q ss_pred             HHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCch
Q 036340          239 MISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYE  312 (579)
Q Consensus       239 l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  312 (579)
                      +.-.+....++++|+.+|+.+.   +.|...+.-+.-.-++.|+++..........+   .....|..++.++.-.|++.
T Consensus        81 ~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~  160 (700)
T KOG1156|consen   81 LGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYK  160 (700)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence            7777788888999999988877   55667777776666777777776666665554   33457788888888888999


Q ss_pred             HHHHHHHHHHHcC-CCCChhhHHHHHH------hccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHH
Q 036340          313 GAIKLFIQMQVEG-EKPDRHTFSSILS------MSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARI  385 (579)
Q Consensus       313 ~a~~~~~~~~~~~-~~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  385 (579)
                      .|..+++...+.. -.|+...+.....      .....|..+.+.+.+...+..+......-..-...+.+.+++++|..
T Consensus       161 ~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~  240 (700)
T KOG1156|consen  161 MALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVK  240 (700)
T ss_pred             HHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHH
Confidence            9988888887654 2456555544332      33466777777777766555555555555666777888888888888


Q ss_pred             HHHhcc-CCCCeeeHHHHH-HHHHhcCChHHHH-HHHHHh----------------------------------HhCCCC
Q 036340          386 IFEEMK-LLKNVVSWNAMI-GGCASHGFATEAL-ELFKSM----------------------------------RSFKVL  428 (579)
Q Consensus       386 ~~~~~~-~~~~~~~~~~l~-~~~~~~~~~~~A~-~~~~~~----------------------------------~~~~~~  428 (579)
                      ++..+. ..||...|.... .++.+..+..+++ .+|...                                  .+.|++
T Consensus       241 ~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p  320 (700)
T KOG1156|consen  241 VYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVP  320 (700)
T ss_pred             HHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCC
Confidence            888775 345555444333 3332222222222 333333                                  333332


Q ss_pred             CChhhHHHHHHHhcccCcHHHHHHHHHHhHHhh-------CC----------CCCcchh--HHHHHHhhccCChHHHHHH
Q 036340          429 PTYITFISVLSACAHAGLVEEGRQHFKSMVNEY-------GI----------EPRIEHF--ASLVDIVGRHGRLEDAMDL  489 (579)
Q Consensus       429 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~----------~~~~~~~--~~l~~~~~~~g~~~~A~~~  489 (579)
                      +-...+.++   |-.-...+    ++++.+..+       +.          +|....|  ..++..+-+.|+++.|..+
T Consensus       321 ~vf~dl~SL---yk~p~k~~----~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~y  393 (700)
T KOG1156|consen  321 SVFKDLRSL---YKDPEKVA----FLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEY  393 (700)
T ss_pred             chhhhhHHH---HhchhHhH----HHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            222222211   11111111    222222111       00          2232222  3456667778888888888


Q ss_pred             HHhC-CCCCCH-HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          490 IKGM-PFEPDK-AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       490 ~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ++.. ...|.. ..|..-.+.+...|+.++|...++++.+++-.|..+-..-+.-..++++.++|.++.....+.|.
T Consensus       394 Id~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  394 IDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            8776 445543 34555557777778888888888888887766544333556666778888888888877766654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.21  E-value=3.9e-10  Score=104.10  Aligned_cols=214  Identities=15%  Similarity=0.124  Sum_probs=160.4

Q ss_pred             CCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHH
Q 036340          342 GIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELF  419 (579)
Q Consensus       342 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  419 (579)
                      +.|+...|.-.|+..-+..|.+...|..|.......++-..|+..+.+.. . +.|....-.|.-.|...|.-..|++.+
T Consensus       297 ~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L  376 (579)
T KOG1125|consen  297 KNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKML  376 (579)
T ss_pred             hcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            44445555555555555555666677777777777777777777776653 2 335556667777788888778888888


Q ss_pred             HHhHhCCCCCChhhHHHHH-----------HHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHH
Q 036340          420 KSMRSFKVLPTYITFISVL-----------SACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMD  488 (579)
Q Consensus       420 ~~~~~~~~~p~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  488 (579)
                      +.-+...  |.   |..+.           ..+.....+....++|-++....+..+|+.+...|+-.|.-.|++++|.+
T Consensus       377 ~~Wi~~~--p~---y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  377 DKWIRNK--PK---YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHhC--cc---chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            7775432  11   00000           12333344556677777777665666788899999999999999999999


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          489 LIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       489 ~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .|+.+ ..+| |...||.|+..+....+.++|+..|.+++++.|....+.+.|+-.|...|.|++|.++|=..+
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            99987 6677 778999999999999999999999999999999999999999999999999999999987654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=2.9e-07  Score=90.89  Aligned_cols=510  Identities=12%  Similarity=0.147  Sum_probs=274.3

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC--C-----chhHHHHHHHHHHHcCCCCChHHHHHHHhhCC----CCCcchHHHHHHHH
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ--R-----DVVSWNVMISGYISSRGSGFLEEARYLFDIMP----ERDCVTWNTVISGY   70 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~   70 (579)
                      .+.|-+.|-+..|++-|..+..  +     +.-.-..++.-+... .   ++.+.+.++.|.    +.|..+.-.+..-|
T Consensus       613 AqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~l-s---ve~s~eclkaml~~NirqNlQi~VQvatky  688 (1666)
T KOG0985|consen  613 AQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSL-S---VEDSLECLKAMLSANIRQNLQIVVQVATKY  688 (1666)
T ss_pred             HHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhc-C---HHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            3556778888888877777653  1     111122233333322 2   777777777776    34555555555555


Q ss_pred             HccCCHHHHHHHhhcCC---------------CCchhhHHHHHHHHHhcCChhhHHHHHccCCC----------------
Q 036340           71 AKTGEMEEALRLFNSMP---------------ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG----------------  119 (579)
Q Consensus        71 ~~~g~~~~A~~~~~~~~---------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------------  119 (579)
                      ...=-.+.-+++|+...               ..|+....-.|.+.++.|++.+..++.++-.-                
T Consensus       689 ~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL~  768 (1666)
T KOG0985|consen  689 HEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLT  768 (1666)
T ss_pred             HHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhcccc
Confidence            55555566667777654               34666667788888888888888877765421                


Q ss_pred             ---C-----CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCC-----------chhhHHH-------------HHH
Q 036340          120 ---R-----DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGED-----------LVRAYNT-------------LIV  167 (579)
Q Consensus       120 ---~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-----------~~~~~~~-------------l~~  167 (579)
                         |     |..-+-.=+-.|.-.++..+-+++|-+-..-  +..|           +......             +..
T Consensus       769 DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNp--s~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~  846 (1666)
T KOG0985|consen  769 DQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNP--SRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVE  846 (1666)
T ss_pred             ccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCC--cccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHH
Confidence               0     1111111122223333444444444332110  1111           0111111             111


Q ss_pred             HHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcC
Q 036340          168 GYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVL  247 (579)
Q Consensus       168 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~  247 (579)
                      -.-+.++..--...++...        ..| ..+..++|++...|...++-.+-      .++.|+.--...+.-|+...
T Consensus       847 EvEkRNRLklLlp~LE~~i--------~eG-~~d~a~hnAlaKIyIDSNNnPE~------fLkeN~yYDs~vVGkYCEKR  911 (1666)
T KOG0985|consen  847 EVEKRNRLKLLLPWLESLI--------QEG-SQDPATHNALAKIYIDSNNNPER------FLKENPYYDSKVVGKYCEKR  911 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHH--------hcc-CcchHHHhhhhheeecCCCChHH------hcccCCcchhhHHhhhhccc
Confidence            1222333333344444443        223 45677788888887766543321      12222222222333444444


Q ss_pred             ChHHHHHHhhcCC--------CCChhhHHHHHHHHHhcCCHHHHHHHH-----------ccCC------CCChhhHHHHH
Q 036340          248 DMEEASNLFVKMP--------HPDTLTWNAMVSGYAQIGNLELALDFF-----------KRMP------QKNLVSWNSMI  302 (579)
Q Consensus       248 ~~~~a~~~~~~~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~~-----------~~~~------~~~~~~~~~l~  302 (579)
                      ++.-|.-.|++-.        -.....|....+-+.+..+.+.=.+++           +++.      ..|+......+
T Consensus       912 DP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tV  991 (1666)
T KOG0985|consen  912 DPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTV  991 (1666)
T ss_pred             CCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHH
Confidence            4433333333322        011122333333333333332222222           1111      14555566667


Q ss_pred             HHHHhCCCchHHHHHHHHHHHcCCC-CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCC------------------
Q 036340          303 AGCETNKDYEGAIKLFIQMQVEGEK-PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD------------------  363 (579)
Q Consensus       303 ~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------------------  363 (579)
                      .++...+-+.+-+++++++.-.... .....+..++-.-+-..+.....++.+....-..|+                  
T Consensus       992 kAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~if 1071 (1666)
T KOG0985|consen  992 KAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIF 1071 (1666)
T ss_pred             HHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHH
Confidence            7777777777777777776533211 111112222211111222223333332222211121                  


Q ss_pred             ------chHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHH
Q 036340          364 ------VPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISV  437 (579)
Q Consensus       364 ------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l  437 (579)
                            ....+.|+.   .-++++.|.++-++..   .+..|..+..+-.+.|...+|++-|-+.      .|+..|..+
T Consensus      1072 kkf~~n~~A~~VLie---~i~~ldRA~efAe~~n---~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eV 1139 (1666)
T KOG0985|consen 1072 KKFDMNVSAIQVLIE---NIGSLDRAYEFAERCN---EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEV 1139 (1666)
T ss_pred             HHhcccHHHHHHHHH---HhhhHHHHHHHHHhhC---ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHH
Confidence                  111111111   1233444444433332   3457889999999999999998877543      356789999


Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHH
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  517 (579)
                      ++...+.|.|++-.+++.-+.++ ...|.++  ..|+-+|++.++..+-.+++.    .|+......++.-|...|.++.
T Consensus      1140 i~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~a 1212 (1666)
T KOG0985|consen 1140 IDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEA 1212 (1666)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHH
Confidence            99999999999999998766544 5566555  467889999999998887763    5888888889999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          518 AQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       518 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      |.-+|.-        ..-|..|+..+...|.|+.|...-++.
T Consensus      1213 Akl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1213 AKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             HHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8887764        334778888888888888777655543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.20  E-value=5.8e-10  Score=95.37  Aligned_cols=222  Identities=12%  Similarity=0.042  Sum_probs=172.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHccCCC--CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHH-HHHHhccCCC
Q 036340          268 NAMVSGYAQIGNLELALDFFKRMPQ--KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFS-SILSMSSGIV  344 (579)
Q Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~  344 (579)
                      +.+..+|.+.|-+.+|.+.|+...+  +-+.+|..|...|.+..++..|+.++.+-.+.  .|...|+. .+.+.+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            5567777888888888877776654  66667777777888888888888887776553  44444443 4455666777


Q ss_pred             chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHh
Q 036340          345 DLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSM  422 (579)
Q Consensus       345 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  422 (579)
                      +.+.+.++++...+..+.++....++...|.-.++++-|..+|+.+.  -..++..|+.+.-+|.-.++++-++..|++.
T Consensus       305 ~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             hHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHHHH
Confidence            77888888887777777777777888888888899999999998764  2456778888888999999999999999998


Q ss_pred             HhCCCCCChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          423 RSFKVLPTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       423 ~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      ...--.|+..  .|..+.......|++..|.+.|+-.+..  -....+.++.|+-.-.+.|++++|..++...
T Consensus       385 lstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~--d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  385 LSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS--DAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhcc--CcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            8766556543  7888888888999999999999988753  2335678889988889999999999999887

>PF13041 PPR_2: PPR repeat family

Probab=99.20  E-value=4.5e-11  Score=75.51  Aligned_cols=50  Identities=30%  Similarity=0.503  Sum_probs=47.0

Q ss_pred             CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc
Q 036340          394 KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH  443 (579)
Q Consensus       394 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  443 (579)
                      ||..+||+++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78899999999999999999999999999999999999999999998874

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.17  E-value=6.6e-10  Score=105.30  Aligned_cols=197  Identities=22%  Similarity=0.272  Sum_probs=125.6

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHhccC---CCC-CCCc-hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccC
Q 036340          124 SLSALVSGLIQNGELDEAARVLVKCGSR---CDG-GEDL-VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRF  198 (579)
Q Consensus       124 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  198 (579)
                      +...+...|...|+++.|+.+++.++..   ..| ..+. ....+.++..|...+++++|..+|+++.+......|. ..
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~-~h  279 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE-DH  279 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC-CC
Confidence            4555889999999999999999988763   001 1222 2345568889999999999999999987433221111 11


Q ss_pred             CcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC-------C---Ch-hHHHHHHHHHHhcCChHHHHHHhhcCC-------
Q 036340          199 KRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE-------R---DT-FSWNTMISGYIHVLDMEEASNLFVKMP-------  260 (579)
Q Consensus       199 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~-------  260 (579)
                      +.-..+++.|...|.+.|++++|...++...+       .   .+ ..++.++..+...+.+++|..+++...       
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            23466788888999999999999888877633       1   11 235556666777777777777766544       


Q ss_pred             CCC----hhhHHHHHHHHHhcCCHHHHHHHHccCCC-------C----ChhhHHHHHHHHHhCCCchHHHHHHHHH
Q 036340          261 HPD----TLTWNAMVSGYAQIGNLELALDFFKRMPQ-------K----NLVSWNSMIAGCETNKDYEGAIKLFIQM  321 (579)
Q Consensus       261 ~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~  321 (579)
                      .++    ..+++.|...|...|++++|.++++++.+       .    ....++.|...|.+.++++.|..+|.+.
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence            111    23566666666666666666666665542       0    0123455555565666666666655553

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.16  E-value=3.6e-08  Score=96.99  Aligned_cols=496  Identities=13%  Similarity=0.018  Sum_probs=299.2

Q ss_pred             hHHHHHHHhhCCCCCc---chHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCC
Q 036340           45 LEEARYLFDIMPERDC---VTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMP  118 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  118 (579)
                      ...|...|-+..+.|+   ..|..|...|+..-+...|.+.|+...   ..+..++....+.|.+..+++.|..+.-...
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~  553 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAA  553 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHh
Confidence            6777777777776555   368899999988889999999999887   3556788899999999999999999854433


Q ss_pred             CCC-----cchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCC
Q 036340          119 GRD-----SASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGE  193 (579)
Q Consensus       119 ~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  193 (579)
                      +.+     ...|....-.+...++..+|+..|+.+..   ..|.|...|..++.+|.+.|.+..|.++|.++.       
T Consensus       554 qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR---~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs-------  623 (1238)
T KOG1127|consen  554 QKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR---TDPKDYNLWLGLGEAYPESGRYSHALKVFTKAS-------  623 (1238)
T ss_pred             hhchHHHHHhhhhhccccccCccchhhHHHHHHHHhc---CCchhHHHHHHHHHHHHhcCceehHHHhhhhhH-------
Confidence            322     22344455567788999999999999998   678889999999999999999999999999886       


Q ss_pred             CCccCCcch-HHHHHHHHHHHhcCCHHHHHHHHHhcCCC----------ChhHHHHHHHHHHhcCChHHHHHHhhcCC--
Q 036340          194 GNVRFKRNI-VSWNSMIMCYAKAGDVVSAREIFEQMLER----------DTFSWNTMISGYIHVLDMEEASNLFVKMP--  260 (579)
Q Consensus       194 ~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--  260 (579)
                         -+.|+. ..-.-.....+..|.+.+|...+...+..          -..++..+...+...|-..+|...+++..  
T Consensus       624 ---~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~  700 (1238)
T KOG1127|consen  624 ---LLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIES  700 (1238)
T ss_pred             ---hcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence               334442 22222334456789999999888877432          11222223333333333333333333322  


Q ss_pred             ---------CCChhhHHH-------------------HHHHHHh----cCCH---H---HHHHHHccCCC--CChhhHHH
Q 036340          261 ---------HPDTLTWNA-------------------MVSGYAQ----IGNL---E---LALDFFKRMPQ--KNLVSWNS  300 (579)
Q Consensus       261 ---------~~~~~~~~~-------------------l~~~~~~----~g~~---~---~A~~~~~~~~~--~~~~~~~~  300 (579)
                               ..+...|..                   ++..+..    .+..   +   -+.+.+-.-.+  .+..+|..
T Consensus       701 f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyN  780 (1238)
T KOG1127|consen  701 FIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYN  780 (1238)
T ss_pred             HHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHH
Confidence                     011111111                   1111111    1111   0   01111110000  23445555


Q ss_pred             HHHHHHh----CC----CchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          301 MIAGCET----NK----DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       301 l~~~~~~----~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      |+..|.+    .+    +...|+..+.+.++.. .-+..+++ .+......|++..+..-|-......+.+..+|..+..
T Consensus       781 LGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~Wn-aLGVlsg~gnva~aQHCfIks~~sep~~~~~W~Nlgv  858 (1238)
T KOG1127|consen  781 LGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWN-ALGVLSGIGNVACAQHCFIKSRFSEPTCHCQWLNLGV  858 (1238)
T ss_pred             HhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHH-HHHHhhccchhhhhhhhhhhhhhccccchhheeccce
Confidence            5554433    11    2235677777765532 12334444 4444466678877777776666667777888888888


Q ss_pred             HhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhH----hCCCCCChhhHHHHHHHhcccCc
Q 036340          373 MYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMR----SFKVLPTYITFISVLSACAHAGL  446 (579)
Q Consensus       373 ~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~p~~~~~~~l~~~~~~~~~  446 (579)
                      .+....+++.|...|....  .+.+...|..........|+.-++..+|..--    ..|--|...-+.........+|+
T Consensus       859 L~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~  938 (1238)
T KOG1127|consen  859 LVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGN  938 (1238)
T ss_pred             eEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccc
Confidence            8899999999999998876  33456667666666666787778888776621    22333443333333334445565


Q ss_pred             HHHHHHHH----------HHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC----CCCCCHHHHH----HHHHH
Q 036340          447 VEEGRQHF----------KSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM----PFEPDKAVWG----ALLGA  508 (579)
Q Consensus       447 ~~~a~~~~----------~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~----~l~~~  508 (579)
                      .++-+...          +....  +.+.....|...+....+.+.+.+|.....+.    ..+-+...++    .+.+.
T Consensus       939 ~e~~I~t~~ki~sAs~al~~yf~--~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL 1016 (1238)
T KOG1127|consen  939 IEESINTARKISSASLALSYYFL--GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRL 1016 (1238)
T ss_pred             hHHHHHHhhhhhhhHHHHHHHHh--cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhh
Confidence            55443332          23332  33445677777777778888888887776654    2222333333    44566


Q ss_pred             HhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          509 CRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       509 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +...|+++.|...+.....-.-.+.   .......+-.|+++++++.|+++.
T Consensus      1017 ~lslgefe~A~~a~~~~~~evdEdi---~gt~l~lFfkndf~~sl~~fe~aL 1065 (1238)
T KOG1127|consen 1017 ELSLGEFESAKKASWKEWMEVDEDI---RGTDLTLFFKNDFFSSLEFFEQAL 1065 (1238)
T ss_pred             hhhhcchhhHhhhhcccchhHHHHH---hhhhHHHHHHhHHHHHHHHHHHHh
Confidence            6677777766544332211000010   111122356788999999999875

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.15  E-value=1.5e-08  Score=82.89  Aligned_cols=168  Identities=13%  Similarity=0.030  Sum_probs=99.1

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLS  439 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~  439 (579)
                      +..++..+...|.+.|..+.|.+.|+... . +.+..+.|....-+|..|++++|...|++....-.-|.. .+|..+..
T Consensus        68 ~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~  147 (250)
T COG3063          68 YYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGL  147 (250)
T ss_pred             cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHH
Confidence            33444555666666666666666666543 2 334555666666666666666776666666643322322 36666666


Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcCCHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~  516 (579)
                      +..+.|+.+.|...|++.++.   .| .+.....++......|++..|..+++..  ...++..++...++.-...||.+
T Consensus       148 Cal~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~  224 (250)
T COG3063         148 CALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRA  224 (250)
T ss_pred             HHhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHH
Confidence            666666777777666666532   33 3445556666666666666666666665  23355555555556566666666


Q ss_pred             HHHHHHHHHhhcCCCCC
Q 036340          517 LAQVAAEALMKVEPENS  533 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~  533 (579)
                      .+.+.=.++....|...
T Consensus       225 ~a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         225 AAQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHHHHHHHHHhCCCcH
Confidence            66666555666666644

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.14  E-value=8.7e-09  Score=93.93  Aligned_cols=195  Identities=17%  Similarity=0.172  Sum_probs=125.5

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHH
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSA  440 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~  440 (579)
                      ...+..+...|...|+.++|...|++.. . +.+...|+.+...+...|++++|+..|++..+  +.|+. .++..+..+
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~--l~P~~~~a~~~lg~~  141 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            4457777778888888888888887764 2 33456788888888888888888888888874  45654 367777777


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|.+.++...+.   .|+..............++.++|...+.+.  ...|+...+ .+.  ....|+...+
T Consensus       142 l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~~-~~~--~~~lg~~~~~  215 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWGW-NIV--EFYLGKISEE  215 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccHH-HHH--HHHccCCCHH
Confidence            78888888888888887743   443322222222344567788888888554  223332222 122  2223443332


Q ss_pred             HHHHHHHh-------hcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCC
Q 036340          519 QVAAEALM-------KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKP  567 (579)
Q Consensus       519 ~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  567 (579)
                       ..++.+.       ++.|..+.+|..++.++.+.|++++|...|++..+.+++..
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence             2333332       34555666788888888888888888888888877665433

>PF13041 PPR_2: PPR repeat family

Probab=99.13  E-value=1.5e-10  Score=73.09  Aligned_cols=50  Identities=30%  Similarity=0.553  Sum_probs=47.5

Q ss_pred             CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccC
Q 036340          293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG  342 (579)
Q Consensus       293 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (579)
                      ||+.+||.++.+|++.|++++|.++|++|.+.|+.||..||+.++.++++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999999999999999999999999999999988764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.13  E-value=1.8e-08  Score=92.62  Aligned_cols=423  Identities=12%  Similarity=0.052  Sum_probs=246.6

Q ss_pred             HHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCC
Q 036340           98 ISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGR  174 (579)
Q Consensus        98 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  174 (579)
                      .++.+..||++.|+.+|.+...   +|...|..-..+|.+.|++++|++--.+.++   ..|..+..|+..+.++.-.|+
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~---l~p~w~kgy~r~Gaa~~~lg~   85 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR---LNPDWAKGYSRKGAALFGLGD   85 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh---cCCchhhHHHHhHHHHHhccc
Confidence            4567788999999999987543   4666788888899999999999888888777   556677789999999999999


Q ss_pred             HHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHH-----HHHHhcCCh
Q 036340          175 VEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMI-----SGYIHVLDM  249 (579)
Q Consensus       175 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~-----~~~~~~~~~  249 (579)
                      +++|+.-|.+-...         -+.+...++.+..++    ..+.+.  -+..  .++..|..+.     +.+.....+
T Consensus        86 ~~eA~~ay~~GL~~---------d~~n~~L~~gl~~a~----~~~~~~--~~~~--~~p~~~~~l~~~p~t~~~~~~~~~  148 (539)
T KOG0548|consen   86 YEEAILAYSEGLEK---------DPSNKQLKTGLAQAY----LEDYAA--DQLF--TKPYFHEKLANLPLTNYSLSDPAY  148 (539)
T ss_pred             HHHHHHHHHHHhhc---------CCchHHHHHhHHHhh----hHHHHh--hhhc--cCcHHHHHhhcChhhhhhhccHHH
Confidence            99999999887621         134566667777766    111111  1111  1233332222     112222222


Q ss_pred             HHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHh-CCCch----HHHHHHHHHHH-
Q 036340          250 EEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCET-NKDYE----GAIKLFIQMQV-  323 (579)
Q Consensus       250 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~----~a~~~~~~~~~-  323 (579)
                      ..-+..++.-.  +.      +..|..-.++..+.-.+......   .+......... ...+.    .......++.+ 
T Consensus       149 ~~~l~~~~~~p--~~------l~~~l~d~r~m~a~~~l~~~~~~---~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee  217 (539)
T KOG0548|consen  149 VKILEIIQKNP--TS------LKLYLNDPRLMKADGQLKGVDEL---LFYASGIEILASMAEPCKQEHNGFPIIEDNTEE  217 (539)
T ss_pred             HHHHHHhhcCc--Hh------hhcccccHHHHHHHHHHhcCccc---cccccccccCCCCCCcccccCCCCCccchhHHH
Confidence            22222222111  00      00111111111111111111100   00000000000 00000    00000000000 


Q ss_pred             cCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-------
Q 036340          324 EGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-------  395 (579)
Q Consensus       324 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-------  395 (579)
                      .....-..-...+..+..+..++..+.+-+....... .+..-++....+|...|.+..+...-.... ....       
T Consensus       218 ~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~-~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~kl  296 (539)
T KOG0548|consen  218 RRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKL  296 (539)
T ss_pred             HHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHH
Confidence            0001112234455566667777777777777633323 566666777777888777776665544322 0000       


Q ss_pred             -eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcc-hhHHH
Q 036340          396 -VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIE-HFASL  473 (579)
Q Consensus       396 -~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l  473 (579)
                       ...+..+..+|.+.++++.|+..|++.......|+..         .+....+++....+...   -+.|... -...-
T Consensus       297 Iak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~k  364 (539)
T KOG0548|consen  297 IAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKA---YINPEKAEEEREK  364 (539)
T ss_pred             HHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHH---hhChhHHHHHHHH
Confidence             0112234446666788888888888876554444322         23344455555444332   3344331 12233


Q ss_pred             HHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          474 VDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       474 ~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      +..+.+.|++.+|+..+.++ ...| |...|....-+|.+.|.+..|+.-.+..++++|+.+..|..=+.++....+|++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydk  444 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDK  444 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            66778999999999999988 3345 788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCC
Q 036340          552 ANEVRLLMKSNNI  564 (579)
Q Consensus       552 A~~~~~~~~~~~~  564 (579)
                      |.+.+.+..+.+.
T Consensus       445 Aleay~eale~dp  457 (539)
T KOG0548|consen  445 ALEAYQEALELDP  457 (539)
T ss_pred             HHHHHHHHHhcCc
Confidence            9999999877663

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.12  E-value=2.9e-08  Score=95.64  Aligned_cols=124  Identities=14%  Similarity=0.133  Sum_probs=81.8

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      ++..+...|...|++++|++++++.+..   .|+ ++.|..-+++|-+.|++.+|.+.++.. ...+ |...-+..+..+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            4455566777788888888888877743   553 667777777888888888888877777 2333 444455555667


Q ss_pred             hhcCCHHHHHHHHHHHhhcC--CCCC-------CCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          510 RVHNNVELAQVAAEALMKVE--PENS-------TPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~--p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      .+.|++++|...+..-.+.+  |...       ......+.+|.+.|++..|+..+..+
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAV  331 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            77888888877776654433  2110       11234467888888888887776554

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.12  E-value=7.8e-08  Score=81.58  Aligned_cols=313  Identities=13%  Similarity=0.110  Sum_probs=197.3

Q ss_pred             hhhhcCCCHHHHHHHhccCCCC---chhHHHHHHHHHHHcCCCCChHHHHHHHhhCCC--CCcchHH-HHHHHHHccCCH
Q 036340            3 SGYVKRREMAKARKLFDEMPQR---DVVSWNVMISGYISSRGSGFLEEARYLFDIMPE--RDCVTWN-TVISGYAKTGEM   76 (579)
Q Consensus         3 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~-~l~~~~~~~g~~   76 (579)
                      ..+.+..++++|++++..-.++   +....+.|..+|....+   +..|...++++..  |...-|. --...+.+.+.+
T Consensus        18 y~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~---f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i~   94 (459)
T KOG4340|consen   18 YRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQE---FALAAECYEQLGQLHPELEQYRLYQAQSLYKACIY   94 (459)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHH---HHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhccc
Confidence            4457888999999999987763   45567788889999988   9999999999984  3333332 224556688999


Q ss_pred             HHHHHHhhcCCC-CchhhHHHHH--HHHHhcCChhhHHHHHccCCC-CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCC
Q 036340           77 EEALRLFNSMPA-RNVVSWNAMI--SGFLQNGDVANAIEFFDRMPG-RDSASLSALVSGLIQNGELDEAARVLVKCGSRC  152 (579)
Q Consensus        77 ~~A~~~~~~~~~-~~~~~~~~l~--~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  152 (579)
                      .+|+++...|.+ ++...-..-+  ......+|+..+..++++.+. .+..+.......+.+.|+++.|.+-|..+.+-+
T Consensus        95 ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvs  174 (459)
T KOG4340|consen   95 ADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVS  174 (459)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhc
Confidence            999999999985 3333222222  334568999999999999985 667777777778889999999999999998863


Q ss_pred             CCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC-----cch---------------HHHHHHHHHH
Q 036340          153 DGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK-----RNI---------------VSWNSMIMCY  212 (579)
Q Consensus       153 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-----~~~---------------~~~~~l~~~~  212 (579)
                       |..| ..+|+. .-+..+.|+++.|.++..+++..--+.+.+.|+.     ||+               ..+|.-...+
T Consensus       175 -Gyqp-llAYni-ALaHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIe  251 (459)
T KOG4340|consen  175 -GYQP-LLAYNL-ALAHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIE  251 (459)
T ss_pred             -CCCc-hhHHHH-HHHHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhh
Confidence             3333 345654 4456678999999999988874322222222221     111               1123333345


Q ss_pred             HhcCCHHHHHHHHHhcCCC-----ChhHHHHHHHHHHhc--CChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 036340          213 AKAGDVVSAREIFEQMLER-----DTFSWNTMISGYIHV--LDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALD  285 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  285 (579)
                      .+.|+++.|.+.+-.|..+     |+.|...+.-.-...  ++-..-+..+-...+-...||..++-.|++..-++.|-+
T Consensus       252 yq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAAD  331 (459)
T KOG4340|consen  252 YQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAAD  331 (459)
T ss_pred             hhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHH
Confidence            5677888888777777543     666665543222211  111122222222223334577777777777777777777


Q ss_pred             HHccCCC-----CChhhHHHHHHHHHhCCCchHHHHHHHHH
Q 036340          286 FFKRMPQ-----KNLVSWNSMIAGCETNKDYEGAIKLFIQM  321 (579)
Q Consensus       286 ~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  321 (579)
                      ++.+-..     -+...|+.|=..-......++|.+-+..+
T Consensus       332 vLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~L  372 (459)
T KOG4340|consen  332 VLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGL  372 (459)
T ss_pred             HHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            7765433     22333333322222334455555544443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.08  E-value=1e-07  Score=82.55  Aligned_cols=293  Identities=14%  Similarity=0.095  Sum_probs=157.1

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH-HH
Q 036340          128 LVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS-WN  206 (579)
Q Consensus       128 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  206 (579)
                      +...+...|++.+|+..|..+++   +.|.+-.++..-...|...|+-..|+.=+...+          .++||... ..
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve---~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVl----------elKpDF~~ARi  110 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVE---GDPNNYQAIFRRATVYLAMGKSKAALQDLSRVL----------ELKPDFMAARI  110 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHc---CCchhHHHHHHHHHHHhhhcCCccchhhHHHHH----------hcCccHHHHHH
Confidence            44555555566666666655555   445555555555555555555555555555554          23454221 12


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCCh------------------hHHHHHHHHHHhcCChHHHHHHhhcCC---CCChh
Q 036340          207 SMIMCYAKAGDVVSAREIFEQMLERDT------------------FSWNTMISGYIHVLDMEEASNLFVKMP---HPDTL  265 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~~~~~~------------------~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~  265 (579)
                      .-...+.+.|.++.|..-|+.+++.++                  ......+..+...|+...|+.....++   +-|..
T Consensus       111 QRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~  190 (504)
T KOG0624|consen  111 QRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDAS  190 (504)
T ss_pred             HhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhH
Confidence            223445556666666666665544322                  011122334455566666666666555   45566


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccC
Q 036340          266 TWNAMVSGYAQIGNLELALDFFKRMP---QKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG  342 (579)
Q Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  342 (579)
                      .+..-..+|...|++..|+.=++.+.   +.+...+..+-..+...|+.+.++...++.++.  .||....-....    
T Consensus       191 l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YK----  264 (504)
T KOG0624|consen  191 LRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYK----  264 (504)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHH----
Confidence            66666777777777777766555443   345556666666666777777777777766553  444332211110    


Q ss_pred             CCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-----eeeHHHHHHHHHhcCChHHHH
Q 036340          343 IVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-----VVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       343 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~~~~~~A~  416 (579)
                        .+....+.++               -+......+++.++.+..+... ..|.     ...+..+-.++...+++.+|+
T Consensus       265 --klkKv~K~le---------------s~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAi  327 (504)
T KOG0624|consen  265 --KLKKVVKSLE---------------SAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAI  327 (504)
T ss_pred             --HHHHHHHHHH---------------HHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHH
Confidence              0000000000               0112233455555555555432 2332     123444555666677777777


Q ss_pred             HHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          417 ELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       417 ~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      +.-.+..  .+.|+. .++.--..+|.-...++.|+.-|+.+.
T Consensus       328 qqC~evL--~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~  368 (504)
T KOG0624|consen  328 QQCKEVL--DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKAL  368 (504)
T ss_pred             HHHHHHH--hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            7777777  345653 366666677777777777777777665

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.06  E-value=2.7e-06  Score=84.37  Aligned_cols=321  Identities=12%  Similarity=0.146  Sum_probs=155.7

Q ss_pred             CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc
Q 036340          121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       121 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  200 (579)
                      |+...+..+.++...+-..+-+++++++.-.......+...-+.++-...+ -+..+..++.+++.        ... .|
T Consensus       983 dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLd--------nyD-a~ 1052 (1666)
T KOG0985|consen  983 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLD--------NYD-AP 1052 (1666)
T ss_pred             ChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhc--------cCC-ch
Confidence            444445555555555555555555555544322222222223333332222 23334444444442        000 11


Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCH
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNL  280 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  280 (579)
                      +      +...+...+-+++|..+|++..- +..+.+.++.   .-++.+.|.+.-++..  .+.+|+.+..+-.+.|..
T Consensus      1053 ~------ia~iai~~~LyEEAF~ifkkf~~-n~~A~~VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v 1120 (1666)
T KOG0985|consen 1053 D------IAEIAIENQLYEEAFAIFKKFDM-NVSAIQVLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLV 1120 (1666)
T ss_pred             h------HHHHHhhhhHHHHHHHHHHHhcc-cHHHHHHHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCch
Confidence            1      23334444455555555554311 1111111111   2234444444444432  234555566666666666


Q ss_pred             HHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcC
Q 036340          281 ELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV  360 (579)
Q Consensus       281 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  360 (579)
                      .+|++-|-+.  .|+..|..++....+.|.|++-...+....+..-.|...+  .++-+|++.++..+-+.+      -.
T Consensus      1121 ~dAieSyika--dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~rl~elE~f------i~ 1190 (1666)
T KOG0985|consen 1121 KDAIESYIKA--DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNRLTELEEF------IA 1190 (1666)
T ss_pred             HHHHHHHHhc--CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhchHHHHHHH------hc
Confidence            6666555433  3444555666666666666666665555544443343332  344455554444333222      22


Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      .|+......+.+-+...+.++.|.-+|..+.      -|..|...+...|++..|....++.-      +..||..+-.+
T Consensus      1191 gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS------N~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~Vcfa 1258 (1666)
T KOG0985|consen 1191 GPNVANIQQVGDRCFEEKMYEAAKLLYSNVS------NFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEVCFA 1258 (1666)
T ss_pred             CCCchhHHHHhHHHhhhhhhHHHHHHHHHhh------hHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHHHHH
Confidence            3444444555555555555555555554332      46666666777777777766555432      33466666666


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCC--CCcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIE--PRIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      |...+.+.-|.-+        |+.  ...+-...++.-|...|.+++-+.+++..
T Consensus      1259 Cvd~~EFrlAQiC--------GL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~ 1305 (1666)
T KOG0985|consen 1259 CVDKEEFRLAQIC--------GLNIIVHADELEELIEYYQDRGYFEELISLLEAG 1305 (1666)
T ss_pred             HhchhhhhHHHhc--------CceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhh
Confidence            6666555444221        222  23344556677777777777777777654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.05  E-value=2.2e-07  Score=88.35  Aligned_cols=298  Identities=10%  Similarity=-0.081  Sum_probs=173.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHccCCC---CChh---hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHH---
Q 036340          265 LTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLV---SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSS---  335 (579)
Q Consensus       265 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---  335 (579)
                      ..+..+...+...|+.+.+...+....+   ++..   ........+...|++++|...+++..+.... +...+..   
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPR-DLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHhHH
Confidence            3455555556666666665555544332   1211   1222234556678888888888887765321 2222221   


Q ss_pred             HHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChH
Q 036340          336 ILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFAT  413 (579)
Q Consensus       336 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~  413 (579)
                      ........+....+.+.+.......+........+...+...|++++|...+++.. . +.+...+..+...+...|+++
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~  165 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFK  165 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHH
Confidence            11111223444444444433222233334445566778888999999999998874 2 334566788888999999999


Q ss_pred             HHHHHHHHhHhCCC-CCCh--hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh-H--HHHHHhhccCChHHHH
Q 036340          414 EALELFKSMRSFKV-LPTY--ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF-A--SLVDIVGRHGRLEDAM  487 (579)
Q Consensus       414 ~A~~~~~~~~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~  487 (579)
                      +|+.++++...... .|+.  ..|..+...+...|++++|..+++++.......+..... .  .+...+...|....+.
T Consensus       166 eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~  245 (355)
T cd05804         166 EGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGD  245 (355)
T ss_pred             HHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHH
Confidence            99999998876422 1222  245567788899999999999999875321111111111 1  2233334444333333


Q ss_pred             HH--H-HhC-CCCC---CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC---------CCCCchhhhhhhhhcCCchH
Q 036340          488 DL--I-KGM-PFEP---DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE---------NSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       488 ~~--~-~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~---------~~~~~~~l~~~~~~~g~~~~  551 (579)
                      +.  + ... +..|   ..........++...|+.+.|...++.+....-.         ........+.++...|++++
T Consensus       246 ~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~  325 (355)
T cd05804         246 RWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYAT  325 (355)
T ss_pred             HHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHH
Confidence            32  1 111 1111   1122224556678889999999999888652211         23345566778889999999


Q ss_pred             HHHHHHHHHhCC
Q 036340          552 ANEVRLLMKSNN  563 (579)
Q Consensus       552 A~~~~~~~~~~~  563 (579)
                      |.+.+.......
T Consensus       326 A~~~L~~al~~a  337 (355)
T cd05804         326 ALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHH
Confidence            999999876543

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.01  E-value=2.8e-08  Score=89.10  Aligned_cols=240  Identities=14%  Similarity=0.135  Sum_probs=155.7

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC-C--chhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHH
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ-R--DVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEE   78 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   78 (579)
                      |+.++-.|+|..++...+.... +  +...-.-+.++++..|+   ++..+.-......|.......+...+...++-+.
T Consensus         8 vrn~fy~G~Y~~~i~e~~~~~~~~~~~~e~~~~~~Rs~iAlg~---~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEASLKSFSPENKLERDFYQYRSYIALGQ---YDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHHCHTSTCHHHHHHHHHHHHHHHHTT----HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHHHhhhHHHHHHHhhccCCCchhHHHHHHHHHHHHHHcCC---hhHHHHHhccCCChhHHHHHHHHHHHhCccchHH
Confidence            4566778999999976662111 1  23345567788888877   8877766656556776666666666655466777


Q ss_pred             HHHHhhcCC-CC----chhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCC
Q 036340           79 ALRLFNSMP-AR----NVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCD  153 (579)
Q Consensus        79 A~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  153 (579)
                      ++.-++... .+    ++........++...|++++|++++...  .+.......+..+.+.++++.|.+.++.+.+.  
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--  160 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--  160 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Confidence            777666554 22    2222223334566789999999988876  45566777888999999999999999998763  


Q ss_pred             CCCCchhhHHHHHHHHh----hCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 036340          154 GGEDLVRAYNTLIVGYG----QRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQML  229 (579)
Q Consensus       154 ~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  229 (579)
                       .. | .+...++.++.    ..+.+.+|..+|+++.         ..+++++.+.+.++.+....|++++|.+++.+.+
T Consensus       161 -~e-D-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~---------~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al  228 (290)
T PF04733_consen  161 -DE-D-SILTQLAEAWVNLATGGEKYQDAFYIFEELS---------DKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL  228 (290)
T ss_dssp             -SC-C-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHH---------CCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred             -CC-c-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHH---------hccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence             22 2 23333444333    2346899999999985         3456788889999999999999999999999887


Q ss_pred             CCC---hhHHHHHHHHHHhcCCh-HHHHHHhhcCC
Q 036340          230 ERD---TFSWNTMISGYIHVLDM-EEASNLFVKMP  260 (579)
Q Consensus       230 ~~~---~~~~~~l~~~~~~~~~~-~~a~~~~~~~~  260 (579)
                      +.+   +.+...++-+....|+. +.+.+.+.++.
T Consensus       229 ~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  229 EKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             CC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            653   44455555555555555 44555555554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.99  E-value=8.2e-08  Score=86.10  Aligned_cols=246  Identities=13%  Similarity=0.041  Sum_probs=143.9

Q ss_pred             HHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc
Q 036340          167 VGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHV  246 (579)
Q Consensus       167 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~  246 (579)
                      +-+.-.|++..++.-.+ ..        ...-+.+......+.+++...|+++.++.-...-..|.......+...+...
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~--------~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~   79 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LK--------SFSPENKLERDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSP   79 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CH--------TSTCHHHHHHHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTS
T ss_pred             HHHHHhhhHHHHHHHhh-cc--------CCCchhHHHHHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCc
Confidence            34455788988886555 22        1111234555667788999999988776665555556666666666555555


Q ss_pred             CChHHHHHHhhcCC-C----CChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHH
Q 036340          247 LDMEEASNLFVKMP-H----PDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQM  321 (579)
Q Consensus       247 ~~~~~a~~~~~~~~-~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  321 (579)
                      ++-+.++.-+++.. .    .+..........+...|++++|++++...  .+.......+..|.+.++++.|.+.++.|
T Consensus        80 ~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   80 SDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             TTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66777777776655 1    22333333445677889999999999876  56677778889999999999999999999


Q ss_pred             HHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeH
Q 036340          322 QVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSW  399 (579)
Q Consensus       322 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~  399 (579)
                      .+.+   +..+...+..+                              .+..+...+++.+|..+|+++.  ..+++.+.
T Consensus       158 ~~~~---eD~~l~qLa~a------------------------------wv~l~~g~e~~~~A~y~f~El~~~~~~t~~~l  204 (290)
T PF04733_consen  158 QQID---EDSILTQLAEA------------------------------WVNLATGGEKYQDAFYIFEELSDKFGSTPKLL  204 (290)
T ss_dssp             HCCS---CCHHHHHHHHH------------------------------HHHHHHTTTCCCHHHHHHHHHHCCS--SHHHH
T ss_pred             HhcC---CcHHHHHHHHH------------------------------HHHHHhCchhHHHHHHHHHHHHhccCCCHHHH
Confidence            8642   33344444332                              2222322344555666665554  22344445


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcH-HHHHHHHHHhH
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLV-EEGRQHFKSMV  458 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~-~~a~~~~~~~~  458 (579)
                      +.+..++...|++++|.+++.+....  .|+. .+...++.+....|+. +.+.+++.++.
T Consensus       205 ng~A~~~l~~~~~~eAe~~L~~al~~--~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  205 NGLAVCHLQLGHYEEAEELLEEALEK--DPNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            55555556666666666666655432  2332 2444455554555554 44555555554

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.96  E-value=2.3e-08  Score=84.51  Aligned_cols=150  Identities=11%  Similarity=0.074  Sum_probs=101.6

Q ss_pred             HHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCCh
Q 036340          404 GGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRL  483 (579)
Q Consensus       404 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  483 (579)
                      ..|...|+++.+....+.+..    |.        ..+...++.+++...++..++.  -+.+...|..++..|...|++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCH
Confidence            346677777665444332221    11        0122356667777777766643  234677778888888888888


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHH-hhcCC--HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          484 EDAMDLIKGM-PFEP-DKAVWGALLGAC-RVHNN--VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       484 ~~A~~~~~~~-~~~~-~~~~~~~l~~~~-~~~~~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      ++|...+++. ...| +...+..+..++ ...|+  .++|..+++++++.+|+++.++..++..+.+.|++++|...|++
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888776 4444 566777777653 56565  48888888888888888888888888888888888888888888


Q ss_pred             HHhCCCCCC
Q 036340          559 MKSNNIKKP  567 (579)
Q Consensus       559 ~~~~~~~~~  567 (579)
                      +.+...+..
T Consensus       170 aL~l~~~~~  178 (198)
T PRK10370        170 VLDLNSPRV  178 (198)
T ss_pred             HHhhCCCCc
Confidence            877665543

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.94  E-value=1.3e-06  Score=83.09  Aligned_cols=190  Identities=14%  Similarity=0.073  Sum_probs=90.0

Q ss_pred             hHHHHHHHHHhcCChhhHHHHHccCCC---CCcc---hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHH--
Q 036340           93 SWNAMISGFLQNGDVANAIEFFDRMPG---RDSA---SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT--  164 (579)
Q Consensus        93 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~--  164 (579)
                      .|..+...+...|+.+.+...+.....   .+..   ........+...|++++|.+.++++..   ..|.+..++..  
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~---~~P~~~~a~~~~~   84 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLD---DYPRDLLALKLHL   84 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCcHHHHHHhH
Confidence            445555555555555555444443221   1111   111122334455666666666666655   23333333331  


Q ss_pred             -HHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHH
Q 036340          165 -LIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGY  243 (579)
Q Consensus       165 -l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~  243 (579)
                       ........+..+.+.+.++...         ...+........+...+...|++++|...+++.++.+           
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~---------~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-----------  144 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWA---------PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-----------  144 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccC---------cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-----------
Confidence             1111112333444444443321         1112222333344455555666666666665554422           


Q ss_pred             HhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC--C---Ch--hhHHHHHHHHHhCCCchHHHH
Q 036340          244 IHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--K---NL--VSWNSMIAGCETNKDYEGAIK  316 (579)
Q Consensus       244 ~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~---~~--~~~~~l~~~~~~~~~~~~a~~  316 (579)
                                       +.+...+..+...+...|++++|..++++..+  +   +.  ..|..+...+...|++++|..
T Consensus       145 -----------------p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         145 -----------------PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             -----------------CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence                             23344555566666666666666666665543  1   11  124456666777777777777


Q ss_pred             HHHHHH
Q 036340          317 LFIQMQ  322 (579)
Q Consensus       317 ~~~~~~  322 (579)
                      ++++..
T Consensus       208 ~~~~~~  213 (355)
T cd05804         208 IYDTHI  213 (355)
T ss_pred             HHHHHh
Confidence            777764

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.88  E-value=5e-08  Score=86.45  Aligned_cols=183  Identities=12%  Similarity=0.009  Sum_probs=124.0

Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-e---eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh---
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-V---VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI---  432 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~---  432 (579)
                      ......+..++..+...|+++.|...|+++. ..|+ .   ..+..+..++...|++++|+..++++.+.  .|+..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~  107 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDAD  107 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchH
Confidence            3455667777788888888888888888764 2332 2   35567778888888888888888888754  34322   


Q ss_pred             -hHHHHHHHhccc--------CcHHHHHHHHHHhHHhhCCCCCc-chhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHH
Q 036340          433 -TFISVLSACAHA--------GLVEEGRQHFKSMVNEYGIEPRI-EHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVW  502 (579)
Q Consensus       433 -~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  502 (579)
                       ++..+..++...        |++++|.+.++.++..   .|+. .....+....    ......           ....
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~~-----------~~~~  169 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNRL-----------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHHH-----------HHHH
Confidence             344555555544        6778888888888754   3432 2222111110    000000           0111


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC---CCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPENS---TPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ..+...+...|++.+|+..++++++..|+++   .++..++.++...|++++|..+++.+....
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            2455678899999999999999999887764   578899999999999999999999887543

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.84  E-value=2.3e-08  Score=79.85  Aligned_cols=102  Identities=12%  Similarity=0.003  Sum_probs=50.0

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      +...+...|++++|...|+.++.   ..| +...+..++.++.+.|++++|...|++. ...| +...+..++.++...|
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            34444555555555555555442   223 3444455555555555555555555544 2222 4444455555555555


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      ++++|+..|+++++..|+++..+...+.
T Consensus       107 ~~~eAi~~~~~Al~~~p~~~~~~~~~~~  134 (144)
T PRK15359        107 EPGLAREAFQTAIKMSYADASWSEIRQN  134 (144)
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            5555555555555555555544444433

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.83  E-value=1.6e-07  Score=95.88  Aligned_cols=210  Identities=13%  Similarity=0.143  Sum_probs=172.8

Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCC-----CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCC
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLK-----NVVSWNAMIGGCASHGFATEALELFKSMRSFKVL  428 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  428 (579)
                      .-...|.+...|...|......++.++|++++++..  +.+     -...|.++++.....|.-+...++|+++.+.  -
T Consensus      1450 lvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--c 1527 (1710)
T KOG1070|consen 1450 LVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--C 1527 (1710)
T ss_pred             HHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--c
Confidence            334455566778888888889999999999998874  211     2346888888888888888899999999853  2


Q ss_pred             CChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC---CHHHHHH
Q 036340          429 PTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP---DKAVWGA  504 (579)
Q Consensus       429 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~~~~~~~  504 (579)
                      .....|..|...|.+.+.+++|.++++.|.++++  .....|..++..+.++.+-++|..+++++ ..-|   .......
T Consensus      1528 d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~Isk 1605 (1710)
T KOG1070|consen 1528 DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISK 1605 (1710)
T ss_pred             chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHH
Confidence            2234788899999999999999999999999766  67788999999999999999999999887 3233   3446666


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCCc
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTG  569 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  569 (579)
                      .+..-.+.||.+++..+|+..+.-.|.....|..++..-.++|+.+.++.+|+++...++++...
T Consensus      1606 fAqLEFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkm 1670 (1710)
T KOG1070|consen 1606 FAQLEFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKM 1670 (1710)
T ss_pred             HHHHHhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHh
Confidence            77778899999999999999999999999999999999999999999999999999988875543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.81  E-value=1.8e-07  Score=86.98  Aligned_cols=246  Identities=11%  Similarity=0.042  Sum_probs=157.0

Q ss_pred             HHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHH
Q 036340          305 CETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEAR  384 (579)
Q Consensus       305 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  384 (579)
                      +.+.|+..+|.-.|+..++.... +...|..+.......++-..|+..+.....-.|.+..+...|.-.|...|.-..|.
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            34455555555555555444221 34444444444445555555555555555555556666777778888888888888


Q ss_pred             HHHHhcc-CCCCeeeHHHHH---------HHHHhcCChHHHHHHHHHhH-hCCCCCChhhHHHHHHHhcccCcHHHHHHH
Q 036340          385 IIFEEMK-LLKNVVSWNAMI---------GGCASHGFATEALELFKSMR-SFKVLPTYITFISVLSACAHAGLVEEGRQH  453 (579)
Q Consensus       385 ~~~~~~~-~~~~~~~~~~l~---------~~~~~~~~~~~A~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  453 (579)
                      +.++... ..|. ..|....         ..+..........++|-++. ..+..+|+.....|.-.|--.|.+++|+..
T Consensus       374 ~~L~~Wi~~~p~-y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  374 KMLDKWIRNKPK-YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHhCcc-chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            8877652 1110 0000000         11111122334444444443 444346777777777788888999999999


Q ss_pred             HHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCC
Q 036340          454 FKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDK-AVWGALLGACRVHNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       454 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  530 (579)
                      |+.++   .++| |..+|+.|+-.++...+.++|+..|.++ ..+|.. .++..++-.|...|.+++|...|-.++.+.+
T Consensus       453 f~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  453 FEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            99888   4467 6788999999999999999999999887 678864 4777888889999999999999998887665


Q ss_pred             CC-----C-----CCchhhhhhhhhcCCchHHHHH
Q 036340          531 EN-----S-----TPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       531 ~~-----~-----~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      .+     .     .+|..|=.++.-.++.|-+.+.
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            41     1     2566666666677776644443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.80  E-value=2.5e-07  Score=77.59  Aligned_cols=156  Identities=12%  Similarity=0.069  Sum_probs=98.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR  479 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  479 (579)
                      ..+-..+...|+-+....+..+... ....+.......+....+.|++..|...+++...  .-++|...|+.++-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~-~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI-AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc-cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            4444555566666666666665432 1122223444466666677777777777776653  334566777777777777


Q ss_pred             cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHH
Q 036340          480 HGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRL  557 (579)
Q Consensus       480 ~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  557 (579)
                      .|++++|..-|.+. ...| ++...+++...+.-.|+.+.|..++..+....+.++.+-..|+.+...+|++++|..+..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            77777777666555 3333 455667777777777777777777777776666667777777777777777777766654


Q ss_pred             H
Q 036340          558 L  558 (579)
Q Consensus       558 ~  558 (579)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.80  E-value=1e-05  Score=87.46  Aligned_cols=355  Identities=12%  Similarity=-0.024  Sum_probs=217.8

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCChh--HHHHHHHHHHhcCChHHHHHHhhcCC----CCChhhHHHHHHHHHhcCCHHH
Q 036340          209 IMCYAKAGDVVSAREIFEQMLERDTF--SWNTMISGYIHVLDMEEASNLFVKMP----HPDTLTWNAMVSGYAQIGNLEL  282 (579)
Q Consensus       209 ~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~  282 (579)
                      ...+...|++..|..........+..  ............|+++.+...++.+.    ..++.........+...|++++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~  427 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSE  427 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHH
Confidence            34455566666666555554333211  11222334556688888878877763    1223333444555667899999


Q ss_pred             HHHHHccCCC----CC---h-----hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCCh----hhHHHHHHhccCCCch
Q 036340          283 ALDFFKRMPQ----KN---L-----VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDR----HTFSSILSMSSGIVDL  346 (579)
Q Consensus       283 A~~~~~~~~~----~~---~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~  346 (579)
                      +..++.....    .+   .     .....+...+...|+++.|...+++....-...+.    .....+...+...|++
T Consensus       428 a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~  507 (903)
T PRK04841        428 VNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL  507 (903)
T ss_pred             HHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH
Confidence            8888875432    11   1     11222344566789999999999988763211121    2233444556789999


Q ss_pred             hhHHHHHHH-Hhh--cC-CC--CchHHHHHHHHhhhcCCHHHHHHHHHhcc-----C-CCC----eeeHHHHHHHHHhcC
Q 036340          347 HLGMQIHQM-VTK--TV-IP--DVPINNALITMYARCGAIVEARIIFEEMK-----L-LKN----VVSWNAMIGGCASHG  410 (579)
Q Consensus       347 ~~a~~~~~~-~~~--~~-~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~-~~~----~~~~~~l~~~~~~~~  410 (579)
                      +.|...+.. ...  .. .+  .......+...+...|+++.|...+++..     . .++    ...+..+...+...|
T Consensus       508 ~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G  587 (903)
T PRK04841        508 ARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWA  587 (903)
T ss_pred             HHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhc
Confidence            999988776 221  11 11  12344566777888999999999887653     0 111    122344556677789


Q ss_pred             ChHHHHHHHHHhHhCC--CCCC--hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh-----HHHHHHhhccC
Q 036340          411 FATEALELFKSMRSFK--VLPT--YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF-----ASLVDIVGRHG  481 (579)
Q Consensus       411 ~~~~A~~~~~~~~~~~--~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g  481 (579)
                      ++++|...+++.....  ..+.  ...+..+...+...|+++.|.+.++.+..-.........+     ......+...|
T Consensus       588 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  667 (903)
T PRK04841        588 RLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTG  667 (903)
T ss_pred             CHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCC
Confidence            9999999998876421  1122  2245556667788999999999988875421111111111     11123445689


Q ss_pred             ChHHHHHHHHhCCCC--CCHH----HHHHHHHHHhhcCCHHHHHHHHHHHhhcCC------CCCCCchhhhhhhhhcCCc
Q 036340          482 RLEDAMDLIKGMPFE--PDKA----VWGALLGACRVHNNVELAQVAAEALMKVEP------ENSTPYVLLYNMYADVGRW  549 (579)
Q Consensus       482 ~~~~A~~~~~~~~~~--~~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~  549 (579)
                      +.+.|...+......  ....    .+..+..++...|++++|...++++.....      ....++..++.++...|+.
T Consensus       668 ~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~  747 (903)
T PRK04841        668 DKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRK  747 (903)
T ss_pred             CHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCH
Confidence            999999998776311  1111    134566778889999999999999986421      1223567788899999999


Q ss_pred             hHHHHHHHHHHhCC
Q 036340          550 DDANEVRLLMKSNN  563 (579)
Q Consensus       550 ~~A~~~~~~~~~~~  563 (579)
                      ++|...+.+..+..
T Consensus       748 ~~A~~~L~~Al~la  761 (903)
T PRK04841        748 SEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.77  E-value=6.7e-08  Score=77.22  Aligned_cols=109  Identities=12%  Similarity=0.009  Sum_probs=89.7

Q ss_pred             HHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          452 QHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      .++++.+   .+.|+  .+..++..+...|++++|...|+.+ ...| +...|..++.++...|++++|+..|+++++++
T Consensus        14 ~~~~~al---~~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLL---SVDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHH---HcCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            3455554   33454  3556788888999999999999887 4444 77788899999999999999999999999999


Q ss_pred             CCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          530 PENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       530 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      |+++.++..++.++...|++++|.+.+++..+....
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~  124 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYA  124 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999998876543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.77  E-value=8.2e-06  Score=88.18  Aligned_cols=356  Identities=11%  Similarity=-0.021  Sum_probs=206.3

Q ss_pred             HHHhcCChhhHHHHHccCCCCCcc--hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHH
Q 036340          100 GFLQNGDVANAIEFFDRMPGRDSA--SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEE  177 (579)
Q Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  177 (579)
                      .+...|++..|...+.........  ........+...|+++.+...+..+...  ....+..........+...|++++
T Consensus       350 ~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~--~~~~~~~l~~~~a~~~~~~g~~~~  427 (903)
T PRK04841        350 AWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWE--VLLENPRLVLLQAWLAQSQHRYSE  427 (903)
T ss_pred             HHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHH--HHhcCcchHHHHHHHHHHCCCHHH
Confidence            344455555555555444332111  1122233455678888877777665321  111222233445556677899999


Q ss_pred             HHHHHccccccCCCCCCCccCCc--chHHHHHHHHHHHhcCCHHHHHHHHHhcCC--C--Ch----hHHHHHHHHHHhcC
Q 036340          178 ARKLFDKIPVNCDRGEGNVRFKR--NIVSWNSMIMCYAKAGDVVSAREIFEQMLE--R--DT----FSWNTMISGYIHVL  247 (579)
Q Consensus       178 A~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~--~~----~~~~~l~~~~~~~~  247 (579)
                      +..++..+.......  ..+-.+  .......+...+...|+++.|...+++...  +  +.    ...+.+...+...|
T Consensus       428 a~~~l~~a~~~~~~~--~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G  505 (903)
T PRK04841        428 VNTLLARAEQELKDR--NIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG  505 (903)
T ss_pred             HHHHHHHHHHhcccc--CcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC
Confidence            999888764221100  000011  122223344566789999999999988654  1  21    23455666777889


Q ss_pred             ChHHHHHHhhcCC-------CCC--hhhHHHHHHHHHhcCCHHHHHHHHccCCC-------CC----hhhHHHHHHHHHh
Q 036340          248 DMEEASNLFVKMP-------HPD--TLTWNAMVSGYAQIGNLELALDFFKRMPQ-------KN----LVSWNSMIAGCET  307 (579)
Q Consensus       248 ~~~~a~~~~~~~~-------~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~  307 (579)
                      ++++|...+++..       .+.  ..+...+...+...|+++.|...+++...       ++    ...+..+...+..
T Consensus       506 ~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~  585 (903)
T PRK04841        506 ELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWE  585 (903)
T ss_pred             CHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence            9999998888776       111  12445566778889999999888776543       11    1223445556677


Q ss_pred             CCCchHHHHHHHHHHHcC--CCCC--hhhHHHHHHhccCCCchhhHHHHHHHHhh---cCCCCch--H--HHHHHHHhhh
Q 036340          308 NKDYEGAIKLFIQMQVEG--EKPD--RHTFSSILSMSSGIVDLHLGMQIHQMVTK---TVIPDVP--I--NNALITMYAR  376 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~--~--~~~l~~~~~~  376 (579)
                      .|++++|...+.+.....  ..+.  ...+..+.......|+.+.|...+.....   .......  .  ....+..+..
T Consensus       586 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  665 (903)
T PRK04841        586 WARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQM  665 (903)
T ss_pred             hcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHH
Confidence            799999998888875431  1121  22333344566678888888877766211   1111110  0  0112233455


Q ss_pred             cCCHHHHHHHHHhccCCCC-eee------HHHHHHHHHhcCChHHHHHHHHHhHhC----CCCCCh-hhHHHHHHHhccc
Q 036340          377 CGAIVEARIIFEEMKLLKN-VVS------WNAMIGGCASHGFATEALELFKSMRSF----KVLPTY-ITFISVLSACAHA  444 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~~~~~-~~~------~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~p~~-~~~~~l~~~~~~~  444 (579)
                      .|+.+.|..++.... .+. ...      +..+..++...|++++|...+++....    |..+.. .+...+..++...
T Consensus       666 ~g~~~~A~~~l~~~~-~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~  744 (903)
T PRK04841        666 TGDKEAAANWLRQAP-KPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQ  744 (903)
T ss_pred             CCCHHHHHHHHHhcC-CCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHc
Confidence            778888888876654 111 111      235566677788888888888876543    222222 2555566677888


Q ss_pred             CcHHHHHHHHHHhHHh
Q 036340          445 GLVEEGRQHFKSMVNE  460 (579)
Q Consensus       445 ~~~~~a~~~~~~~~~~  460 (579)
                      |+.++|...+.+++..
T Consensus       745 G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        745 GRKSEAQRVLLEALKL  760 (903)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888888888887654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.75  E-value=3.7e-07  Score=87.31  Aligned_cols=196  Identities=16%  Similarity=0.160  Sum_probs=124.1

Q ss_pred             CCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH
Q 036340          360 VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLS  439 (579)
Q Consensus       360 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  439 (579)
                      .+|-...-..+...+...|-...|..+|+++.      .|.-++.+|...|+..+|..+..+..+  .+|++..|..+.+
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            44555555666677777777777777777665      566666777777777777777766665  3566666666666


Q ss_pred             HhcccCcHHHHHHHHHHhHHh-------------------------hCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          440 ACAHAGLVEEGRQHFKSMVNE-------------------------YGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~-------------------------~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      .....--+++|.++.+....+                         ..+.| -..+|..+.-+..+.++++.|.+.|...
T Consensus       466 v~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            554444444444444332211                         02223 3455666666666777777777666655


Q ss_pred             -CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          494 -PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       494 -~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                       ...| +...|+++..+|.+.|+..+|...+.++++-+-.+..+|.+...+..+.|.|++|.+.+.++.+..
T Consensus       546 vtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  546 VTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             hhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence             4455 455777777777777777777777777777666666677777777777777777777777665444

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.74  E-value=0.00014  Score=67.77  Aligned_cols=429  Identities=12%  Similarity=0.117  Sum_probs=224.6

Q ss_pred             CCcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCC--CCcchHHHHHHHH
Q 036340           58 RDCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG--RDSASLSALVSGL  132 (579)
Q Consensus        58 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~  132 (579)
                      -|+.+|+.|+.-+..+ .++++...++++.   +..+..|...|..-.+.++++..+.+|.+...  -+.+.|...+.--
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~YV   96 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSYV   96 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            3556677777766544 7777777777776   23445667777777777777777777777654  2445555444322


Q ss_pred             Hh-CCCHH----HHHHHHHHhccCCCCCCCchhhHHHHHHHH---------hhCCCHHHHHHHHccccccCCCCCCCccC
Q 036340          133 IQ-NGELD----EAARVLVKCGSRCDGGEDLVRAYNTLIVGY---------GQRGRVEEARKLFDKIPVNCDRGEGNVRF  198 (579)
Q Consensus       133 ~~-~g~~~----~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~---------~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  198 (579)
                      .+ .|+..    ...+.|+-.+........+...|+..+..+         ....+.+..+++|.++....-...  ..+
T Consensus        97 R~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nl--EkL  174 (656)
T KOG1914|consen   97 RETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNL--EKL  174 (656)
T ss_pred             HHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccH--HHH
Confidence            21 22222    222333333333212223333444444332         223355667788888873210000  000


Q ss_pred             CcchHHHHHHHHHH-------HhcCCHHHHHHHHHhcCC------CC---------------hhHHHHHHHHHHhcCCh-
Q 036340          199 KRNIVSWNSMIMCY-------AKAGDVVSAREIFEQMLE------RD---------------TFSWNTMISGYIHVLDM-  249 (579)
Q Consensus       199 ~~~~~~~~~l~~~~-------~~~~~~~~A~~~~~~~~~------~~---------------~~~~~~l~~~~~~~~~~-  249 (579)
                      -.|-..|..-++..       -+...+-.|.++++++..      .+               ...|-.+|..-...+-- 
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence            01222222222211       123455667777766521      10               01133333322111100 


Q ss_pred             -------HHHHHHhhcCC-----CCChhh-----HHHHHHHHHhcCC-------HHHHHHHHccCCC----CChhhHHHH
Q 036340          250 -------EEASNLFVKMP-----HPDTLT-----WNAMVSGYAQIGN-------LELALDFFKRMPQ----KNLVSWNSM  301 (579)
Q Consensus       250 -------~~a~~~~~~~~-----~~~~~~-----~~~l~~~~~~~g~-------~~~A~~~~~~~~~----~~~~~~~~l  301 (579)
                             ....-.++...     .|+...     .....+.+.+.|+       .+++..++++...    .+..+|..+
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   00111111111     122110     0111223334444       4555556655543    233333333


Q ss_pred             HHHHHhC---CCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCC-CchHHHHHHHHhhh
Q 036340          302 IAGCETN---KDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIP-DVPINNALITMYAR  376 (579)
Q Consensus       302 ~~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~-~~~~~~~l~~~~~~  376 (579)
                      ...--..   +..+....+++++...-..--..+|...+....+..-...|+.+|.. .+.+..+ ++.+..+++.-||.
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs  414 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS  414 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc
Confidence            3321111   23566677777776543333345666777777788888888999888 4444433 66777788877765


Q ss_pred             cCCHHHHHHHHHhc-cCCCCeee-HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCcHHHHHH
Q 036340          377 CGAIVEARIIFEEM-KLLKNVVS-WNAMIGGCASHGFATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGLVEEGRQ  452 (579)
Q Consensus       377 ~~~~~~A~~~~~~~-~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~  452 (579)
                       ++.+-|.++|+-- +.-+|... -...+.-+...++-..+..+|++....++.|+..  .|..++.--+.-|++..+.+
T Consensus       415 -kD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~  493 (656)
T KOG1914|consen  415 -KDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILK  493 (656)
T ss_pred             -CChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHH
Confidence             6788888888753 33344444 3456666777888888999999988877776654  88888888888899998888


Q ss_pred             HHHHhHHhhC--CCCCcchhHHHHHHhhccCChHHHHHHH
Q 036340          453 HFKSMVNEYG--IEPRIEHFASLVDIVGRHGRLEDAMDLI  490 (579)
Q Consensus       453 ~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~  490 (579)
                      +-+++...+.  ..+....-..++..|.-.+....-..-+
T Consensus       494 lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~el  533 (656)
T KOG1914|consen  494 LEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDEL  533 (656)
T ss_pred             HHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHH
Confidence            8777765433  2333333344555555555444333333

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.69  E-value=9.8e-07  Score=88.70  Aligned_cols=132  Identities=11%  Similarity=0.074  Sum_probs=76.0

Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHH
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFAS  472 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~  472 (579)
                      ++..+..|.....+.|.+++|+.+++...+  +.|+.. ....++..+.+.+++++|...+++.+.   ..| +......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHH
Confidence            345555566666666666666666666663  355544 455555566666666666666666553   234 3444555


Q ss_pred             HHHHhhccCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          473 LVDIVGRHGRLEDAMDLIKGMP-FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ++.++.+.|++++|..+|+++- ..| +..++..+..++...|+.++|...|+++++...+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            5666666666666666666652 222 3455556666666666666666666666655544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.67  E-value=8.4e-07  Score=84.94  Aligned_cols=224  Identities=12%  Similarity=0.056  Sum_probs=174.3

Q ss_pred             HHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC
Q 036340          299 NSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCG  378 (579)
Q Consensus       299 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  378 (579)
                      ..+...+.+.|-...|..+|+++.         .+..++.+|...|+..+|..+...... .+|++..|..+++......
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~le-k~~d~~lyc~LGDv~~d~s  471 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELE-KDPDPRLYCLLGDVLHDPS  471 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhc-CCCcchhHHHhhhhccChH
Confidence            346677888999999999998864         456677888889999999998887444 7889999999999888888


Q ss_pred             CHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          379 AIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       379 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      -+++|.++.+.....    +-..+.....+.++++++.+.|+.-.+  +.|-. .+|..+..+..+.++++.|.+.|...
T Consensus       472 ~yEkawElsn~~sar----A~r~~~~~~~~~~~fs~~~~hle~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  472 LYEKAWELSNYISAR----AQRSLALLILSNKDFSEADKHLERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHHHHhhhhhHH----HHHhhccccccchhHHHHHHHHHHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            899999998875411    112222233447999999999998774  45544 48888888888999999999999988


Q ss_pred             HHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC--C
Q 036340          458 VNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPE--N  532 (579)
Q Consensus       458 ~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--~  532 (579)
                      +   ...| +...|+.+..+|.+.|+..+|...+++. +. ..+...|.+.+-...+-|.+++|++.+.++..+...  +
T Consensus       546 v---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d  622 (777)
T KOG1128|consen  546 V---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKD  622 (777)
T ss_pred             h---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhccc
Confidence            7   4566 5789999999999999999999999988 32 335557888888888999999999999999865422  3


Q ss_pred             CCCchhhhh
Q 036340          533 STPYVLLYN  541 (579)
Q Consensus       533 ~~~~~~l~~  541 (579)
                      +.....++.
T Consensus       623 ~~vl~~iv~  631 (777)
T KOG1128|consen  623 DEVLLIIVR  631 (777)
T ss_pred             chhhHHHHH
Confidence            444444443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.66  E-value=0.00039  Score=68.96  Aligned_cols=520  Identities=12%  Similarity=0.085  Sum_probs=247.6

Q ss_pred             hcCCCHHHHHHHhccCCCCchh-HHHHHHHHHHHcCCCCChHHHHHHHhhCC---CCCcchHHHHHHHHHccCCHHHHHH
Q 036340            6 VKRREMAKARKLFDEMPQRDVV-SWNVMISGYISSRGSGFLEEARYLFDIMP---ERDCVTWNTVISGYAKTGEMEEALR   81 (579)
Q Consensus         6 ~~~~~~~~A~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~   81 (579)
                      +..+++.+|+...++..+..|. .|...+.++...+. |+.++|..+++...   ..|..|...+-.+|...|+.++|..
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~-gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRL-GKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHh-cCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHH
Confidence            4567788888888887763322 23344444433322 44888888877765   3466788888888888888888888


Q ss_pred             HhhcCC--CCchhhHHHHHHHHHhcCChhh----HHHHHccCCCCCcchHHHHHHHHHhCC----------CHHHHHHHH
Q 036340           82 LFNSMP--ARNVVSWNAMISGFLQNGDVAN----AIEFFDRMPGRDSASLSALVSGLIQNG----------ELDEAARVL  145 (579)
Q Consensus        82 ~~~~~~--~~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~~~~~~~~~~l~~~~~~~g----------~~~~A~~~~  145 (579)
                      +|+++.  .|+......+..+|.+.+++.+    |.++++..++ ++..+..++....+.-          -..-|.+.+
T Consensus        99 ~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~  177 (932)
T KOG2053|consen   99 LYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAEKMV  177 (932)
T ss_pred             HHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHHHHH
Confidence            888887  3555556666777777776554    5555554433 4444444444443211          123455666


Q ss_pred             HHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHH
Q 036340          146 VKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIF  225 (579)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  225 (579)
                      +.+.+.. |.-.+..-...-...+-..|++++|.+++..-..       ..-..-+...-+.-+..+...+++.+..++-
T Consensus       178 ~~~l~~~-gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la-------~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  178 QKLLEKK-GKIESEAEIILYLLILELQGKYQEALEFLAITLA-------EKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHhccC-CccchHHHHHHHHHHHHhcccHHHHHHHHHHHHH-------HhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            6666653 2222222222233344567778888887733210       1111233444445566677777777777777


Q ss_pred             HhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChh-hHHHH
Q 036340          226 EQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLV-SWNSM  301 (579)
Q Consensus       226 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~-~~~~l  301 (579)
                      .+++..+..-|...+..         ..++++....+....      .+...+..+...+...+...   +++. ++--+
T Consensus       250 ~~Ll~k~~Ddy~~~~~s---------v~klLe~~~~~~a~~------~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel  314 (932)
T KOG2053|consen  250 SRLLEKGNDDYKIYTDS---------VFKLLELLNKEPAEA------AHSLSKSLDECIEKAQKNIGSKSRGPYLARLEL  314 (932)
T ss_pred             HHHHHhCCcchHHHHHH---------HHHHHHhcccccchh------hhhhhhhHHHHHHHHHHhhcccccCcHHHHHHH
Confidence            77665433223333222         111111111111111      11111222222222222221   2221 11111


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCc---h---HHHHHHHHhh
Q 036340          302 IAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDV---P---INNALITMYA  375 (579)
Q Consensus       302 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~---~~~~l~~~~~  375 (579)
                      ..-+-.-|+.+++...|-+-  -|.+|   .+..=+..|...=+.++-..++...........   .   .+...+....
T Consensus       315 ~kr~~~~gd~ee~~~~y~~k--fg~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~r  389 (932)
T KOG2053|consen  315 DKRYKLIGDSEEMLSYYFKK--FGDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLR  389 (932)
T ss_pred             HHHhcccCChHHHHHHHHHH--hCCCc---HhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHH
Confidence            12222346666655444321  12111   111111111111111222222222100000000   0   0111111111


Q ss_pred             hcCC-----HHHHHHHHHhc----c--------CCCCee---------eHHHHHHHHHhcCChH---HHHHHHHHhHhCC
Q 036340          376 RCGA-----IVEARIIFEEM----K--------LLKNVV---------SWNAMIGGCASHGFAT---EALELFKSMRSFK  426 (579)
Q Consensus       376 ~~~~-----~~~A~~~~~~~----~--------~~~~~~---------~~~~l~~~~~~~~~~~---~A~~~~~~~~~~~  426 (579)
                      -.|.     .+.-..++.+.    .        .-|+..         +.+.|+..+.+.++..   +|+-+++.-..  
T Consensus       390 l~G~~~~l~ad~i~a~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt--  467 (932)
T KOG2053|consen  390 LLGLYEKLPADSILAYVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLT--  467 (932)
T ss_pred             HhhccccCChHHHHHHHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh--
Confidence            1121     11112222111    1        112221         2456777788877755   45555554442  


Q ss_pred             CCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC--CCCC-HHHH
Q 036340          427 VLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP--FEPD-KAVW  502 (579)
Q Consensus       427 ~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~-~~~~  502 (579)
                      ..|.. .+-..+++.|.-.|-+..|.++|+.+--+ .+..|.--|. +...+...|++..+...+...-  ...+ ..+-
T Consensus       468 ~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~  545 (932)
T KOG2053|consen  468 KSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHL-IFRRAETSGRSSFASNTFNEHLKFYDSSLKETP  545 (932)
T ss_pred             cCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchHH-HHHHHHhcccchhHHHHHHHHHHHHhhhhhhhH
Confidence            34433 36667788888889999999999887544 5666554443 3344566778877777766541  1111 1122


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCC----CCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPE----NSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ..+.. ..+.|.+.+..++..-=..+.-.    -..+-..........++.++=...++.+.
T Consensus       546 eyI~~-AYr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  546 EYIAL-AYRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             HHHHH-HHHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence            22333 34667776665554322222211    11223344455566677666666666654

>PLN02789 farnesyltranstransferase

Probab=98.65  E-value=4e-06  Score=76.39  Aligned_cols=191  Identities=12%  Similarity=0.077  Sum_probs=126.8

Q ss_pred             HHHHHHHHhhhcC-CHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCCh--HHHHHHHHHhHhCCCCCC-hhhHHHHHH
Q 036340          366 INNALITMYARCG-AIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFA--TEALELFKSMRSFKVLPT-YITFISVLS  439 (579)
Q Consensus       366 ~~~~l~~~~~~~~-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~~~p~-~~~~~~l~~  439 (579)
                      +++....++...| .+++++..++++.  .+.+..+|+.-...+.+.|+.  ++++.+++++.+  ..|. ..+|.....
T Consensus        73 aW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~--~dpkNy~AW~~R~w  150 (320)
T PLN02789         73 VWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILS--LDAKNYHAWSHRQW  150 (320)
T ss_pred             HHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHH--hCcccHHHHHHHHH
Confidence            3344444444455 4677887777664  233445566555555555553  677888888885  3454 447887777


Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhcc---CCh----HHHHHHHHhC-CCCC-CHHHHHHHHHHHh
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRH---GRL----EDAMDLIKGM-PFEP-DKAVWGALLGACR  510 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~-~~~~-~~~~~~~l~~~~~  510 (579)
                      ++...|+++++++.++++++. . ..+...|+....++.+.   |..    ++++.+..++ ...| |...|+.+...+.
T Consensus       151 ~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~  228 (320)
T PLN02789        151 VLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFK  228 (320)
T ss_pred             HHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHh
Confidence            888888899999999888864 1 22556666665555443   222    3566666444 4455 6678888777776


Q ss_pred             hc----CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC------------------CchHHHHHHHHHH
Q 036340          511 VH----NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG------------------RWDDANEVRLLMK  560 (579)
Q Consensus       511 ~~----~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~A~~~~~~~~  560 (579)
                      ..    +...+|..++.++.+.+|.++.++..|+.+|....                  ..++|.++++.+.
T Consensus       229 ~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        229 DDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             cCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            63    34567888889988889999888999999998643                  2367888888773

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.65  E-value=1.2e-06  Score=73.59  Aligned_cols=136  Identities=15%  Similarity=0.094  Sum_probs=114.0

Q ss_pred             CCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHH
Q 036340          427 VLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGA  504 (579)
Q Consensus       427 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~  504 (579)
                      ..|+......+...+...|+-+....+......  ..+.+......++....+.|++.+|...+.+.  ..++|...|+.
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            456544336666778888888888888776543  22335566667899999999999999999998  45668999999


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +..+|.+.|++++|...|.+++++.|+++.+...|+..|.-.|+++.|..++......+.
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999998865554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.64  E-value=2.1e-06  Score=76.03  Aligned_cols=183  Identities=15%  Similarity=0.059  Sum_probs=127.9

Q ss_pred             CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCc---hHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-ee---eH
Q 036340          328 PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDV---PINNALITMYARCGAIVEARIIFEEMK-LLKN-VV---SW  399 (579)
Q Consensus       328 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-~~---~~  399 (579)
                      .....+......+...|+++.|...++......+.++   ..+..++.++...|++++|...++++. ..|+ ..   .+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            3455667777788899999999999998655555544   467888999999999999999999884 3343 22   35


Q ss_pred             HHHHHHHHhc--------CChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh
Q 036340          400 NAMIGGCASH--------GFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF  470 (579)
Q Consensus       400 ~~l~~~~~~~--------~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  470 (579)
                      ..+..++...        |+.++|++.++++...  .|+.. ....+...    +...      ... .        ...
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~----~~~~------~~~-~--------~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM----DYLR------NRL-A--------GKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH----HHHH------HHH-H--------HHH
Confidence            5666666654        7789999999999864  56543 32222111    0000      000 0        011


Q ss_pred             HHHHHHhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM----PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ..++..+.+.|++++|+..+++.    +..| ....+..++.++...|++++|...++.+....|+
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~~  235 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYPD  235 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            35667788899999999988877    2223 3567888889999999999999988888766653

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.63  E-value=2e-06  Score=72.76  Aligned_cols=152  Identities=8%  Similarity=0.073  Sum_probs=114.2

Q ss_pred             HHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHH
Q 036340          370 LITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEE  449 (579)
Q Consensus       370 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  449 (579)
                      -+..|...|+++......+.+. .|. .       .+...++.++++..+++..+.. +.+...|..+...|...|++++
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~-~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLA-DPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHh-Ccc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3456777888877655554432 121 0       1223566788888888887542 3345588889999999999999


Q ss_pred             HHHHHHHhHHhhCCCC-CcchhHHHHHHh-hccCC--hHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHH
Q 036340          450 GRQHFKSMVNEYGIEP-RIEHFASLVDIV-GRHGR--LEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAE  523 (579)
Q Consensus       450 a~~~~~~~~~~~~~~~-~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  523 (579)
                      |...|++..+   +.| +...+..++.++ ...|+  .++|.+++++. ...| +...+..+...+.+.|++++|+..|+
T Consensus        92 A~~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         92 ALLAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999998874   355 677888888864 67777  58999999988 4455 67788888899999999999999999


Q ss_pred             HHhhcCCCCCC
Q 036340          524 ALMKVEPENST  534 (579)
Q Consensus       524 ~~~~~~p~~~~  534 (579)
                      ++++..|.+..
T Consensus       169 ~aL~l~~~~~~  179 (198)
T PRK10370        169 KVLDLNSPRVN  179 (198)
T ss_pred             HHHhhCCCCcc
Confidence            99999988765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.62  E-value=1.9e-07  Score=72.85  Aligned_cols=98  Identities=9%  Similarity=0.008  Sum_probs=85.6

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +.+....++..+...|++++|.++|+-+ ...| +...|..|..++...|++++|+..|.++..++|+++.++..++.++
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            4455567777788999999999999987 4455 6778899999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHHHhCC
Q 036340          544 ADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ...|+.+.|.+-|+..+..-
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHh
Confidence            99999999999999876543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.58  E-value=3.7e-07  Score=72.87  Aligned_cols=92  Identities=20%  Similarity=0.328  Sum_probs=44.1

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ..++..+...|++++|...++.+ ...| +...+..+...+...|++++|...++++++..|+++..+..++.+|...|+
T Consensus        21 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~  100 (135)
T TIGR02552        21 YALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGE  100 (135)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC
Confidence            33444444444444444444443 1122 334444444444455555555555555555555555555555555555555


Q ss_pred             chHHHHHHHHHHhC
Q 036340          549 WDDANEVRLLMKSN  562 (579)
Q Consensus       549 ~~~A~~~~~~~~~~  562 (579)
                      +++|...+++..+.
T Consensus       101 ~~~A~~~~~~al~~  114 (135)
T TIGR02552       101 PESALKALDLAIEI  114 (135)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555544443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PLN02789 farnesyltranstransferase

Probab=98.57  E-value=1.8e-06  Score=78.66  Aligned_cols=190  Identities=12%  Similarity=0.110  Sum_probs=141.1

Q ss_pred             HHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcC-ChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccC
Q 036340          370 LITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHG-FATEALELFKSMRSFKVLPTYI-TFISVLSACAHAG  445 (579)
Q Consensus       370 l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~  445 (579)
                      +-..+...+..++|+.+..++. ..| +..+|+.-..++...| ++++++..++++.+.  .|+.. +|..-...+.+.|
T Consensus        43 ~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~  120 (320)
T PLN02789         43 FRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLG  120 (320)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcC
Confidence            3344556778899999998875 334 4456776666777777 579999999999864  45443 6665555555556


Q ss_pred             c--HHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhc---CC---
Q 036340          446 L--VEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVH---NN---  514 (579)
Q Consensus       446 ~--~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~---~~---  514 (579)
                      .  .+++..+++++++.   .| +..+|.....++...|+++++++.+.++ ...| +...|+....++.+.   |.   
T Consensus       121 ~~~~~~el~~~~kal~~---dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~  197 (320)
T PLN02789        121 PDAANKELEFTRKILSL---DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEA  197 (320)
T ss_pred             chhhHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccc
Confidence            5  36788888888743   45 7788998999999999999999999998 3334 677888777666544   22   


Q ss_pred             -HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc----CCchHHHHHHHHHHhCCC
Q 036340          515 -VELAQVAAEALMKVEPENSTPYVLLYNMYADV----GRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       515 -~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~  564 (579)
                       .++++....+++..+|+|..+|..+..++...    ++..+|.+...+..+.++
T Consensus       198 ~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~  252 (320)
T PLN02789        198 MRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS  252 (320)
T ss_pred             cHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC
Confidence             35678888899999999999999999999883    455678888887766443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.56  E-value=1.5e-05  Score=67.07  Aligned_cols=135  Identities=17%  Similarity=0.251  Sum_probs=84.3

Q ss_pred             HHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhh----CCC
Q 036340           99 SGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQ----RGR  174 (579)
Q Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~  174 (579)
                      ..|.+.|++++|++....  ..+......-+..+.+..+++-|.+.+++|.+.     .+..+.+.|..++.+    .++
T Consensus       116 ~i~~~~~~~deAl~~~~~--~~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i-----ded~tLtQLA~awv~la~ggek  188 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHL--GENLEAAALNVQILLKMHRFDLAEKELKKMQQI-----DEDATLTQLAQAWVKLATGGEK  188 (299)
T ss_pred             HHhhcCCChHHHHHHHhc--cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-----chHHHHHHHHHHHHHHhccchh
Confidence            456777778877777766  233333444455666777777777777777662     223344445544443    446


Q ss_pred             HHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCCh
Q 036340          175 VEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDM  249 (579)
Q Consensus       175 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~  249 (579)
                      ...|.-+|+++.         ...+|++.+.+..+.++...|++++|..+++..+.+   ++.+...++-+-...|..
T Consensus       189 ~qdAfyifeE~s---------~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  189 IQDAFYIFEELS---------EKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             hhhHHHHHHHHh---------cccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCC
Confidence            777777777775         235777777777777777778888888877777664   344444444444444433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.55  E-value=1.1e-05  Score=82.21  Aligned_cols=240  Identities=10%  Similarity=0.046  Sum_probs=137.6

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHccCCC--CC-hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036340          262 PDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--KN-LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILS  338 (579)
Q Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  338 (579)
                      .+...+..|+..+...+++++|.++.+...+  |+ ...|..+...+.+.++.+.+..+  .+.               .
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l---------------~   91 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLI---------------D   91 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhh---------------h
Confidence            3445566666666667777777777665443  22 22344444455555554444433  221               1


Q ss_pred             hccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHH
Q 036340          339 MSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       339 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~  416 (579)
                      ......++.....+... ......+..++..++.+|-+.|+.++|..+++++.  .+.|+.+.|.+...|... +.++|+
T Consensus        92 ~~~~~~~~~~ve~~~~~-i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         92 SFSQNLKWAIVEHICDK-ILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             hcccccchhHHHHHHHH-HHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHH
Confidence            11112222111111111 11133334455667777777777777777777764  334566677777777777 777777


Q ss_pred             HHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCC
Q 036340          417 ELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFE  496 (579)
Q Consensus       417 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  496 (579)
                      +++.+....               +...+++..+.++|.+++..  .+.+...+..+.+.....-            +..
T Consensus       170 ~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~--~~~d~d~f~~i~~ki~~~~------------~~~  220 (906)
T PRK14720        170 TYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHY--NSDDFDFFLRIERKVLGHR------------EFT  220 (906)
T ss_pred             HHHHHHHHH---------------HHhhhcchHHHHHHHHHHhc--CcccchHHHHHHHHHHhhh------------ccc
Confidence            777776642               44556777777777777642  2223333333332222211            112


Q ss_pred             CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          497 PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       497 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      --..++..+...|...+++++++.+++.+++.+|.|..+...++..|.  ++|.+
T Consensus       221 ~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~--~kY~~  273 (906)
T PRK14720        221 RLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK--EKYKD  273 (906)
T ss_pred             hhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH--HHccC
Confidence            233455555666778889999999999999999999988888888887  44444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.53  E-value=1.6e-05  Score=73.08  Aligned_cols=138  Identities=18%  Similarity=0.160  Sum_probs=100.6

Q ss_pred             HHHHhcCChHHHHHHHHHhHhCCCCCChhhHH-HHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccC
Q 036340          404 GGCASHGFATEALELFKSMRSFKVLPTYITFI-SVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHG  481 (579)
Q Consensus       404 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  481 (579)
                      -.+...|++++|+..++.+...  .|+...|. .....+...|+.++|.+.+++++.   ..|+ ......++.+|.+.|
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcC
Confidence            3455678888888888888853  56665444 444578888888888888888874   3565 555667888888888


Q ss_pred             ChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          482 RLEDAMDLIKGM--PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       482 ~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ++.+|+.+++..  ..+.|+..|..+..+|...|+..++...                 .+..|.-.|+|++|...+...
T Consensus       389 ~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A  451 (484)
T COG4783         389 KPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMRA  451 (484)
T ss_pred             ChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHHH
Confidence            888888888877  3344778888888888888887776544                 345666777788888777777


Q ss_pred             HhCC
Q 036340          560 KSNN  563 (579)
Q Consensus       560 ~~~~  563 (579)
                      ++..
T Consensus       452 ~~~~  455 (484)
T COG4783         452 SQQV  455 (484)
T ss_pred             HHhc
Confidence            6554

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.50  E-value=1.5e-05  Score=82.02  Aligned_cols=216  Identities=15%  Similarity=0.146  Sum_probs=164.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhcCC-C-------CChhhHHHHHHHHHhcCCHHHHHHHHccCCC-CC-hhhHHHH
Q 036340          232 DTFSWNTMISGYIHVLDMEEASNLFVKMP-H-------PDTLTWNAMVSGYAQIGNLELALDFFKRMPQ-KN-LVSWNSM  301 (579)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~-------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~l  301 (579)
                      +...|-..+......++.++|.++.++++ .       .-.-.|.++++.-..-|.-+...++|+++.+ -| ...|..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            34567777888888888888888888877 1       1234677777777777888888889988877 33 3468888


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCC--CchHHHHHHHHhhhcCC
Q 036340          302 IAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIP--DVPINNALITMYARCGA  379 (579)
Q Consensus       302 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~  379 (579)
                      ...|.+.+.+++|.++|+.|.+.- .-....|...+..+.+..+-+.|..++.......|.  ........+.+-.+.|+
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCC
Confidence            899999999999999999998742 246667888888888888888888888885555544  56667778888889999


Q ss_pred             HHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCcHH
Q 036340          380 IVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGLVE  448 (579)
Q Consensus       380 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~  448 (579)
                      .+.+..+|+...  .+.....|+..+..-.++|+.+.+..+|++....++.|-..  .|...+..--..|+-.
T Consensus      1616 aeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             chhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            999999999875  33456789999999999999999999999999888887544  4555554333334433

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.50  E-value=3.8e-05  Score=64.77  Aligned_cols=86  Identities=12%  Similarity=0.149  Sum_probs=45.7

Q ss_pred             HhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHH
Q 036340          373 MYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVE  448 (579)
Q Consensus       373 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  448 (579)
                      .+.+..+.+-|.+.++.|..-.+..+.+-|..++.+    .+....|.-+|++|.+ ...|+..+.+..+.++...|+++
T Consensus       146 I~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~e  224 (299)
T KOG3081|consen  146 ILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYE  224 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHH
Confidence            344445555666666655533333444445554443    2345556666666653 24555555555555555666666


Q ss_pred             HHHHHHHHhHH
Q 036340          449 EGRQHFKSMVN  459 (579)
Q Consensus       449 ~a~~~~~~~~~  459 (579)
                      +|..+++..+.
T Consensus       225 eAe~lL~eaL~  235 (299)
T KOG3081|consen  225 EAESLLEEALD  235 (299)
T ss_pred             HHHHHHHHHHh
Confidence            66666655554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.49  E-value=4.7e-06  Score=69.47  Aligned_cols=196  Identities=14%  Similarity=0.134  Sum_probs=122.6

Q ss_pred             CCchhhHHHHHHH----Hhhc-CCCCch-HHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHH-HHHHHhcCChHH
Q 036340          343 IVDLHLGMQIHQM----VTKT-VIPDVP-INNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAM-IGGCASHGFATE  414 (579)
Q Consensus       343 ~~~~~~a~~~~~~----~~~~-~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~  414 (579)
                      ..+.++..+++..    ...+ ..++.. ++..++-+....|+.+.|...++++. .-|...-...| ..-+-..|++++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            4456666666554    2233 344433 44556666667788888888887764 11332222222 222334677888


Q ss_pred             HHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-
Q 036340          415 ALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-  493 (579)
Q Consensus       415 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  493 (579)
                      |+++++.+.+.. +.|.+++..=+...-..|+.-+|++-+....+.  +..|.+.|..+.+.|...|++++|.-.++++ 
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l  181 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELL  181 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH
Confidence            888888887653 334446655555555667777777777777663  4567788888888888888888888888877 


Q ss_pred             CCCC-CHHHHHHHHHHHhhcC---CHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          494 PFEP-DKAVWGALLGACRVHN---NVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       494 ~~~~-~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      -..| ++..+..+...+.-.|   +.+-|.+.|+++++++|.+...+..+..
T Consensus       182 l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~GI~l  233 (289)
T KOG3060|consen  182 LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFGIYL  233 (289)
T ss_pred             HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHHHHH
Confidence            2334 5666666666644333   5677788888888888866555554433

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.49  E-value=0.00079  Score=62.97  Aligned_cols=147  Identities=12%  Similarity=0.117  Sum_probs=111.6

Q ss_pred             HHHHHHHHHhcc----CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHH
Q 036340          380 IVEARIIFEEMK----LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHF  454 (579)
Q Consensus       380 ~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~  454 (579)
                      .+.....++++.    ..| ..+|..++..-.+..-.+.|..+|.+..+.+..+ ....+++++..++ .++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            444445555543    222 3467788888888888999999999999988888 5557777777655 47889999999


Q ss_pred             HHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC---CCC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          455 KSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP---FEP--DKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      +.-+++++  .++......+.-+...++-..|..+|++.-   ..|  ....|..++.--..-|+...+.++-++.....
T Consensus       425 eLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af  502 (656)
T KOG1914|consen  425 ELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAF  502 (656)
T ss_pred             HHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhc
Confidence            98887643  344555677788889999999999999882   233  35689999988889999999999988887766


Q ss_pred             C
Q 036340          530 P  530 (579)
Q Consensus       530 p  530 (579)
                      |
T Consensus       503 ~  503 (656)
T KOG1914|consen  503 P  503 (656)
T ss_pred             c
Confidence            6

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.47  E-value=1.4e-06  Score=80.74  Aligned_cols=122  Identities=14%  Similarity=0.140  Sum_probs=97.9

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhh
Q 036340          434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRV  511 (579)
Q Consensus       434 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~  511 (579)
                      ...|+..+...++++.|.++++++.+.   .|+  ....++.++...++..+|.+++.+. ...| +...+......+.+
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            344556666778888888888888654   343  4556778888888888888888776 3233 66677777788889


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          512 HNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       512 ~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .++++.|+.+.+++.+..|++..+|..|+.+|...|++++|+..++.+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999888664

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=1.3e-05  Score=66.93  Aligned_cols=182  Identities=13%  Similarity=0.120  Sum_probs=113.1

Q ss_pred             CCCchHHHHHHHHHHH---cC-CCCChhh-HHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHH
Q 036340          308 NKDYEGAIKLFIQMQV---EG-EKPDRHT-FSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVE  382 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~---~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  382 (579)
                      ..+.++.++++.++..   .| ..++..+ |..++-+....+..+.|...++.....+|.+..+-..-+..+...|++++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhh
Confidence            3456777777777653   23 3344433 33444455667777777777777666665555555555555666677777


Q ss_pred             HHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          383 ARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       383 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      |.++++.+.  .+.|..++-.-+......|+.-+|++-+....+ .+..|...|..+...|...|++++|.-++++++  
T Consensus       105 A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~-~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~l--  181 (289)
T KOG3060|consen  105 AIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLD-KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELL--  181 (289)
T ss_pred             HHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHH--
Confidence            777777764  233455566556666666776777777776665 245566677777777777777777777777776  


Q ss_pred             hCCCC-CcchhHHHHHHhhccC---ChHHHHHHHHhC
Q 036340          461 YGIEP-RIEHFASLVDIVGRHG---RLEDAMDLIKGM  493 (579)
Q Consensus       461 ~~~~~-~~~~~~~l~~~~~~~g---~~~~A~~~~~~~  493 (579)
                       -+.| ++..+..+++.+.-.|   +.+-|.+++.+.
T Consensus       182 -l~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  182 -LIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             -HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence             3345 4455566666655444   444566666655

>PF12854 PPR_1: PPR repeat

Probab=98.43  E-value=4.6e-07  Score=51.02  Aligned_cols=33  Identities=36%  Similarity=0.607  Sum_probs=30.5

Q ss_pred             cCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 036340          197 RFKRNIVSWNSMIMCYAKAGDVVSAREIFEQML  229 (579)
Q Consensus       197 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  229 (579)
                      |+.||..+|+.++.+|++.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            789999999999999999999999999999873

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.40  E-value=5.2e-05  Score=77.40  Aligned_cols=232  Identities=14%  Similarity=0.144  Sum_probs=139.4

Q ss_pred             CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc
Q 036340          121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       121 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  200 (579)
                      +...+..|+..+...+++++|.++.+...+   ..|.....|..++..+.+.++...+.-+  .+.              
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~---~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l--------------   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLK---EHKKSISALYISGILSLSRRPLNDSNLL--NLI--------------   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCcceehHHHHHHHHHhhcchhhhhhh--hhh--------------
Confidence            445666777777777777777777776666   4555566666666667666665555444  222              


Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHH
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLE--RDTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYA  275 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~  275 (579)
                               .......++.....++..+.+  .+..++..++.+|-+.|+.++|...++++.   +.|+.+.+.+...|+
T Consensus        91 ---------~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~a  161 (906)
T PRK14720         91 ---------DSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYE  161 (906)
T ss_pred             ---------hhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHH
Confidence                     222222222222222222222  133456666777777777777777777776   466788888898888


Q ss_pred             hcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH
Q 036340          276 QIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      .. ++++|..++.+.           +..+...+++..+.++|.++....+. +...|..+.....+.            
T Consensus       162 e~-dL~KA~~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~------------  216 (906)
T PRK14720        162 EE-DKEKAITYLKKA-----------IYRFIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGH------------  216 (906)
T ss_pred             Hh-hHHHHHHHHHHH-----------HHHHHhhhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhh------------
Confidence            88 999999887754           33367777899999999998875322 222222222211111            


Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHH
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCA  407 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  407 (579)
                        .+..--..++..+-..|...++++++..+++.+.  .+.|.....-++.+|.
T Consensus       217 --~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        217 --REFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             --hccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence              1222233444556667777778888888887764  2334455555666655

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.39  E-value=3.9e-05  Score=70.62  Aligned_cols=108  Identities=17%  Similarity=0.140  Sum_probs=51.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCCC--C-hhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHH
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLER--D-TFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYA  275 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~  275 (579)
                      +..+......+.+.|+.++|.+.+++++..  + ...+..+..++.+.|++.+|+.+++...   +.|+..|..|..+|.
T Consensus       340 ~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~  419 (484)
T COG4783         340 PYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYA  419 (484)
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHH
Confidence            333333444444444444444444444332  1 2233344444444455544444444443   344555555556665


Q ss_pred             hcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHH
Q 036340          276 QIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQV  323 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  323 (579)
                      ..|+..++..-.              ...|...|+++.|+..+....+
T Consensus       420 ~~g~~~~a~~A~--------------AE~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         420 ELGNRAEALLAR--------------AEGYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HhCchHHHHHHH--------------HHHHHhCCCHHHHHHHHHHHHH
Confidence            555555444322              2334455555655555555544

>PF12854 PPR_1: PPR repeat

Probab=98.38  E-value=4.9e-07  Score=50.91  Aligned_cols=32  Identities=25%  Similarity=0.457  Sum_probs=21.2

Q ss_pred             CCCCChhhHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          426 KVLPTYITFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       426 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      |+.||..||+.++.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56666666666666666666666666666655

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.37  E-value=5.1e-06  Score=66.26  Aligned_cols=113  Identities=13%  Similarity=0.088  Sum_probs=86.4

Q ss_pred             HHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC
Q 036340          418 LFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF  495 (579)
Q Consensus       418 ~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  495 (579)
                      .+++..+  ..|+.. ....+...+...|++++|.+.++.+...  .+.+...+..++.++...|++++|...++.. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4555553  455443 5666667788889999999998888653  2336677888888888899999999888877 33


Q ss_pred             CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          496 EP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       496 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      .| +...+..+...+...|++++|...++++++..|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            44 6677888888888999999999999999999998765

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.35  E-value=3.9e-05  Score=77.42  Aligned_cols=147  Identities=9%  Similarity=0.031  Sum_probs=116.6

Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC-eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-
Q 036340          356 VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN-VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-  432 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-  432 (579)
                      .....+.++..+..|.....+.|.+++|+.+++... ..|+ ......++..+.+.+++++|+..+++....  .|+.. 
T Consensus        78 ~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~  155 (694)
T PRK15179         78 YVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAR  155 (694)
T ss_pred             HHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHH
Confidence            455677778889999999999999999999999875 4454 556777888899999999999999999864  56655 


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALL  506 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~  506 (579)
                      ....+..++.+.|++++|..+|+++...  .+.+...+..++.++...|+.++|...|++.  ...|....|+.++
T Consensus       156 ~~~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        156 EILLEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            6677777889999999999999999852  2334778888999999999999999999887  3345555555544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=3.1e-06  Score=73.20  Aligned_cols=111  Identities=14%  Similarity=0.096  Sum_probs=94.8

Q ss_pred             CCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHh-hc--CCHHHHHHHHHHHhhcCCCCCCCchh
Q 036340          464 EPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACR-VH--NNVELAQVAAEALMKVEPENSTPYVL  538 (579)
Q Consensus       464 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~-~~--~~~~~A~~~~~~~~~~~p~~~~~~~~  538 (579)
                      +-|.+.|..|+.+|...|+++.|..-|.+. ... +++..+..+..++. ..  .+..++..+++++++.+|.|+.+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            338899999999999999999999999887 343 46777777776643 22  35688999999999999999999999


Q ss_pred             hhhhhhhcCCchHHHHHHHHHHhCCCCCCCcceeeE
Q 036340          539 LYNMYADVGRWDDANEVRLLMKSNNIKKPTGYSWVD  574 (579)
Q Consensus       539 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  574 (579)
                      |+..+..+|++.+|...|+.|.+...+..|+-+.|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie  268 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            999999999999999999999999988888766554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=98.28  E-value=0.0033  Score=57.77  Aligned_cols=139  Identities=13%  Similarity=0.169  Sum_probs=75.7

Q ss_pred             HccCCHHHHHHHhhcCCC---Cchh------hHHHHHHHHHhcCChhhHHHHHccCCCC-CcchHHHHHHHH--HhCCCH
Q 036340           71 AKTGEMEEALRLFNSMPA---RNVV------SWNAMISGFLQNGDVANAIEFFDRMPGR-DSASLSALVSGL--IQNGEL  138 (579)
Q Consensus        71 ~~~g~~~~A~~~~~~~~~---~~~~------~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~--~~~g~~  138 (579)
                      .+++++.+|..+|.++.+   .++.      .-+.++++|... +.+.....+....+. ....|..+..++  .+.+.+
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~~   95 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKEY   95 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhhH
Confidence            456777777777777652   2211      123445555443 334333333333221 133444444443  367778


Q ss_pred             HHHHHHHHHhccCCCCCC-C-----------chhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHH
Q 036340          139 DEAARVLVKCGSRCDGGE-D-----------LVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWN  206 (579)
Q Consensus       139 ~~A~~~~~~~~~~~~~~~-~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (579)
                      ..|.+.+........+.. +           +...=+..+.++...|++.+++.+++++...--    .....-+..+|+
T Consensus        96 ~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~ll----krE~~w~~d~yd  171 (549)
T PF07079_consen   96 RKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLL----KRECEWNSDMYD  171 (549)
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHh----hhhhcccHHHHH
Confidence            888877766554311111 1           111224567788899999999999998862110    112235778888


Q ss_pred             HHHHHHHh
Q 036340          207 SMIMCYAK  214 (579)
Q Consensus       207 ~l~~~~~~  214 (579)
                      .++-.+.+
T Consensus       172 ~~vlmlsr  179 (549)
T PF07079_consen  172 RAVLMLSR  179 (549)
T ss_pred             HHHHHHhH
Confidence            76655544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=98.27  E-value=0.0038  Score=60.40  Aligned_cols=221  Identities=14%  Similarity=0.111  Sum_probs=129.7

Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCC-CchhhHHHHH----------HHHHhcCChhhHHHH
Q 036340           45 LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPA-RNVVSWNAMI----------SGFLQNGDVANAIEF  113 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~----------~~~~~~~~~~~A~~~  113 (579)
                      +++|.++.+..  |.+..|..+.......-.++.|+..|-+..+ +....--.|-          ..-.--|.+++|.++
T Consensus       679 ledA~qfiEdn--PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~  756 (1189)
T KOG2041|consen  679 LEDAIQFIEDN--PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKL  756 (1189)
T ss_pred             hHHHHHHHhcC--CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhh
Confidence            56666665544  3345566666555555555555555554431 1111101111          111224777778777


Q ss_pred             HccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCC
Q 036340          114 FDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGE  193 (579)
Q Consensus       114 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  193 (579)
                      +-++.++|..     +....+.|++-...++++.--... ....-..+++.++..+.....|++|.++|..-.       
T Consensus       757 yld~drrDLA-----ielr~klgDwfrV~qL~r~g~~d~-dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~-------  823 (1189)
T KOG2041|consen  757 YLDADRRDLA-----IELRKKLGDWFRVYQLIRNGGSDD-DDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCG-------  823 (1189)
T ss_pred             hhccchhhhh-----HHHHHhhhhHHHHHHHHHccCCCc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-------
Confidence            7777665532     445566777777777766522210 112223578888888888888888888887654       


Q ss_pred             CCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHH
Q 036340          194 GNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSG  273 (579)
Q Consensus       194 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~  273 (579)
                                -....+.++.+..++++-+.+...+.+ +....-.+...+.+.|.-++|.+.|-+...|..     .+..
T Consensus       824 ----------~~e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pka-----Av~t  887 (1189)
T KOG2041|consen  824 ----------DTENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRSLPKA-----AVHT  887 (1189)
T ss_pred             ----------chHhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhccCcHH-----HHHH
Confidence                      122456677777777766666655544 334455667777777888888777766554432     3456


Q ss_pred             HHhcCCHHHHHHHHccCCCCChh
Q 036340          274 YAQIGNLELALDFFKRMPQKNLV  296 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~~~~~~~  296 (579)
                      |...++|.+|.++-++..-|.+.
T Consensus       888 Cv~LnQW~~avelaq~~~l~qv~  910 (1189)
T KOG2041|consen  888 CVELNQWGEAVELAQRFQLPQVQ  910 (1189)
T ss_pred             HHHHHHHHHHHHHHHhccchhHH
Confidence            66777888888777766554443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.25  E-value=3.1e-05  Score=62.24  Aligned_cols=115  Identities=13%  Similarity=0.091  Sum_probs=53.1

Q ss_pred             CCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc--hHHHHHHHHHH
Q 036340          135 NGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN--IVSWNSMIMCY  212 (579)
Q Consensus       135 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~~~~  212 (579)
                      .++...+...++.+.+..++.+....+...+...+...|++++|...|+.+.        ...-.|+  ......+..++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~--------~~~~d~~l~~~a~l~LA~~~   95 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKAL--------ANAPDPELKPLARLRLARIL   95 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH--------hhCCCHHHHHHHHHHHHHHH
Confidence            5555555555555555432222223344445555556666666666666655        1111111  12333445555


Q ss_pred             HhcCCHHHHHHHHHhcCCC--ChhHHHHHHHHHHhcCChHHHHHHhh
Q 036340          213 AKAGDVVSAREIFEQMLER--DTFSWNTMISGYIHVLDMEEASNLFV  257 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (579)
                      ...|++++|+..++....+  .+..+.....++.+.|++++|...|+
T Consensus        96 ~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen   96 LQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            5566666666665543222  12223333344444444444444443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.24  E-value=4.7e-05  Score=61.22  Aligned_cols=115  Identities=14%  Similarity=0.173  Sum_probs=70.5

Q ss_pred             hcCChHHHHHHHHHhHhCCCCCCh----hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC--cchhHHHHHHhhccC
Q 036340          408 SHGFATEALELFKSMRSFKVLPTY----ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR--IEHFASLVDIVGRHG  481 (579)
Q Consensus       408 ~~~~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g  481 (579)
                      ..++...+...++.+.+.  .|+.    .....+...+...|++++|...|+.+... ...|.  ......++.++...|
T Consensus        23 ~~~~~~~~~~~~~~l~~~--~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~   99 (145)
T PF09976_consen   23 QAGDPAKAEAAAEQLAKD--YPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQG   99 (145)
T ss_pred             HCCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcC
Confidence            366677777777777754  2322    23333445667777777777777777654 22222  123445667777777


Q ss_pred             ChHHHHHHHHhCCCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 036340          482 RLEDAMDLIKGMPFEP-DKAVWGALLGACRVHNNVELAQVAAEAL  525 (579)
Q Consensus       482 ~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  525 (579)
                      ++++|+..++.....+ .+..+...+.++...|++++|+..|+++
T Consensus       100 ~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  100 QYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             CHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7777777776653222 3445555666677777777777777765

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.23  E-value=7.1e-06  Score=63.77  Aligned_cols=60  Identities=17%  Similarity=0.034  Sum_probs=28.5

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCCC---CCCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPEN---STPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      ..++.++.+.|++++|...++++....|++   +.++..++.++.+.|++++|...++++.+.
T Consensus        43 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        43 YWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            334444444555555555555555444443   223444444555555555555555554443

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.21  E-value=1e-06  Score=60.40  Aligned_cols=66  Identities=20%  Similarity=0.202  Sum_probs=59.7

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC-CchHHHHHHHHHHhCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG-RWDDANEVRLLMKSNN  563 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  563 (579)
                      +...|..++..+...|++++|+..|+++++.+|+++.++..++.+|...| ++++|.+.+++..+..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            46688888999999999999999999999999999999999999999999 7999999999887643

...

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.19  E-value=2.7e-05  Score=72.42  Aligned_cols=120  Identities=18%  Similarity=0.191  Sum_probs=69.1

Q ss_pred             HHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCH
Q 036340           96 AMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRV  175 (579)
Q Consensus        96 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  175 (579)
                      .|+..+...++++.|+.+|+++.+.++.....+++.+...++-.+|++++.+.++   ..|.+......-+..+.+.+++
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~---~~p~d~~LL~~Qa~fLl~k~~~  250 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALK---ENPQDSELLNLQAEFLLSKKKY  250 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCCH
Confidence            3444444556666666666666655555555566666556666666666666655   3444455555555556666666


Q ss_pred             HHHHHHHccccccCCCCCCCccCCc-chHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          176 EEARKLFDKIPVNCDRGEGNVRFKR-NIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       176 ~~A~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      +.|.++.+++.          ...| +..+|..|+.+|...|+++.|+..++.+
T Consensus       251 ~lAL~iAk~av----------~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  251 ELALEIAKKAV----------ELSPSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             HHHHHHHHHHH----------HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            66666666655          2233 3446666666666666666666665555

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.18  E-value=5.6e-06  Score=71.14  Aligned_cols=94  Identities=17%  Similarity=0.229  Sum_probs=44.7

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQ  519 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~  519 (579)
                      +.++|.+|+..|.+++   .+.| |+..|..-+.+|.+.|.++.|++-++.. .+.| -..+|..|..+|...|++++|+
T Consensus        93 ~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHH
Confidence            3445555555555444   2333 3333444444555555555555444443 3333 2335555555555555555555


Q ss_pred             HHHHHHhhcCCCCCCCchhh
Q 036340          520 VAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       520 ~~~~~~~~~~p~~~~~~~~l  539 (579)
                      +.|+++++++|++......|
T Consensus       170 ~aykKaLeldP~Ne~~K~nL  189 (304)
T KOG0553|consen  170 EAYKKALELDPDNESYKSNL  189 (304)
T ss_pred             HHHHhhhccCCCcHHHHHHH
Confidence            55555555555554433333

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.17  E-value=8.8e-06  Score=60.36  Aligned_cols=94  Identities=18%  Similarity=0.276  Sum_probs=71.6

Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG  547 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  547 (579)
                      +..++..+...|++++|...+++. ...| +...+..+...+...|++++|...++++.+..|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445666777778888888887776 3333 44566777777778888888888888888888888877888888888888


Q ss_pred             CchHHHHHHHHHHhCC
Q 036340          548 RWDDANEVRLLMKSNN  563 (579)
Q Consensus       548 ~~~~A~~~~~~~~~~~  563 (579)
                      ++++|...+++..+..
T Consensus        83 ~~~~a~~~~~~~~~~~   98 (100)
T cd00189          83 KYEEALEAYEKALELD   98 (100)
T ss_pred             hHHHHHHHHHHHHccC
Confidence            8888888888776543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.15  E-value=0.0053  Score=55.23  Aligned_cols=273  Identities=16%  Similarity=0.162  Sum_probs=180.5

Q ss_pred             hcCCHHHHHHHHccCC---CCChhhHHHHHH--HHHhCCCchHHHHHHHHHHHcCCCCChh--hHHHHHHhccCCCchhh
Q 036340          276 QIGNLELALDFFKRMP---QKNLVSWNSMIA--GCETNKDYEGAIKLFIQMQVEGEKPDRH--TFSSILSMSSGIVDLHL  348 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~---~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~  348 (579)
                      -.|+-..|.+.-.+..   ..|....-.|+.  +-.-.|+++.|.+-|+-|...   |...  -+..+.-...+.|+.+.
T Consensus        96 gAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          96 GAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             ccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            3466666666655433   244444444444  334568888888888888752   2211  12223333457788888


Q ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCCeee--HHHHHHHHH---hcCChHHHHHHH
Q 036340          349 GMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK----LLKNVVS--WNAMIGGCA---SHGFATEALELF  419 (579)
Q Consensus       349 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~--~~~l~~~~~---~~~~~~~A~~~~  419 (579)
                      |.++-+.....-+.-.......+...+..|+++.|+++.+.-.    +.+++.-  --.|+.+-.   -.-+...|...-
T Consensus       173 Ar~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         173 ARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            8888777666666667788889999999999999999998653    3344322  122222211   133566677766


Q ss_pred             HHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC----C
Q 036340          420 KSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM----P  494 (579)
Q Consensus       420 ~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~  494 (579)
                      .+..  .+.|+.. .-..-..++++.|+..++-.+++.+-+.   .|.+.+...+  .+.+.|+.  +..-+++.    .
T Consensus       253 ~~a~--KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY--~~ar~gdt--a~dRlkRa~~L~s  323 (531)
T COG3898         253 LEAN--KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLY--VRARSGDT--ALDRLKRAKKLES  323 (531)
T ss_pred             HHHh--hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHH--HHhcCCCc--HHHHHHHHHHHHh
Confidence            6665  4677766 4444556899999999999999988743   6666554332  33456654  33333333    3


Q ss_pred             CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc-CCchHHHHHHHHHHh
Q 036340          495 FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV-GRWDDANEVRLLMKS  561 (579)
Q Consensus       495 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  561 (579)
                      .+| +..+...+..+....|++..|..-.+.+....|... +|..|+.+-... |+-.++...+-+..+
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pres-~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPRES-AYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCchhh-HHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            455 556777778888899999999999999999999864 577888877655 999999888887543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.14  E-value=1.9e-06  Score=58.18  Aligned_cols=59  Identities=24%  Similarity=0.254  Sum_probs=46.6

Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++..+...|++++|+..|+++++..|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34567778888888888888888888888888888888888888888888888876544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.14  E-value=7.9e-07  Score=63.68  Aligned_cols=81  Identities=17%  Similarity=0.233  Sum_probs=38.6

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCH-HHHHHHHHHHhhcCCHHHHHHHH
Q 036340          444 AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDK-AVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      .|+++.|+.+++++.......|+...+..++.++.+.|++++|..++++.+..|.. .....++.++.+.|++++|+.++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            45666666666666554221112333444555555666666665555553222222 23333344555555555555555


Q ss_pred             HH
Q 036340          523 EA  524 (579)
Q Consensus       523 ~~  524 (579)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            54

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.11  E-value=2.8e-05  Score=60.36  Aligned_cols=103  Identities=16%  Similarity=0.136  Sum_probs=68.0

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD----KAVWGALL  506 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~  506 (579)
                      ++..++..+...|++++|.+.++.++...+-.+ ....+..++.++.+.|++++|...++.+ ...|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445555666677777777777777765421111 1234556777777777777777777765 22222    44566777


Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      .++...|+.++|...++++++..|+++.+
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhH
Confidence            77788888888888888888888887553

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.07  E-value=0.017  Score=57.98  Aligned_cols=179  Identities=15%  Similarity=0.148  Sum_probs=82.4

Q ss_pred             HhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHH
Q 036340          133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCY  212 (579)
Q Consensus       133 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  212 (579)
                      .+.|+.++|..+++....   ..+.|..+...+-.+|...|+.++|..+|+.+.          +..|+......+..+|
T Consensus        54 ~r~gk~~ea~~~Le~~~~---~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~----------~~~P~eell~~lFmay  120 (932)
T KOG2053|consen   54 FRLGKGDEALKLLEALYG---LKGTDDLTLQFLQNVYRDLGKLDEAVHLYERAN----------QKYPSEELLYHLFMAY  120 (932)
T ss_pred             HHhcCchhHHHHHhhhcc---CCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHH----------hhCCcHHHHHHHHHHH
Confidence            355555555555554433   222244555555555666666666666666654          2244444555555555


Q ss_pred             HhcCCHHH----HHHHHHhcCCCChhHHHHHHHHHHhc-CCh---------HHHHHHhhcCC-CC-Ch---hhHHHHHHH
Q 036340          213 AKAGDVVS----AREIFEQMLERDTFSWNTMISGYIHV-LDM---------EEASNLFVKMP-HP-DT---LTWNAMVSG  273 (579)
Q Consensus       213 ~~~~~~~~----A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~---------~~a~~~~~~~~-~~-~~---~~~~~l~~~  273 (579)
                      .+.+++.+    |+++++...+ ++..+-.+++...+. ...         .-|...++.+. .+ ..   .-...-...
T Consensus       121 vR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~i  199 (932)
T KOG2053|consen  121 VREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLLI  199 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHHH
Confidence            55554432    3333332222 233333333333221 111         11222333332 11 00   001111233


Q ss_pred             HHhcCCHHHHHHHHccC-----CCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcC
Q 036340          274 YAQIGNLELALDFFKRM-----PQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEG  325 (579)
Q Consensus       274 ~~~~g~~~~A~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  325 (579)
                      +...|++++|.+++..-     ...+...-+.-+..+...++|.+..++..++...|
T Consensus       200 L~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  200 LELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            44566777777776321     11233333444556666677777777777766655

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.06  E-value=6.4e-06  Score=70.81  Aligned_cols=90  Identities=17%  Similarity=0.206  Sum_probs=81.4

Q ss_pred             HhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHH
Q 036340          476 IVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDAN  553 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  553 (579)
                      -+.+.+++++|+..|.++ .+.| |.+.|..-..+|.+.|.++.|++-.+.++.++|....+|..|+.+|...|++++|.
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A~  169 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEAI  169 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHHH
Confidence            456789999999999887 6666 78888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCC
Q 036340          554 EVRLLMKSNNIK  565 (579)
Q Consensus       554 ~~~~~~~~~~~~  565 (579)
                      +.|++..+..+.
T Consensus       170 ~aykKaLeldP~  181 (304)
T KOG0553|consen  170 EAYKKALELDPD  181 (304)
T ss_pred             HHHHhhhccCCC
Confidence            999997766544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.04  E-value=9.7e-06  Score=75.84  Aligned_cols=103  Identities=14%  Similarity=0.112  Sum_probs=86.5

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      -...+...|+++.|+..|++++..   .| +...+..++.++...|++++|+..++++ ...| +...|..++.++...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            345677889999999999999853   44 5678888999999999999999999988 4455 6778888899999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      ++++|+..|+++++++|+++.+...+..+
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            99999999999999999998766555444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.00  E-value=0.00034  Score=55.67  Aligned_cols=129  Identities=16%  Similarity=0.149  Sum_probs=65.8

Q ss_pred             CCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC---CHHHHH
Q 036340          428 LPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP---DKAVWG  503 (579)
Q Consensus       428 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~~~~~~  503 (579)
                      .|+...-..|..++...|++.+|...|++...- -+-.|......++.+....+++.+|...++++ ...|   .+.+..
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            344444444555555556666666555555431 22234455555555555556666655555554 1111   222333


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          504 ALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       504 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      .+.+.+...|.+++|+..|+.++...|+ +......+..+.++|+.++|..-+..
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            4445555566666666666666665555 33344445555566655555444433

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.98  E-value=1.3e-05  Score=57.41  Aligned_cols=80  Identities=14%  Similarity=0.272  Sum_probs=40.6

Q ss_pred             cCChHHHHHHHHHhHhCCCC-CChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHH
Q 036340          409 HGFATEALELFKSMRSFKVL-PTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDA  486 (579)
Q Consensus       409 ~~~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A  486 (579)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .   ...| +......++.++.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            35566666666666643221 1223344455566666666666666655 1   1122 223334446666666666666


Q ss_pred             HHHHHh
Q 036340          487 MDLIKG  492 (579)
Q Consensus       487 ~~~~~~  492 (579)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666553

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.98  E-value=1.5e-05  Score=45.78  Aligned_cols=33  Identities=39%  Similarity=0.597  Sum_probs=28.8

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPT  430 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  430 (579)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888887

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=0.00012  Score=65.92  Aligned_cols=152  Identities=11%  Similarity=0.048  Sum_probs=86.5

Q ss_pred             HHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH--HhcccCcHHHHHHHHHHhHHhhCCCCCcch-------------
Q 036340          405 GCASHGFATEALELFKSMRSFKVLPTYITFISVLS--ACAHAGLVEEGRQHFKSMVNEYGIEPRIEH-------------  469 (579)
Q Consensus       405 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-------------  469 (579)
                      ++...|++++|..+-....+.  .++. .+..+++  ++...++.+.+...|++.+   ...|+...             
T Consensus       178 cl~~~~~~~~a~~ea~~ilkl--d~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKL--DATN-AEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhc--ccch-hHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHHH
Confidence            344566666666666555532  2221 2222222  3445566666766666655   33443211             


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC-CC-----CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM-PF-----EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~-~~-----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +..-+.-..+.|++.+|.+.+.+. .+     +|+...|.....+..+.|+.++|+.-.+.+++++|....++..-+.++
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~  331 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCH  331 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHH
Confidence            111122344667777777776665 22     334445555555566677777777777777777777666677777777


Q ss_pred             hhcCCchHHHHHHHHHHhC
Q 036340          544 ADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~  562 (579)
                      ...++|++|.+.+++..+.
T Consensus       332 l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  332 LALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            7777777777777665443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.97  E-value=1.4e-05  Score=45.83  Aligned_cols=35  Identities=34%  Similarity=0.540  Sum_probs=32.5

Q ss_pred             hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCCh
Q 036340          296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDR  330 (579)
Q Consensus       296 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  330 (579)
                      .+|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.95  E-value=1.7e-05  Score=45.13  Aligned_cols=33  Identities=30%  Similarity=0.664  Sum_probs=31.2

Q ss_pred             hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCC
Q 036340          296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKP  328 (579)
Q Consensus       296 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  328 (579)
                      .+|+.++.+|.+.|+++.|..+|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            589999999999999999999999999999887

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.94  E-value=3.4e-05  Score=64.24  Aligned_cols=94  Identities=12%  Similarity=0.081  Sum_probs=52.8

Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC-CCCC---C-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM-PFEP---D-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      +..++..+...|++++|...+++. ...|   + ...+..++..+...|++++|+..++++++..|.++..+..++.++.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            444444555555555555555544 1111   1 2355555566666666666666666666666666666666666666


Q ss_pred             hcCC--------------chHHHHHHHHHHhCC
Q 036340          545 DVGR--------------WDDANEVRLLMKSNN  563 (579)
Q Consensus       545 ~~g~--------------~~~A~~~~~~~~~~~  563 (579)
                      ..|+              +++|.+++++..+.+
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            6555              455666666655444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.92  E-value=9.6e-05  Score=58.04  Aligned_cols=99  Identities=13%  Similarity=0.062  Sum_probs=62.8

Q ss_pred             CCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccC
Q 036340          119 GRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRF  198 (579)
Q Consensus       119 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  198 (579)
                      +.+-.....+...+...|++++|..+|+.+..   -.|.+...|..|+-++...|++++|+..|..+.        ... 
T Consensus        32 ~~~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~--------~L~-   99 (157)
T PRK15363         32 TQPLNTLYRYAMQLMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAA--------QIK-   99 (157)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHH--------hcC-
Confidence            33444455566666667777777777776665   445556666667777777777777777777665        222 


Q ss_pred             CcchHHHHHHHHHHHhcCCHHHHHHHHHhcC
Q 036340          199 KRNIVSWNSMIMCYAKAGDVVSAREIFEQML  229 (579)
Q Consensus       199 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  229 (579)
                      +.|+..+..+..++...|+.+.|.+.|+..+
T Consensus       100 ~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai  130 (157)
T PRK15363        100 IDAPQAPWAAAECYLACDNVCYAIKALKAVV  130 (157)
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3456666666777777777777776666553

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.92  E-value=2.3e-05  Score=54.35  Aligned_cols=59  Identities=14%  Similarity=0.133  Sum_probs=51.9

Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      ..+.+.+++++|+.++++++..+|+++..+..++.++...|++++|.+.+++..+.+..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~   61 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPD   61 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence            45778899999999999999999999999999999999999999999999998876653

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.91  E-value=2.2e-05  Score=52.95  Aligned_cols=61  Identities=16%  Similarity=0.285  Sum_probs=49.0

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      ++..+...|++++|+..|+++ ...| +...+..+..++...|++++|+..|+++++..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456778888888998888887 4445 566888888889999999999999999999999874

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.90  E-value=2.1e-05  Score=44.69  Aligned_cols=33  Identities=36%  Similarity=0.634  Sum_probs=26.0

Q ss_pred             eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC
Q 036340          397 VSWNAMIGGCASHGFATEALELFKSMRSFKVLP  429 (579)
Q Consensus       397 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  429 (579)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467788888888888888888888888777776

>PRK15331 chaperone protein SicA; Provisional

Probab=97.90  E-value=8e-05  Score=58.75  Aligned_cols=91  Identities=11%  Similarity=0.088  Sum_probs=73.5

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ...+.-+...|++++|..+|+-+ -..| ++.-|..|..++...+++++|+..|..+..+.++||.+....+.+|...|+
T Consensus        41 Y~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         41 YAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCC
Confidence            34445556788888888888876 2233 666777888888888999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHh
Q 036340          549 WDDANEVRLLMKS  561 (579)
Q Consensus       549 ~~~A~~~~~~~~~  561 (579)
                      .+.|...|+...+
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999988887765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.89  E-value=6.9e-05  Score=70.21  Aligned_cols=101  Identities=10%  Similarity=0.104  Sum_probs=80.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhh
Q 036340          401 AMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVG  478 (579)
Q Consensus       401 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  478 (579)
                      .-...+...|++++|++.|+++++.  .|+ ...|..+..+|...|++++|+..+++++.   +.| +...|..++.++.
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~   81 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACM   81 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHH
Confidence            3455677889999999999999964  554 44788888899999999999999999985   355 5678889999999


Q ss_pred             ccCChHHHHHHHHhC-CCCCCHHHHHHHH
Q 036340          479 RHGRLEDAMDLIKGM-PFEPDKAVWGALL  506 (579)
Q Consensus       479 ~~g~~~~A~~~~~~~-~~~~~~~~~~~l~  506 (579)
                      ..|++++|+..|++. ...|+.......+
T Consensus        82 ~lg~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         82 KLEEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HhCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            999999999999987 5566544443333

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.89  E-value=0.002  Score=58.31  Aligned_cols=279  Identities=14%  Similarity=0.063  Sum_probs=159.6

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc-chHHHH
Q 036340          128 LVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR-NIVSWN  206 (579)
Q Consensus       128 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~-~~~~~~  206 (579)
                      ....+.+..++..|+..+..+++   ..|.+...|..-+..+...|++++|.--.+.-.          .+.| ....+.
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~---~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~----------r~kd~~~k~~~  121 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAID---MCPDNASYYSNRAATLMMLGRFEEALGDARQSV----------RLKDGFSKGQL  121 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHH---hCccchhhhchhHHHHHHHHhHhhcccchhhhe----------ecCCCcccccc
Confidence            34456667778888888888887   455566677777777777777777765554433          1122 122344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCC-----CCChhhHHHH-HHHHHhcCCH
Q 036340          207 SMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMP-----HPDTLTWNAM-VSGYAQIGNL  280 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~l-~~~~~~~g~~  280 (579)
                      ...+++...++..+|.+.++     +...+           ....++..++...     +|.-.++..+ ..++...|+.
T Consensus       122 r~~~c~~a~~~~i~A~~~~~-----~~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~  185 (486)
T KOG0550|consen  122 REGQCHLALSDLIEAEEKLK-----SKQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDY  185 (486)
T ss_pred             chhhhhhhhHHHHHHHHHhh-----hhhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccc
Confidence            44555556666666665555     11111           1112222222222     2333444433 3566677888


Q ss_pred             HHHHHHHccCCCCChh-hHHHHHH--HHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHh
Q 036340          281 ELALDFFKRMPQKNLV-SWNSMIA--GCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT  357 (579)
Q Consensus       281 ~~A~~~~~~~~~~~~~-~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  357 (579)
                      ++|.+.--.+.+.|.. .+...++  ++--.++.+.+...|++.+..  .|+...-...-..+          +.+    
T Consensus       186 ~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~----------k~l----  249 (486)
T KOG0550|consen  186 DEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMP----------KKL----  249 (486)
T ss_pred             hhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhH----------HHH----
Confidence            8888776666654433 2222232  344567788888888887654  34433322211100          000    


Q ss_pred             hcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-----CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh
Q 036340          358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-----NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY  431 (579)
Q Consensus       358 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  431 (579)
                             ..+..-.+-..+.|++..|.+.|.+.. +.|     +...|.....+..+.|+..+|+.--....+  +.|..
T Consensus       250 -------e~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~sy  320 (486)
T KOG0550|consen  250 -------EVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSY  320 (486)
T ss_pred             -------HHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHH
Confidence                   011222344667788899988888764 333     333465666667788888888888777763  44443


Q ss_pred             h-hHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          432 I-TFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       432 ~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      . .|..-..++...++|++|.+-+++..+.
T Consensus       321 ikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  321 IKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            3 4444455777788899999988888754

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.89  E-value=0.02  Score=52.72  Aligned_cols=84  Identities=12%  Similarity=0.202  Sum_probs=62.6

Q ss_pred             HHHhhCC--CCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCch---hhHHHHHHHHHhcCChhhHHHHHccCCCC--Cc
Q 036340           50 YLFDIMP--ERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNV---VSWNAMISGFLQNGDVANAIEFFDRMPGR--DS  122 (579)
Q Consensus        50 ~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~  122 (579)
                      .+=+++.  +.|+.+|-.|+.-+...|.+++..++++++..|-+   .+|...+..=...+++.....+|.+....  +.
T Consensus        30 rLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~l  109 (660)
T COG5107          30 RLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNL  109 (660)
T ss_pred             HHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccH
Confidence            4444554  45667899999999999999999999999987654   46777777777788999999999887653  45


Q ss_pred             chHHHHHHHHH
Q 036340          123 ASLSALVSGLI  133 (579)
Q Consensus       123 ~~~~~l~~~~~  133 (579)
                      ..|...+.-..
T Consensus       110 dLW~lYl~YIR  120 (660)
T COG5107         110 DLWMLYLEYIR  120 (660)
T ss_pred             hHHHHHHHHHH
Confidence            55555554333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.88  E-value=0.0002  Score=59.63  Aligned_cols=127  Identities=13%  Similarity=0.151  Sum_probs=81.5

Q ss_pred             eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC--hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHH
Q 036340          397 VSWNAMIGGCASHGFATEALELFKSMRSFKVLPT--YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASL  473 (579)
Q Consensus       397 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l  473 (579)
                      ..+..+...+...|++++|+..|++..+....+.  ...+..+...+...|++++|...+++.+..   .| +...+..+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l  112 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHH
Confidence            3466677777778888888888888775433322  246667777778888888888888877643   34 34555566


Q ss_pred             HHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC
Q 036340          474 VDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG  547 (579)
Q Consensus       474 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  547 (579)
                      +.++...|+...+..-+...                  ...+++|...++++...+|++   +..++..+...|
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~  165 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcC
Confidence            66676666655544322211                  123677888888888888887   334444444444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.87  E-value=4.4e-05  Score=63.35  Aligned_cols=92  Identities=8%  Similarity=-0.131  Sum_probs=70.2

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCC----CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP----DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      ...+..++..+...|++++|+..+++. ...|    ...++..+..++...|++++|+..+++++.+.|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            445566777777788888888888776 2222    23478888888999999999999999999999998888888888


Q ss_pred             hhh-------hcCCchHHHHHHHH
Q 036340          542 MYA-------DVGRWDDANEVRLL  558 (579)
Q Consensus       542 ~~~-------~~g~~~~A~~~~~~  558 (579)
                      ++.       ..|++++|...+++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHH
Confidence            888       77787755555443

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.86  E-value=5.7e-06  Score=56.49  Aligned_cols=55  Identities=20%  Similarity=0.294  Sum_probs=42.8

Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .+.|++++|+..|+++++.+|+++.++..++.+|.+.|++++|.++++++.....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~   56 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDP   56 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGT
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            3567888888888888888888888888888888888888888888887765443

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.85  E-value=0.00023  Score=69.70  Aligned_cols=140  Identities=11%  Similarity=0.049  Sum_probs=91.9

Q ss_pred             CCCeeeHHHHHHHHHh--c---CChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhccc--------CcHHHHHHHHHHhH
Q 036340          393 LKNVVSWNAMIGGCAS--H---GFATEALELFKSMRSFKVLPTYI-TFISVLSACAHA--------GLVEEGRQHFKSMV  458 (579)
Q Consensus       393 ~~~~~~~~~l~~~~~~--~---~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~--------~~~~~a~~~~~~~~  458 (579)
                      +.+...|...+++...  .   ++...|..+|++..+  ..|+.. .+..+..++...        .+...+.+..++..
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            4566677777766433  2   236688899998885  467654 454443333221        12334444444332


Q ss_pred             HhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          459 NEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       459 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      .......++..+..++......|++++|...++++ ...|+...|..++..+...|+.++|...|+++..++|.+++
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            21112234566777766677788888888888887 56677778888888888889999999999999888888775

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.81  E-value=0.024  Score=51.28  Aligned_cols=271  Identities=13%  Similarity=0.095  Sum_probs=136.2

Q ss_pred             cCCHHHHHHHhhcCC---CCchhhHHHHHHH--HHhcCChhhHHHHHccCCCC-Ccc--hHHHHHHHHHhCCCHHHHHHH
Q 036340           73 TGEMEEALRLFNSMP---ARNVVSWNAMISG--FLQNGDVANAIEFFDRMPGR-DSA--SLSALVSGLIQNGELDEAARV  144 (579)
Q Consensus        73 ~g~~~~A~~~~~~~~---~~~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~-~~~--~~~~l~~~~~~~g~~~~A~~~  144 (579)
                      .||-..|.++-.+..   ..|......|+.+  -.-.|+++.|.+-|+.|... ...  -...|.-.-.+.|..+.|...
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~y  176 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHY  176 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHH
Confidence            355566655544432   3344444444432  23456666666666666542 111  122222233356666666666


Q ss_pred             HHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHH--HHHHHH--H-HhcCCHH
Q 036340          145 LVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSW--NSMIMC--Y-AKAGDVV  219 (579)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~l~~~--~-~~~~~~~  219 (579)
                      -+..-.   ..|.-..++...+...+..|+|+.|+++++.-.+.       .-+.++..--  ..|+.+  . .-..+..
T Consensus       177 Ae~Aa~---~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~-------~vie~~~aeR~rAvLLtAkA~s~ldadp~  246 (531)
T COG3898         177 AERAAE---KAPQLPWAARATLEARCAAGDWDGALKLVDAQRAA-------KVIEKDVAERSRAVLLTAKAMSLLDADPA  246 (531)
T ss_pred             HHHHHh---hccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHH-------HhhchhhHHHHHHHHHHHHHHHHhcCChH
Confidence            666554   33444455666666666777777777666654321       1223332211  111111  1 1123344


Q ss_pred             HHHHHHHhcCC--CChh-HHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHH----HHHHccCCC
Q 036340          220 SAREIFEQMLE--RDTF-SWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELA----LDFFKRMPQ  292 (579)
Q Consensus       220 ~A~~~~~~~~~--~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A----~~~~~~~~~  292 (579)
                      .|...-.+..+  +|.. .-......+.+.|+..++-.+++.+-+..++--..++..+.+.|+.-..    .+-+..|..
T Consensus       247 ~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~~ar~gdta~dRlkRa~~L~slk~  326 (531)
T COG3898         247 SARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYVRARSGDTALDRLKRAKKLESLKP  326 (531)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHHHhcCCCcHHHHHHHHHHHHhcCc
Confidence            55555444433  3322 2233345666777777777777766522222222233344555552211    122344555


Q ss_pred             CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhc-cCCCchhhHHHHHHH
Q 036340          293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMS-SGIVDLHLGMQIHQM  355 (579)
Q Consensus       293 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~  355 (579)
                      .+..+...+..+-...|++..|..--+....  ..|....|..+...- ...|+-.++.+++..
T Consensus       327 nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAq  388 (531)
T COG3898         327 NNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQ  388 (531)
T ss_pred             cchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHH
Confidence            6666666667777777777776665555443  356666666665543 355777777777766

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.81  E-value=0.041  Score=53.70  Aligned_cols=216  Identities=13%  Similarity=0.129  Sum_probs=133.0

Q ss_pred             CHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC-CCcchHHHH----------HHHHHhCCCHHHHHH
Q 036340           75 EMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG-RDSASLSAL----------VSGLIQNGELDEAAR  143 (579)
Q Consensus        75 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~l----------~~~~~~~g~~~~A~~  143 (579)
                      ..++|.+..+.-  |.+..|..|.......-.++-|+..|-+... +.......+          +..-.--|++++|++
T Consensus       678 gledA~qfiEdn--PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek  755 (1189)
T KOG2041|consen  678 GLEDAIQFIEDN--PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEK  755 (1189)
T ss_pred             chHHHHHHHhcC--CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhh
Confidence            355666665544  7777888888777777777778777766543 222111111          112223578888888


Q ss_pred             HHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHH
Q 036340          144 VLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSARE  223 (579)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  223 (579)
                      ++-.+-.+           ...+..+.+.|||-...++++.-..       ...-..-...++.+...+.....++.|.+
T Consensus       756 ~yld~drr-----------DLAielr~klgDwfrV~qL~r~g~~-------d~dD~~~e~A~r~ig~~fa~~~~We~A~~  817 (1189)
T KOG2041|consen  756 LYLDADRR-----------DLAIELRKKLGDWFRVYQLIRNGGS-------DDDDEGKEDAFRNIGETFAEMMEWEEAAK  817 (1189)
T ss_pred             hhhccchh-----------hhhHHHHHhhhhHHHHHHHHHccCC-------CcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88776543           1345666777888888887766421       11111224567888888888888888888


Q ss_pred             HHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHH
Q 036340          224 IFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIA  303 (579)
Q Consensus       224 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~  303 (579)
                      .|..--..     ...+.++.+..++++-..+.+.+ +.+....-.+.+++.+.|.-++|.+.|-+...|.     .-+.
T Consensus       818 yY~~~~~~-----e~~~ecly~le~f~~LE~la~~L-pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-----aAv~  886 (1189)
T KOG2041|consen  818 YYSYCGDT-----ENQIECLYRLELFGELEVLARTL-PEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-----AAVH  886 (1189)
T ss_pred             HHHhccch-----HhHHHHHHHHHhhhhHHHHHHhc-CcccchHHHHHHHHHhhchHHHHHHHHHhccCcH-----HHHH
Confidence            87764321     23455566655555555544444 4555666677788888888888877776655442     3345


Q ss_pred             HHHhCCCchHHHHHHHHH
Q 036340          304 GCETNKDYEGAIKLFIQM  321 (579)
Q Consensus       304 ~~~~~~~~~~a~~~~~~~  321 (579)
                      .|...++|.+|.++-++.
T Consensus       887 tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  887 TCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            566677777777765543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.79  E-value=0.03  Score=51.77  Aligned_cols=70  Identities=19%  Similarity=0.226  Sum_probs=53.8

Q ss_pred             HHHhCCCCC----CHHHHHHHHHH--HhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          489 LIKGMPFEP----DKAVWGALLGA--CRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       489 ~~~~~~~~~----~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ++++.+..|    +...-|.+..+  +..+|++.++.-.-.-+.+..| ++.++..+|.++....+|++|.+++..+
T Consensus       446 fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  446 FITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            344444444    33455556555  5688999999888888889999 6888999999999999999999999875

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.79  E-value=0.00017  Score=53.27  Aligned_cols=91  Identities=15%  Similarity=0.160  Sum_probs=45.1

Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCH
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNV  515 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~  515 (579)
                      ...+...|++++|...++.+.+.  .+.+...+..++.++...|++++|.+.++.. ...| +...+..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhH
Confidence            33444445555555555544421  1112233444455555555555555555443 1122 334555555566666666


Q ss_pred             HHHHHHHHHHhhcCC
Q 036340          516 ELAQVAAEALMKVEP  530 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p  530 (579)
                      +.|...++++.+..|
T Consensus        85 ~~a~~~~~~~~~~~~   99 (100)
T cd00189          85 EEALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHHccCC
Confidence            666666666665555

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.77  E-value=1.4e-05  Score=71.45  Aligned_cols=280  Identities=13%  Similarity=0.039  Sum_probs=129.6

Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCC-CCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHH
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCD-GGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSM  208 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  208 (579)
                      .-+++.|+....+.+|+.+++.+- ....-...|..|.++|.-.+++++|+++...=+...+....+.|   ...+...|
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklG---EAKssgNL  101 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLG---EAKSSGNL  101 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhc---cccccccc
Confidence            457888999999999998887521 11112335777888888889999998875432110000000111   12223345


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCC---------CChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCC
Q 036340          209 IMCYAKAGDVVSAREIFEQMLE---------RDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGN  279 (579)
Q Consensus       209 ~~~~~~~~~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~  279 (579)
                      .+.+--.|.+++|.-...+-+.         ....++..+...|...|+.-....-      .+...++.=+.     ..
T Consensus       102 GNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~p------ee~g~f~~ev~-----~a  170 (639)
T KOG1130|consen  102 GNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAP------EEKGAFNAEVT-----SA  170 (639)
T ss_pred             cchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCCh------hhcccccHHHH-----HH
Confidence            5556666777777655443322         1234555666666655431100000      00000000000     00


Q ss_pred             HHHHHHHHccCC-------C--CChhhHHHHHHHHHhCCCchHHHHHHHH----HHHcCCC-CChhhHHHHHHhccCCCc
Q 036340          280 LELALDFFKRMP-------Q--KNLVSWNSMIAGCETNKDYEGAIKLFIQ----MQVEGEK-PDRHTFSSILSMSSGIVD  345 (579)
Q Consensus       280 ~~~A~~~~~~~~-------~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~~~-~~~~~~~~l~~~~~~~~~  345 (579)
                      ++.|.++|.+-.       .  .--..|..|...|.-.|+++.|+..-+.    ..+-|.+ .....+..+..++.-.|+
T Consensus       171 l~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~  250 (639)
T KOG1130|consen  171 LENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGN  250 (639)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcc
Confidence            111111111110       0  0111333344444444555554433222    1111211 112233344444444555


Q ss_pred             hhhHHHHHHH-H----hhc-CCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--------CCCCeeeHHHHHHHHHhcCC
Q 036340          346 LHLGMQIHQM-V----TKT-VIPDVPINNALITMYARCGAIVEARIIFEEMK--------LLKNVVSWNAMIGGCASHGF  411 (579)
Q Consensus       346 ~~~a~~~~~~-~----~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~  411 (579)
                      ++.|.+.++. .    +-+ -........+|.+.|.-..++++|+.++..-.        ......++-+|..+|...|.
T Consensus       251 fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~  330 (639)
T KOG1130|consen  251 FELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGE  330 (639)
T ss_pred             cHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhh
Confidence            5555554443 1    111 11233445566666666667777776665421        12234456667777777777


Q ss_pred             hHHHHHHHHHhH
Q 036340          412 ATEALELFKSMR  423 (579)
Q Consensus       412 ~~~A~~~~~~~~  423 (579)
                      .++|+.+.+.-.
T Consensus       331 h~kAl~fae~hl  342 (639)
T KOG1130|consen  331 HRKALYFAELHL  342 (639)
T ss_pred             HHHHHHHHHHHH
Confidence            777776665544

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.76  E-value=0.0015  Score=59.33  Aligned_cols=154  Identities=20%  Similarity=0.303  Sum_probs=90.1

Q ss_pred             HHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhC-CCHHHHHHHHHHhccCCC--C-CCCchhhHHHHHHHHhhCC
Q 036340           98 ISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQN-GELDEAARVLVKCGSRCD--G-GEDLVRAYNTLIVGYGQRG  173 (579)
Q Consensus        98 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~--~-~~~~~~~~~~l~~~~~~~g  173 (579)
                      +..|...|++..|-..+           ..+...|... |++++|++.|+++.....  + .......+..++..+.+.|
T Consensus       101 ~~~y~~~G~~~~aA~~~-----------~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~  169 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCL-----------KELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLG  169 (282)
T ss_dssp             HHHHHHCT-HHHHHHHH-----------HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCcHHHHHHHH-----------HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhC
Confidence            45666666666665554           4467778787 899999999998765321  1 1112345778889999999


Q ss_pred             CHHHHHHHHccccccCCCCCCCccCCcchH-HHHHHHHHHHhcCCHHHHHHHHHhcCCCCh--------hHHHHHHHHHH
Q 036340          174 RVEEARKLFDKIPVNCDRGEGNVRFKRNIV-SWNSMIMCYAKAGDVVSAREIFEQMLERDT--------FSWNTMISGYI  244 (579)
Q Consensus       174 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--------~~~~~l~~~~~  244 (579)
                      ++++|.++|+++...+..   ......+.. .+...+-++...||+..|...+++....++        .....++.++-
T Consensus       170 ~y~~A~~~~e~~~~~~l~---~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~  246 (282)
T PF14938_consen  170 RYEEAIEIYEEVAKKCLE---NNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE  246 (282)
T ss_dssp             -HHHHHHHHHHHHHTCCC---HCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhc---ccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH
Confidence            999999999988632210   111122332 234455577788999999999998865432        12333444443


Q ss_pred             h--cCChHHHHHHhhcCCCCChh
Q 036340          245 H--VLDMEEASNLFVKMPHPDTL  265 (579)
Q Consensus       245 ~--~~~~~~a~~~~~~~~~~~~~  265 (579)
                      .  ...+..++.-|+.+.+.|..
T Consensus       247 ~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  247 EGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             TT-CCCHHHHCHHHTTSS---HH
T ss_pred             hCCHHHHHHHHHHHcccCccHHH
Confidence            2  23455555556555555543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.71  E-value=0.00011  Score=65.98  Aligned_cols=128  Identities=14%  Similarity=0.055  Sum_probs=85.7

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHH---hHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-------CC-CCCHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKS---MVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-------PF-EPDKA  500 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~---~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~-~~~~~  500 (579)
                      .|..|...|.-.|+++.|+...+.   +.+++|-+. ....+..++.+++-.|+++.|.+.++..       +. .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            566677777778888888776543   223344333 3456677888888888888888887754       21 12344


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhc----C--CCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKV----E--PENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +...+...|.-..+++.|+.+..+=+.+    +  .....+++.|+.++...|..++|+.+.+.-+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            5566777777777888888877665432    1  2234568888888888888888887766543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.71  E-value=0.0055  Score=49.08  Aligned_cols=134  Identities=10%  Similarity=0.073  Sum_probs=97.9

Q ss_pred             CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh
Q 036340          392 LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF  470 (579)
Q Consensus       392 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  470 (579)
                      ..|++..-..|..++...|+..+|...|++... |+-. |......+.++....+++..|...++++.+-..-.-++...
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            456666667788888889999999999988876 5444 55577788888888899999999888887542222245667


Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      ..++..|...|++++|..-|+.. ..-|++..-......+.++|...++..-+..+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            77888888999999888888876 455666666556666777776666655544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.71  E-value=0.00068  Score=51.43  Aligned_cols=110  Identities=21%  Similarity=0.151  Sum_probs=71.6

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc---c
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR---N  201 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---~  201 (579)
                      ...+..++...|+.++|+.+|++....+...+....++..+...+...|++++|..+++.....         ++.   +
T Consensus         4 ~~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~---------~p~~~~~   74 (120)
T PF12688_consen    4 LYELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE---------FPDDELN   74 (120)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---------CCCcccc
Confidence            3456667778888888888888888763223333456777888888888888888888877621         111   2


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHH
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGY  243 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~  243 (579)
                      ......+..++...|+.++|++.+-..+.++...|..-|..|
T Consensus        75 ~~l~~f~Al~L~~~gr~~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   75 AALRVFLALALYNLGRPKEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            233333455677788888888877766555544444444443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.69  E-value=0.022  Score=54.69  Aligned_cols=180  Identities=15%  Similarity=0.156  Sum_probs=93.5

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhccC--CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhc
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMKL--LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACA  442 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  442 (579)
                      ..|..-+.--...|+.+...-+|+...+  ..-...|-..+.-....|+.+-|..++....+--.+-.+.+-..-.....
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e  377 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEE  377 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHH
Confidence            3444455555566677777666666541  11223344444444445766666666665544322222222222222334


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHH---HHHHhC-CCCCCHHHHH----HHHHH-Hhhc
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAM---DLIKGM-PFEPDKAVWG----ALLGA-CRVH  512 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~~~~~~~~----~l~~~-~~~~  512 (579)
                      ..|+++.|..+++.+..+  . |+ ...-..-+....+.|..+.+.   .++... +...+.....    ...+. +.-.
T Consensus       378 ~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~  454 (577)
T KOG1258|consen  378 SNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIR  454 (577)
T ss_pred             hhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHh
Confidence            566777777777777654  2 43 233333344555667766666   333332 1122222222    22222 3345


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG  547 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  547 (579)
                      ++.+.|..++.++.+..|++...|..+......++
T Consensus       455 ~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  455 EDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             cCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            67777777777777777777766666666655554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.68  E-value=0.00065  Score=56.31  Aligned_cols=94  Identities=14%  Similarity=-0.036  Sum_probs=64.8

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcch
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI  202 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  202 (579)
                      ..+..++..+...|++++|+..|++++...+.......++..++.++...|++++|+..++.....         .+...
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~---------~~~~~  106 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER---------NPFLP  106 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------CcCcH
Confidence            456667777788899999999999887643222223457888999999999999999999988721         12234


Q ss_pred             HHHHHHHHHHH-------hcCCHHHHHHHH
Q 036340          203 VSWNSMIMCYA-------KAGDVVSAREIF  225 (579)
Q Consensus       203 ~~~~~l~~~~~-------~~~~~~~A~~~~  225 (579)
                      .++..+..++.       ..|+++.|...+
T Consensus       107 ~~~~~la~i~~~~~~~~~~~g~~~~A~~~~  136 (168)
T CHL00033        107 QALNNMAVICHYRGEQAIEQGDSEIAEAWF  136 (168)
T ss_pred             HHHHHHHHHHHHhhHHHHHcccHHHHHHHH
Confidence            55666666666       666766444433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.66  E-value=0.0019  Score=56.81  Aligned_cols=79  Identities=14%  Similarity=0.042  Sum_probs=50.0

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHccCCCC--Ccc----hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHH
Q 036340           90 NVVSWNAMISGFLQNGDVANAIEFFDRMPGR--DSA----SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYN  163 (579)
Q Consensus        90 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  163 (579)
                      ++..+-.....+...|++++|.+.|+.+...  +..    ....++.++.+.+++++|...+++.++..|..+....++.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3333444555666677777777777776542  221    1234566777888888888888888887666665555555


Q ss_pred             HHHHH
Q 036340          164 TLIVG  168 (579)
Q Consensus       164 ~l~~~  168 (579)
                      .++.+
T Consensus       111 ~~g~~  115 (243)
T PRK10866        111 MRGLT  115 (243)
T ss_pred             HHHHh
Confidence            55544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.63  E-value=0.00074  Score=60.98  Aligned_cols=133  Identities=14%  Similarity=0.203  Sum_probs=97.0

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH-hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHH
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA-CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDI  476 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  476 (579)
                      +|..++....+.+..+.|..+|.+..+.+ ..+...|...+.. +...++.+.|..+|+..++.+  ..+...+...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            57778888888888999999999998532 2233455544443 333577777999999998764  4566778888888


Q ss_pred             hhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          477 VGRHGRLEDAMDLIKGM-PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      +.+.|+.+.|..+|++. ..-|.    ...|...+..-.+.|+.+....+.+++.+..|++.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            99999999999999987 22232    34888888888899999999999999998887754

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.61  E-value=5.9e-05  Score=51.54  Aligned_cols=64  Identities=22%  Similarity=0.265  Sum_probs=48.9

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC-CHHHHHHHHHHHhhcCC
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN-NVELAQVAAEALMKVEP  530 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~p  530 (579)
                      +..|..++..+...|++++|+..|++. ...| +...|..+..++...| ++++|+..++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            445667777777788888888777776 3344 5667888888888888 68899999999888887

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.61  E-value=0.0048  Score=54.26  Aligned_cols=173  Identities=13%  Similarity=0.067  Sum_probs=103.7

Q ss_pred             HHHHHhhhcCCHHHHHHHHHhcc-CCCCeee----HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh--hhHHHHHHHh
Q 036340          369 ALITMYARCGAIVEARIIFEEMK-LLKNVVS----WNAMIGGCASHGFATEALELFKSMRSFKVLPTY--ITFISVLSAC  441 (579)
Q Consensus       369 ~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~----~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~  441 (579)
                      ..+..+...|++++|.+.|+++. ..|+...    .-.++.++.+.+++++|...+++..+.  .|+.  ..+.....+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~--~P~~~~~~~a~Y~~g~  114 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVLYMRGL  114 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CcCCCchHHHHHHHHH
Confidence            34555566788888888888775 2333221    234566777888888888888888754  3332  2333333332


Q ss_pred             cc--c------------------CcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHH
Q 036340          442 AH--A------------------GLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAV  501 (579)
Q Consensus       442 ~~--~------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  501 (579)
                      +.  .                  .....|...|+.+++.+   |+.             .-..+|...+..+....-.. 
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~S-------------~ya~~A~~rl~~l~~~la~~-  177 (243)
T PRK10866        115 TNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PNS-------------QYTTDATKRLVFLKDRLAKY-  177 (243)
T ss_pred             hhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cCC-------------hhHHHHHHHHHHHHHHHHHH-
Confidence            21  1                  11234445555555432   322             22333333333221110011 


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC---CchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENST---PYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      -..+.+-|.+.|.+..|+.-++.+++..|+.+.   ++..++.+|...|..++|..+...+.
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            113456688899999999999999998887654   57788899999999999999887664

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.60  E-value=0.00065  Score=66.60  Aligned_cols=137  Identities=14%  Similarity=0.050  Sum_probs=97.9

Q ss_pred             CCCCChhhHHHHHHHhcc-----cCcHHHHHHHHHHhHHhhCCCCCc-chhHHHHHHhhcc--------CChHHHHHHHH
Q 036340          426 KVLPTYITFISVLSACAH-----AGLVEEGRQHFKSMVNEYGIEPRI-EHFASLVDIVGRH--------GRLEDAMDLIK  491 (579)
Q Consensus       426 ~~~p~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~--------g~~~~A~~~~~  491 (579)
                      +.+.+...|...+++...     .+....|..+|+++++   ..|+- ..+..++.++...        ++...+.+...
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            445566788888876432     2347799999999985   46753 4444444443321        12334444444


Q ss_pred             hC---C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          492 GM---P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       492 ~~---~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      +.   + ...++..+..+.......|++++|...+++++.++|+ ..+|..++.++...|+.++|.+.+++....+...
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~  486 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE  486 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence            43   1 2335677777777777789999999999999999995 6789999999999999999999999988776543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.58  E-value=0.097  Score=51.74  Aligned_cols=358  Identities=11%  Similarity=0.077  Sum_probs=185.3

Q ss_pred             HHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHH-----HHHHHHhcCCHHHHHHHHHhcCCCC---hhHHHH
Q 036340          167 VGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNS-----MIMCYAKAGDVVSAREIFEQMLERD---TFSWNT  238 (579)
Q Consensus       167 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~  238 (579)
                      .++.+.-++++-..+.+.++..+.......|++-+..-|..     +++-+...+.+..|.++-..+..|.   ...|..
T Consensus       397 k~~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~  476 (829)
T KOG2280|consen  397 KASLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLE  476 (829)
T ss_pred             ccccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHH
Confidence            33444555665555444443222222235677777666654     4556677888999999988887664   566777


Q ss_pred             HHHHHHhcCC---hHHHHHHhhcCCC--CChhhHHHHHHHHHhcCCHHHHHHHHccCCCC--------ChhhHHHHHHHH
Q 036340          239 MISGYIHVLD---MEEASNLFVKMPH--PDTLTWNAMVSGYAQIGNLELALDFFKRMPQK--------NLVSWNSMIAGC  305 (579)
Q Consensus       239 l~~~~~~~~~---~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~l~~~~  305 (579)
                      ....+.+..+   .+-+..+-+++..  -....|..+..-....|+.+.|..+++.=...        +...+..-+.-+
T Consensus       477 Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~ka  556 (829)
T KOG2280|consen  477 WARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKA  556 (829)
T ss_pred             HHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHH
Confidence            7777766532   2233333334333  34456777888888899999999998754321        222344445556


Q ss_pred             HhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHH
Q 036340          306 ETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGAIVEAR  384 (579)
Q Consensus       306 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  384 (579)
                      ...|+.+-...++-.+...-   +...|...+      .+...|..++.. .++...      ..+-..|....+....-
T Consensus       557 ies~d~~Li~~Vllhlk~~~---~~s~l~~~l------~~~p~a~~lY~~~~r~~~~------~~l~d~y~q~dn~~~~a  621 (829)
T KOG2280|consen  557 IESGDTDLIIQVLLHLKNKL---NRSSLFMTL------RNQPLALSLYRQFMRHQDR------ATLYDFYNQDDNHQALA  621 (829)
T ss_pred             HhcCCchhHHHHHHHHHHHH---HHHHHHHHH------HhchhhhHHHHHHHHhhch------hhhhhhhhcccchhhhh
Confidence            66777777666665554321   111111111      111222222222 111100      00111121112222111


Q ss_pred             HHHHhcc-----CCCCeeeHHHHHHHHHhcCC----------hHHHHHHHHHhHh-CCCCCChhhHHHHHHHhcccCcHH
Q 036340          385 IIFEEMK-----LLKNVVSWNAMIGGCASHGF----------ATEALELFKSMRS-FKVLPTYITFISVLSACAHAGLVE  448 (579)
Q Consensus       385 ~~~~~~~-----~~~~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~-~~~~p~~~~~~~l~~~~~~~~~~~  448 (579)
                      .+.-+-.     ..+-..........+.+...          ..+-+.+.+.+.. .|..-...+.+--+.-+...|+..
T Consensus       622 ~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k  701 (829)
T KOG2280|consen  622 SFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNK  701 (829)
T ss_pred             hhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchH
Confidence            1111110     11112222333333433322          1111222222221 122233334455555566677777


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhc
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKV  528 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  528 (579)
                      +|.++-.+..     -||...|..-+.+++..+++++-+++-+...   .+..|.-+..+|.+.|+.++|..++-+.-. 
T Consensus       702 ~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~-  772 (829)
T KOG2280|consen  702 RAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGG-  772 (829)
T ss_pred             HHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---CCCCchhHHHHHHhcccHHHHhhhhhccCC-
Confidence            7777755442     4677777777778888888887777766653   245566677777888888887766654321 


Q ss_pred             CCCCCCCchhhhhhhhhcCCchHHHHH
Q 036340          529 EPENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       529 ~p~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                             +...+.+|.+.|++.+|.+.
T Consensus       773 -------l~ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  773 -------LQEKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             -------hHHHHHHHHHhccHHHHHHH
Confidence                   11456777778887777655

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.55  E-value=0.00013  Score=40.34  Aligned_cols=29  Identities=38%  Similarity=0.606  Sum_probs=22.4

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCC
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFK  426 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  426 (579)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            67777778888888888888887777665

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.54  E-value=2.4e-05  Score=44.00  Aligned_cols=33  Identities=24%  Similarity=0.517  Sum_probs=30.9

Q ss_pred             HHHHhhcCCCCCCCchhhhhhhhhcCCchHHHH
Q 036340          522 AEALMKVEPENSTPYVLLYNMYADVGRWDDANE  554 (579)
Q Consensus       522 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  554 (579)
                      |+++++++|+++.+|..|+.+|...|++++|++
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            789999999999999999999999999999863

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.54  E-value=0.0058  Score=51.88  Aligned_cols=57  Identities=7%  Similarity=0.027  Sum_probs=26.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      ++..+.-.|.+.-.+..+.+.++...+.++.....|.+.-.+.|+.+.|..+|++..
T Consensus       183 ~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~ve  239 (366)
T KOG2796|consen  183 MANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVE  239 (366)
T ss_pred             HHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            333344444444455555555543222233344444444445555555555555443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.53  E-value=0.00013  Score=40.30  Aligned_cols=31  Identities=32%  Similarity=0.569  Sum_probs=26.1

Q ss_pred             hhHHHHHHHHHhCCCchHHHHHHHHHHHcCC
Q 036340          296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEGE  326 (579)
Q Consensus       296 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  326 (579)
                      ++|+.++.+|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3688889999999999999999998887764

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.53  E-value=0.0068  Score=55.78  Aligned_cols=167  Identities=15%  Similarity=0.044  Sum_probs=110.6

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCe------eeHHHHHHHHHh---cCChHHHHHHHHHhHhCCCCCChhh
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMKLLKNV------VSWNAMIGGCAS---HGFATEALELFKSMRSFKVLPTYIT  433 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~------~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~p~~~~  433 (579)
                      ++.+...++-+|....+++..+++.+.+...|+.      ..-....-++.+   .|+.++|++++..+....-.+++.+
T Consensus       140 s~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~  219 (374)
T PF13281_consen  140 SPDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDT  219 (374)
T ss_pred             ChhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHH
Confidence            3344456667788889999999999988744422      112234455666   7999999999999666666778888


Q ss_pred             HHHHHHHhc---------ccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH----HHHHH---Hh-C---
Q 036340          434 FISVLSACA---------HAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED----AMDLI---KG-M---  493 (579)
Q Consensus       434 ~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----A~~~~---~~-~---  493 (579)
                      |..+.+.|-         .....++|+..|.+.-   .+.|+...-..++..+...|...+    ..++-   .. .   
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~k  296 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRK  296 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhh
Confidence            888877652         2335778888887654   445655443444444555553222    22222   11 1   


Q ss_pred             ---CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          494 ---PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       494 ---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                         ....+-..+..++.++.-.|++++|.+.++++.++.|+.
T Consensus       297 g~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  297 GSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence               123455566778888889999999999999999998763

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.52  E-value=0.00034  Score=61.82  Aligned_cols=100  Identities=11%  Similarity=0.096  Sum_probs=52.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC----CHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP----DKAVWGALL  506 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~----~~~~~~~l~  506 (579)
                      .|......+.+.|++++|...|+.+++.+.-.+ ....+..++.+|...|++++|...|+.+ ...|    ....+..++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            344433333455666777666666665421111 1234555666666666666666666555 1111    233444444


Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      ..+...|+.++|...|+++++..|++
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            55555666666666666666666654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.52  E-value=0.073  Score=48.79  Aligned_cols=25  Identities=16%  Similarity=0.124  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          204 SWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       204 ~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      +|..++......|+..-|..+++.=
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~E   26 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLELE   26 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHcC
Confidence            4666777778888888888777654

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.51  E-value=0.0012  Score=60.02  Aligned_cols=166  Identities=13%  Similarity=0.123  Sum_probs=103.9

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc-----C-CCC--eeeHHHHHHHHHhcCChHHHHHHHHHhHh----CCCCCCh--hh
Q 036340          368 NALITMYARCGAIVEARIIFEEMK-----L-LKN--VVSWNAMIGGCASHGFATEALELFKSMRS----FKVLPTY--IT  433 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~-----~-~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~p~~--~~  433 (579)
                      ......|...+++++|.+.|....     . .+.  ...|.....+|.+. ++++|++.+++..+    .| .|+.  ..
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~  116 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKC  116 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHH
Confidence            345556666677776666665542     0 110  12244444445444 78888888877653    33 3332  26


Q ss_pred             HHHHHHHhccc-CcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHHHHHHHhCC---C-----CCCHH
Q 036340          434 FISVLSACAHA-GLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDAMDLIKGMP---F-----EPDKA  500 (579)
Q Consensus       434 ~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~-----~~~~~  500 (579)
                      +..+...|... |+++.|++.|+++..-+.....    ..++..++..+.+.|++++|.++|++..   .     +.+..
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            77778888888 9999999999988764322222    3566788899999999999999998861   1     11222


Q ss_pred             -HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          501 -VWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       501 -~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                       .+...+-++...||...|...+++.....|.-..+
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s  232 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASS  232 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCc
Confidence             22333445667899999999999999998875544

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.50  E-value=0.00032  Score=47.68  Aligned_cols=51  Identities=27%  Similarity=0.386  Sum_probs=44.6

Q ss_pred             HhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       133 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ...|++++|++.|+++..   ..|.+..++..++.++.+.|++++|.++++.+.
T Consensus         2 l~~~~~~~A~~~~~~~l~---~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQ---RNPDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHH---HTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             hhccCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            568999999999999988   556688888899999999999999999999997

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.49  E-value=0.0011  Score=58.61  Aligned_cols=85  Identities=15%  Similarity=0.053  Sum_probs=49.5

Q ss_pred             hccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC---CCchhhhhhhhhcCCc
Q 036340          478 GRHGRLEDAMDLIKGM-PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENS---TPYVLLYNMYADVGRW  549 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~  549 (579)
                      .+.|++++|...|+.+ ...|+    +..+..++.++...|++++|...|+++++..|+++   .++..++.++...|++
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            4456666666666655 22222    23455555666666666666666666666655543   3344556666666666


Q ss_pred             hHHHHHHHHHHhC
Q 036340          550 DDANEVRLLMKSN  562 (579)
Q Consensus       550 ~~A~~~~~~~~~~  562 (579)
                      ++|.++++++.+.
T Consensus       234 ~~A~~~~~~vi~~  246 (263)
T PRK10803        234 AKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666666543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.41  E-value=0.00015  Score=43.95  Aligned_cols=42  Identities=21%  Similarity=0.320  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      .++..+..++...|++++|+..|+++++..|+|+.++..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467788899999999999999999999999999988887764

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.40  E-value=0.00042  Score=64.30  Aligned_cols=62  Identities=15%  Similarity=0.119  Sum_probs=33.3

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHhhcCCHHHHHHHHHHHhhc
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDK----AVWGALLGACRVHNNVELAQVAAEALMKV  528 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  528 (579)
                      ...+..++.+|...|++++|+..|++. ...|+.    ..|.++..+|...|+.++|+..++++++.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344555555555555555555555553 344432    23555555555555555555555555554

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.38  E-value=0.18  Score=50.05  Aligned_cols=342  Identities=15%  Similarity=0.046  Sum_probs=187.0

Q ss_pred             HHHHhccCCCCCCCchhhHH-----HHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcC--
Q 036340          144 VLVKCGSRCDGGEDLVRAYN-----TLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAG--  216 (579)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--  216 (579)
                      ++.......-|.|.+..-|.     .++.-+...+.+..|+++-+.+...        . .....+|......+.+..  
T Consensus       417 Vln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p--------~-~~~~~Vl~~Wa~~kI~~~d~  487 (829)
T KOG2280|consen  417 VLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLP--------E-SQGDRVLLEWARRKIKQSDK  487 (829)
T ss_pred             HHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCc--------c-ccccHHHHHHHHHHHhccCc
Confidence            33333333346666655554     3556677788999999998888511        1 111456777777777663  


Q ss_pred             -CHHHHHHHHHhcCC--CChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCC
Q 036340          217 -DVVSAREIFEQMLE--RDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQK  293 (579)
Q Consensus       217 -~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  293 (579)
                       +-+.+..+-+++..  ....+|..++......|+.+-|..+++.-  |+.....   -.+.+.++.+.|+.---+...+
T Consensus       488 ~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E--~~~~~qV---~lLL~m~~~~~AL~kaies~d~  562 (829)
T KOG2280|consen  488 MDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKLLELE--PRSGEQV---PLLLKMKDSSLALKKAIESGDT  562 (829)
T ss_pred             cchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHHHhcC--CCccchh---HHHhccchHHHHHHHHHhcCCc
Confidence             33334444444444  35567888898889999999999988763  3332211   1123334444444333222222


Q ss_pred             Chhh------HHHHHH--HHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH----HhhcCC
Q 036340          294 NLVS------WNSMIA--GCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM----VTKTVI  361 (579)
Q Consensus       294 ~~~~------~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----~~~~~~  361 (579)
                      +..+      .+.+..  .+....+...|..+|.+..+..-.   .+.   -..+ ..++...+..-+..    ....+.
T Consensus       563 ~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~---~~l---~d~y-~q~dn~~~~a~~~~q~~~~~~~~~  635 (829)
T KOG2280|consen  563 DLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDR---ATL---YDFY-NQDDNHQALASFHLQASYAAETIE  635 (829)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhch---hhh---hhhh-hcccchhhhhhhhhhhhhhhhhhc
Confidence            2221      111111  112223445566666665442211   111   1112 22222222221111    011122


Q ss_pred             CCchHHHHHHHHhhhcCCHHHHH----------HHHHhcc----CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC
Q 036340          362 PDVPINNALITMYARCGAIVEAR----------IIFEEMK----LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKV  427 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~----------~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  427 (579)
                      +...........+.+.....-..          .+.+.+.    ..-...+.+--+.-+...|+..+|.++-.+..    
T Consensus       636 ~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----  711 (829)
T KOG2280|consen  636 GRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----  711 (829)
T ss_pred             ccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----
Confidence            22223333444444433311111          1112221    11233456667777888899899988887775    


Q ss_pred             CCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 036340          428 LPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLG  507 (579)
Q Consensus       428 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  507 (579)
                      -|+...|..=+.+++..+++++-+++-+...       ++.-|.-.+..+.+.|+.++|.+++-+.+.-+      ....
T Consensus       712 ipdKr~~wLk~~aLa~~~kweeLekfAkskk-------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l~------ekv~  778 (829)
T KOG2280|consen  712 IPDKRLWWLKLTALADIKKWEELEKFAKSKK-------SPIGYLPFVEACLKQGNKDEAKKYIPRVGGLQ------EKVK  778 (829)
T ss_pred             CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-------CCCCchhHHHHHHhcccHHHHhhhhhccCChH------HHHH
Confidence            5777778777888999999988877654332       24566778888899999999999988775322      4556


Q ss_pred             HHhhcCCHHHHHHHHH
Q 036340          508 ACRVHNNVELAQVAAE  523 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~  523 (579)
                      +|.+.|++.+|.+..-
T Consensus       779 ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  779 AYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHHhccHHHHHHHHH
Confidence            6777788877766543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.35  E-value=0.0033  Score=59.14  Aligned_cols=118  Identities=13%  Similarity=0.052  Sum_probs=62.3

Q ss_pred             CCCChhhHHHHHHhccCCCchhhHHHHHHH-Hhh--cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhc---cCCCCeeeH
Q 036340          326 EKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTK--TVIPDVPINNALITMYARCGAIVEARIIFEEM---KLLKNVVSW  399 (579)
Q Consensus       326 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~  399 (579)
                      ...+...+..++..+....+.+.+..++-. ...  .....+.+..++++.|...|..+.+..++..=   .+-||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            334455555555666555555555555433 111  12122233346666666666666666666542   144566666


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH  443 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  443 (579)
                      |.|+..+.+.|++..|.++...|...+...+..|+...+.+|.+
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            66666666666666666666665555544555555444444433

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.33  E-value=0.004  Score=47.34  Aligned_cols=56  Identities=11%  Similarity=0.089  Sum_probs=31.6

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHcCCCCCh--hhHHHHHHhccCCCchhhHHHHHHH
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVEGEKPDR--HTFSSILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      .+..++...|+.++|+.+|++....|.....  ..+..+..++...|++++|..+++.
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~   63 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEE   63 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4456677778888888888888877755432  2222333334444444444444444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.32  E-value=0.00088  Score=60.51  Aligned_cols=129  Identities=12%  Similarity=0.146  Sum_probs=100.9

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc-cCChHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR-HGRLEDAMDLIKGM--PFEPDKAVWGALLGA  508 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~  508 (579)
                      .+|..+++...+.+..+.|..+|.++.+.  ..-+..+|...+.+-.. .++.+.|..+|+..  .+..+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46778888888889999999999999742  23356777777777445 56677799999987  355678889999999


Q ss_pred             HhhcCCHHHHHHHHHHHhhcCCCCC---CCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          509 CRVHNNVELAQVAAEALMKVEPENS---TPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       509 ~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      +...|+.+.|..+|++++..-|.+.   ..|...+..-.+.|+.+....+.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999998776654   46888888889999999999999888764

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.32  E-value=0.00034  Score=48.40  Aligned_cols=61  Identities=16%  Similarity=0.293  Sum_probs=46.0

Q ss_pred             HHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          475 DIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       475 ~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      .+|.+.+++++|.++++.+ ...| ++..|...+.++...|++++|...++++++..|+++..
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~   65 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDA   65 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHH
Confidence            4567778888888888776 3444 56677777778888888888888888888888876653

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.23  E-value=0.0045  Score=53.00  Aligned_cols=64  Identities=22%  Similarity=0.253  Sum_probs=47.3

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ......+..+...|++.+|.+.|+.+....+..+-...+...++.++.+.|+++.|...++..+
T Consensus         6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi   69 (203)
T PF13525_consen    6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFI   69 (203)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445556667778888888888888888766666666777888888888888888888888876

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.0021  Score=58.33  Aligned_cols=93  Identities=12%  Similarity=0.109  Sum_probs=75.8

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      .++..++.++.+.+++.+|+....+. .. ++|...+-.-..++...|+++.|+..|+++++++|+|-.+...|+.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            46778888999999999999988887 43 44777888888999999999999999999999999998888888777666


Q ss_pred             cCCchHH-HHHHHHHH
Q 036340          546 VGRWDDA-NEVRLLMK  560 (579)
Q Consensus       546 ~g~~~~A-~~~~~~~~  560 (579)
                      ...+.+. .++|..|-
T Consensus       338 ~~~~~~kekk~y~~mF  353 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMF  353 (397)
T ss_pred             HHHHHHHHHHHHHHHh
Confidence            6655544 67787774

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.21  E-value=0.0098  Score=52.11  Aligned_cols=111  Identities=14%  Similarity=0.104  Sum_probs=84.4

Q ss_pred             CC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccC---ChHHHHHHHHhC-CCCC-CHHH
Q 036340          428 LP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHG---RLEDAMDLIKGM-PFEP-DKAV  501 (579)
Q Consensus       428 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~~-~~~~  501 (579)
                      .| |...|..|...|...|+++.|...|....+-  ..+++..+..+++++..+.   +..++..+|+++ ..+| |+..
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~ira  229 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRA  229 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHH
Confidence            45 4558999999999999999999999988743  2335677777777765433   456788888887 4455 6667


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      ...+...+...|++.+|...|+.+++..|.+.. +..++.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~-rr~~ie  268 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP-RRSLIE  268 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc-hHHHHH
Confidence            777788899999999999999999998888654 555443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.20  E-value=0.095  Score=50.82  Aligned_cols=85  Identities=18%  Similarity=0.131  Sum_probs=44.3

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC-CCCCHH-----------
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP-FEPDKA-----------  500 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~-----------  500 (579)
                      +...+...+.+...+..|.++|.+|-..          ..++......+++++|..+-++.+ ..|++.           
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~----------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~D  818 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL----------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAEND  818 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH----------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhh
Confidence            3444444444555555666666555321          345555566666666666666552 222221           


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      -+...-.++.+.|+..+|.++++++..
T Consensus       819 rFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  819 RFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence            122222445566777777777777653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.16  E-value=0.0031  Score=45.96  Aligned_cols=78  Identities=14%  Similarity=0.245  Sum_probs=58.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhCCC-CCChhhHHHHHHHhccc--------CcHHHHHHHHHHhHHhhCCCCCcchhH
Q 036340          401 AMIGGCASHGFATEALELFKSMRSFKV-LPTYITFISVLSACAHA--------GLVEEGRQHFKSMVNEYGIEPRIEHFA  471 (579)
Q Consensus       401 ~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~  471 (579)
                      ..|..+...+++.....+|+.+++.|+ -|+..+|+.++.+..+.        +++-..+.+|+.|+.. +++|+.++|+
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etYn  108 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETYN  108 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHHH
Confidence            345556666888888888998888888 78888888888865442        2345677788888766 7888888888


Q ss_pred             HHHHHhhc
Q 036340          472 SLVDIVGR  479 (579)
Q Consensus       472 ~l~~~~~~  479 (579)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            87776543

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.15  E-value=0.0065  Score=57.23  Aligned_cols=101  Identities=21%  Similarity=0.215  Sum_probs=78.7

Q ss_pred             cchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc
Q 036340          122 SASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN  201 (579)
Q Consensus       122 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  201 (579)
                      +.....++.......+++.+..++-+.............+..++++.|...|..++++.+++.=.        ..|+-||
T Consensus        66 ~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~--------~yGiF~D  137 (429)
T PF10037_consen   66 SLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRL--------QYGIFPD  137 (429)
T ss_pred             HHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChh--------hcccCCC
Confidence            33445566666666778888888877766532333334566799999999999999999998887        7899999


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLE  230 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  230 (579)
                      ..+++.|++.+.+.|++..|.++...|..
T Consensus       138 ~~s~n~Lmd~fl~~~~~~~A~~V~~~~~l  166 (429)
T PF10037_consen  138 NFSFNLLMDHFLKKGNYKSAAKVATEMML  166 (429)
T ss_pred             hhhHHHHHHHHhhcccHHHHHHHHHHHHH
Confidence            99999999999999999999998887744

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.11  E-value=0.22  Score=45.75  Aligned_cols=102  Identities=15%  Similarity=0.173  Sum_probs=52.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFF  287 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  287 (579)
                      -+.-+...|+...|.++-.+..=|+..-|...+.+++..++|++-..+...  +.++.-|..++..+.+.|+..+|..++
T Consensus       183 Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~eA~~yI  260 (319)
T PF04840_consen  183 TIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKKEASKYI  260 (319)
T ss_pred             HHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHHHHHHHH
Confidence            344444555555555555555445555555555555555555555444332  223445555555555555555555555


Q ss_pred             ccCCCCChhhHHHHHHHHHhCCCchHHHHH
Q 036340          288 KRMPQKNLVSWNSMIAGCETNKDYEGAIKL  317 (579)
Q Consensus       288 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  317 (579)
                      .++      .+..-+..|.+.|++.+|.+.
T Consensus       261 ~k~------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  261 PKI------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HhC------ChHHHHHHHHHCCCHHHHHHH
Confidence            542      123444445555555555444

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.10  E-value=0.0059  Score=47.28  Aligned_cols=90  Identities=16%  Similarity=0.145  Sum_probs=64.5

Q ss_pred             HHHHhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC---chhhhhhhh
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM----PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP---YVLLYNMYA  544 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~  544 (579)
                      -+....+.|++++|.+.|+.+    +..| ....-..++.++.+.+++++|+..+++.++++|.++.+   +...+.++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            344456788888888888877    2333 44566677888899999999999999999999988764   444455555


Q ss_pred             hcCC---------------chHHHHHHHHHHhC
Q 036340          545 DVGR---------------WDDANEVRLLMKSN  562 (579)
Q Consensus       545 ~~g~---------------~~~A~~~~~~~~~~  562 (579)
                      ++..               ..+|..-|+++++.
T Consensus        96 ~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~  128 (142)
T PF13512_consen   96 EQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRR  128 (142)
T ss_pred             HHhhhHHhhhcccccCcHHHHHHHHHHHHHHHH
Confidence            5554               66777777777653

>PRK11906 transcriptional regulator; Provisional

Probab=96.98  E-value=0.0054  Score=57.35  Aligned_cols=158  Identities=11%  Similarity=0.117  Sum_probs=98.5

Q ss_pred             eeH--HHHHHHHHhc-----CChHHHHHHHHHhH-hCCCCCChh-hHHHHHHHhcc---------cCcHHHHHHHHHHhH
Q 036340          397 VSW--NAMIGGCASH-----GFATEALELFKSMR-SFKVLPTYI-TFISVLSACAH---------AGLVEEGRQHFKSMV  458 (579)
Q Consensus       397 ~~~--~~l~~~~~~~-----~~~~~A~~~~~~~~-~~~~~p~~~-~~~~l~~~~~~---------~~~~~~a~~~~~~~~  458 (579)
                      ..|  ..++.+....     ...+.|+.+|.+.. ...+.|+.. .|..+..++..         .....+|.++-++.+
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            455  5555554431     23567888888887 223566654 66666665432         223445556655555


Q ss_pred             HhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          459 NEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       459 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                         .+.| |+.....++.++.-.|+++.|...|++. ...|| ..+|......+.-.|+.++|.+.++++++++|....+
T Consensus       332 ---eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~  408 (458)
T PRK11906        332 ---DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKA  408 (458)
T ss_pred             ---hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHH
Confidence               3344 5666667777777777788888888887 45564 4566666666777888888888888888888876543


Q ss_pred             chhhhh--hhhhcCCchHHHHHHHH
Q 036340          536 YVLLYN--MYADVGRWDDANEVRLL  558 (579)
Q Consensus       536 ~~~l~~--~~~~~g~~~~A~~~~~~  558 (579)
                      -..-.+  .|+..+ .++|..++-+
T Consensus       409 ~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        409 VVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             HHHHHHHHHHcCCc-hhhhHHHHhh
Confidence            322222  344444 5777776543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.96  E-value=0.013  Score=50.08  Aligned_cols=167  Identities=13%  Similarity=0.112  Sum_probs=92.3

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc-CCCC----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh--hHHHHHHH
Q 036340          368 NALITMYARCGAIVEARIIFEEMK-LLKN----VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI--TFISVLSA  440 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~  440 (579)
                      ...+..+...|++.+|...|+.+. .-|+    ......++.++.+.|+++.|...+++.++.  .|+..  .+...+.+
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g   86 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLG   86 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHH
Confidence            344555667788888888888775 1222    223556677788888888888888887753  33322  22222222


Q ss_pred             h-------------cccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 036340          441 C-------------AHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLG  507 (579)
Q Consensus       441 ~-------------~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  507 (579)
                      .             ...+...+|...|+.+++++   |             ......+|...+..+.... ...-..++.
T Consensus        87 ~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~y---P-------------~S~y~~~A~~~l~~l~~~l-a~~e~~ia~  149 (203)
T PF13525_consen   87 LSYYKQIPGILRSDRDQTSTRKAIEEFEELIKRY---P-------------NSEYAEEAKKRLAELRNRL-AEHELYIAR  149 (203)
T ss_dssp             HHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH----T-------------TSTTHHHHHHHHHHHHHHH-HHHHHHHHH
T ss_pred             HHHHHhCccchhcccChHHHHHHHHHHHHHHHHC---c-------------CchHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            1             11223345555555555442   2             2222333333333221000 001122456


Q ss_pred             HHhhcCCHHHHHHHHHHHhhcCCCCCC---CchhhhhhhhhcCCchHHH
Q 036340          508 ACRVHNNVELAQVAAEALMKVEPENST---PYVLLYNMYADVGRWDDAN  553 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~  553 (579)
                      .|.+.|.+..|..-++.+++..|+.+.   ++..++.+|.+.|..+.|.
T Consensus       150 ~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  150 FYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            688899999999999999999988643   4677888888888877443

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.94  E-value=0.00045  Score=48.55  Aligned_cols=61  Identities=15%  Similarity=0.125  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhc----CCC---CCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKV----EPE---NSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .+++.+...+...|++++|+..|++++++    .++   -..++..++.++...|++++|++++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35666777777777777777777777643    122   13457777888888888888888877654

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.91  E-value=0.013  Score=49.78  Aligned_cols=101  Identities=13%  Similarity=0.057  Sum_probs=55.5

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHH
Q 036340          126 SALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSW  205 (579)
Q Consensus       126 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (579)
                      +.++..+.-.|.+.-..+.+.+.++.  .++.++.....++..-.+.||.+.|...|+........   -.++..+..+.
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~--~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~k---L~~~q~~~~V~  255 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKY--YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQK---LDGLQGKIMVL  255 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHh--CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhh---hhccchhHHHH
Confidence            34555555566666666666666664  44555556666666667777777777776644311100   11223333333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCC
Q 036340          206 NSMIMCYAKAGDVVSAREIFEQMLER  231 (579)
Q Consensus       206 ~~l~~~~~~~~~~~~A~~~~~~~~~~  231 (579)
                      ......+.-.+++..|...+.+++..
T Consensus       256 ~n~a~i~lg~nn~a~a~r~~~~i~~~  281 (366)
T KOG2796|consen  256 MNSAFLHLGQNNFAEAHRFFTEILRM  281 (366)
T ss_pred             hhhhhheecccchHHHHHHHhhcccc
Confidence            33444455556666666666666554

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.89  E-value=0.0085  Score=51.79  Aligned_cols=92  Identities=18%  Similarity=0.198  Sum_probs=50.0

Q ss_pred             cccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC----CCCC-CHHHHHHHHHHHhhcCCH
Q 036340          442 AHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM----PFEP-DKAVWGALLGACRVHNNV  515 (579)
Q Consensus       442 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~  515 (579)
                      ...|++..|...|...++.+.-.+ ....+..|++++...|++++|..+|..+    +..| -+..+..+.......|+.
T Consensus       152 ~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~  231 (262)
T COG1729         152 YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT  231 (262)
T ss_pred             HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH
Confidence            344556666666666665432211 2334445566666666666666555544    2222 334555555555666666


Q ss_pred             HHHHHHHHHHhhcCCCCC
Q 036340          516 ELAQVAAEALMKVEPENS  533 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p~~~  533 (579)
                      ++|...|+++.+-.|+.+
T Consensus       232 d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         232 DEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHHHHHCCCCH
Confidence            666666666666666644

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.86  E-value=0.16  Score=49.35  Aligned_cols=41  Identities=27%  Similarity=0.271  Sum_probs=23.7

Q ss_pred             HHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccc
Q 036340          140 EAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKI  185 (579)
Q Consensus       140 ~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  185 (579)
                      +-+.-++++.++  +..|+..   .+...++-.|++.+|.++|.+-
T Consensus       618 ~li~EL~~~k~r--ge~P~~i---LlA~~~Ay~gKF~EAAklFk~~  658 (1081)
T KOG1538|consen  618 ELISELEERKKR--GETPNDL---LLADVFAYQGKFHEAAKLFKRS  658 (1081)
T ss_pred             HHHHHHHHHHhc--CCCchHH---HHHHHHHhhhhHHHHHHHHHHc
Confidence            334445555554  4434432   3455566677888888877765

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.85  E-value=0.61  Score=46.72  Aligned_cols=147  Identities=13%  Similarity=0.177  Sum_probs=98.9

Q ss_pred             HHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc---chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHH
Q 036340          165 LIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR---NIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMIS  241 (579)
Q Consensus       165 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~  241 (579)
                      -+..+.+.+.+++|+...+...          |..|   -...+..++..+.-.|+++.|-...-.|...+..-|...+.
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~----------~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~  431 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASI----------GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVF  431 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhcc----------CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHH
Confidence            4567788899999999988875          3344   35567788899999999999999999998888888888888


Q ss_pred             HHHhcCChHHHHHHhhcCC-CCChhhHHHHHHHHHhcCCHHHHHHHHccCC--------------C------CChhhHHH
Q 036340          242 GYIHVLDMEEASNLFVKMP-HPDTLTWNAMVSGYAQIGNLELALDFFKRMP--------------Q------KNLVSWNS  300 (579)
Q Consensus       242 ~~~~~~~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------------~------~~~~~~~~  300 (579)
                      .+...++......++-.-. ..++..|..++..+.. .+...-.++...-.              .      .+...-..
T Consensus       432 ~f~e~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~  510 (846)
T KOG2066|consen  432 KFAELDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEV  510 (846)
T ss_pred             HhccccccchhhccCCCCCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHH
Confidence            7777777665555443332 2345566666665554 22222222221111              0      12223445


Q ss_pred             HHHHHHhCCCchHHHHHHHHHH
Q 036340          301 MIAGCETNKDYEGAIKLFIQMQ  322 (579)
Q Consensus       301 l~~~~~~~~~~~~a~~~~~~~~  322 (579)
                      |+..|...+++..|+.++-..+
T Consensus       511 La~LYl~d~~Y~~Al~~ylklk  532 (846)
T KOG2066|consen  511 LAHLYLYDNKYEKALPIYLKLQ  532 (846)
T ss_pred             HHHHHHHccChHHHHHHHHhcc
Confidence            7888888888988888887654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.79  E-value=0.0013  Score=46.14  Aligned_cols=30  Identities=10%  Similarity=-0.052  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHhhc
Q 036340          499 KAVWGALLGACRVHNNVELAQVAAEALMKV  528 (579)
Q Consensus       499 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  528 (579)
                      ..++..++.++...|++++|++.+++++++
T Consensus        46 a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen   46 ANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            345666667777777777777777776643

...

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.74  E-value=0.036  Score=46.24  Aligned_cols=36  Identities=19%  Similarity=0.182  Sum_probs=31.8

Q ss_pred             ChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCc
Q 036340          411 FATEALELFKSMRSFKVLPTYITFISVLSACAHAGL  446 (579)
Q Consensus       411 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  446 (579)
                      +.+-|++++++|...|+-||..++..++..+.+.+.
T Consensus       118 Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  118 QQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            457899999999999999999999999999876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.70  E-value=0.68  Score=45.05  Aligned_cols=398  Identities=12%  Similarity=0.065  Sum_probs=199.6

Q ss_pred             hhHHHHHHHHHhcCChhhHHHHHccCCCCCcc---hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHH
Q 036340           92 VSWNAMISGFLQNGDVANAIEFFDRMPGRDSA---SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVG  168 (579)
Q Consensus        92 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~  168 (579)
                      ..|..++.--....+.+.+...+..+...-|.   -|...+..-.+.|..+.+.++|++.+.   +.|.+...|......
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~---aip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ---AIPLSVDLWLSYLAF  122 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH---hhhhHHHHHHHHHHH
Confidence            34555555444445556666777776653332   234455555678889999999999888   677777777665554


Q ss_pred             Hh-hCCCHHHHHHHHccccccCCCCCCCccCC-cchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHh-
Q 036340          169 YG-QRGRVEEARKLFDKIPVNCDRGEGNVRFK-RNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIH-  245 (579)
Q Consensus       169 ~~-~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~-  245 (579)
                      +. ..|+.+.....|+.+....       |.. .+...|-..+..-..++++.....+|++.++.-...++.....|.+ 
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~v-------G~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~  195 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYV-------GLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQL  195 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhc-------ccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHH
Confidence            43 4677888888888876332       222 2345677778777888888888888888877544333333322221 


Q ss_pred             --c------CChHHHHHHhhcCCCCChhhHHHHHHHHHhcCC-HHHHHHHHccCCCCChh---hH-------HHHHHHHH
Q 036340          246 --V------LDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGN-LELALDFFKRMPQKNLV---SW-------NSMIAGCE  306 (579)
Q Consensus       246 --~------~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~~---~~-------~~l~~~~~  306 (579)
                        .      ...+++.++-......         ......+. .+.-....+....+...   ..       ...-..+.
T Consensus       196 l~~~~~~~l~~~d~~~~l~~~~~~~---------~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~  266 (577)
T KOG1258|consen  196 LNQNEEKILLSIDELIQLRSDVAER---------SKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQ  266 (577)
T ss_pred             HhcCChhhhcCHHHHHHHhhhHHhh---------hhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHH
Confidence              1      1112211111110000         00000000 11111111111111100   00       00011122


Q ss_pred             hCCCchHHHHHHHHHHHcC---CC----CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCC
Q 036340          307 TNKDYEGAIKLFIQMQVEG---EK----PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGA  379 (579)
Q Consensus       307 ~~~~~~~a~~~~~~~~~~~---~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  379 (579)
                      ...........++.-+...   ++    ++..+|...+.--.+.|+.+.....++...-.+..-...|-..+.-....|+
T Consensus       267 ~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~  346 (577)
T KOG1258|consen  267 KSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGD  346 (577)
T ss_pred             hhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCc
Confidence            2222222333333322211   11    2233444455555556666666655555433333444455555555555577


Q ss_pred             HHHHHHHHHhcc--CCCCeeeHHHHHHHH-HhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHH---H
Q 036340          380 IVEARIIFEEMK--LLKNVVSWNAMIGGC-ASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGR---Q  452 (579)
Q Consensus       380 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~-~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~---~  452 (579)
                      .+-|..++....  ..|+......+-..+ -..|++..|..+++...+. . |+.. .-..-+....+.|+.+.+.   +
T Consensus       347 ~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~  424 (577)
T KOG1258|consen  347 VSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKNE  424 (577)
T ss_pred             hhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHHH
Confidence            777776665442  122222222222222 2367889999999888874 3 6544 2222333445667777776   3


Q ss_pred             HHHHhHHhhCCCCCcchhHHHHH-----HhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcC
Q 036340          453 HFKSMVNEYGIEPRIEHFASLVD-----IVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHN  513 (579)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~  513 (579)
                      ++.....   ..-+..+...+.-     .+.-.++.+.|..++.++ + .+++...|..++..+...+
T Consensus       425 l~s~~~~---~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  425 LYSSIYE---GKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHhcc---cccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            3332221   1222222222221     123467888888888888 3 3456677777777665444

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.65  E-value=0.0045  Score=56.35  Aligned_cols=68  Identities=12%  Similarity=0.030  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          499 KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       499 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      ...+.++..++.+.+++..|++...+++.++|+|..+++.-+.+|...|+++.|+..|+++++..+.+
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~N  324 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSN  324 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCc
Confidence            34677888889999999999999999999999999999999999999999999999999998766544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.61  E-value=0.62  Score=43.50  Aligned_cols=130  Identities=12%  Similarity=0.074  Sum_probs=76.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCC-CCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchh-HHHHHH
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFK-VLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHF-ASLVDI  476 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~  476 (579)
                      |...+....+..-.+.|..+|-++.+.| +.++...++.++..+ ..|+...|..+|+.-+..   -||...| .....-
T Consensus       400 ~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~-~~~d~~ta~~ifelGl~~---f~d~~~y~~kyl~f  475 (660)
T COG5107         400 FCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYY-ATGDRATAYNIFELGLLK---FPDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHH-hcCCcchHHHHHHHHHHh---CCCchHHHHHHHHH
Confidence            4444555555555667777777777666 445555666666544 346666777777665543   2333333 345555


Q ss_pred             hhccCChHHHHHHHHhC----CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          477 VGRHGRLEDAMDLIKGM----PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      +.+.++-+.|..+|+..    ....-...|..++.--..-|+...+..+-+++....|..
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            66677777777777644    111124466666666666677777777666666666664

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.54  E-value=1.1  Score=45.45  Aligned_cols=178  Identities=16%  Similarity=0.172  Sum_probs=111.9

Q ss_pred             HHHHHHHHHhcCChhhHHHHHccCCCCC---cchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHh
Q 036340           94 WNAMISGFLQNGDVANAIEFFDRMPGRD---SASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYG  170 (579)
Q Consensus        94 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  170 (579)
                      ...-+..+.+..-++-|+.+.+.--.+.   ...+.....-+.+.|++++|...|-+.+..   ..|.     .++.-|.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~---le~s-----~Vi~kfL  408 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF---LEPS-----EVIKKFL  408 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc---CChH-----HHHHHhc
Confidence            4455677777777788877776542221   123344555566889999999888887662   3332     2445555


Q ss_pred             hCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh-hHHHHHHHHHHhcCCh
Q 036340          171 QRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT-FSWNTMISGYIHVLDM  249 (579)
Q Consensus       171 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~l~~~~~~~~~~  249 (579)
                      ...+..+-..+++.+.        +.|+. +...-..|+.+|.+.++.++-.++.+...+... .-....+..+.+.+-.
T Consensus       409 daq~IknLt~YLe~L~--------~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl  479 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALH--------KKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYL  479 (933)
T ss_pred             CHHHHHHHHHHHHHHH--------Hcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChH
Confidence            5556666666777776        44533 334456788999999999888888777652211 1244566667777777


Q ss_pred             HHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC
Q 036340          250 EEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ  292 (579)
Q Consensus       250 ~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  292 (579)
                      ++|..+-.+... .......+   +-..|++++|.+++..+.-
T Consensus       480 ~~a~~LA~k~~~-he~vl~il---le~~~ny~eAl~yi~slp~  518 (933)
T KOG2114|consen  480 DEAELLATKFKK-HEWVLDIL---LEDLHNYEEALRYISSLPI  518 (933)
T ss_pred             HHHHHHHHHhcc-CHHHHHHH---HHHhcCHHHHHHHHhcCCH
Confidence            777766655542 33333333   3456889999999988764

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.52  E-value=0.026  Score=48.87  Aligned_cols=101  Identities=16%  Similarity=0.184  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      .....-.+...|++..|...|...++..|..+-...++..|++++...|+++.|..+|..+....+.      -+--+.+
T Consensus       144 ~Y~~A~~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~------s~KApda  217 (262)
T COG1729         144 LYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPK------SPKAPDA  217 (262)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCC------CCCChHH
Confidence            3444555667888999999999999987777777888999999999999999999999988743211      1223466


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCC
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLER  231 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~~  231 (579)
                      +.-|..+..+.|+.++|...|+++.+.
T Consensus       218 llKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         218 LLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            778888899999999999999988763

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.47  E-value=0.051  Score=48.15  Aligned_cols=113  Identities=9%  Similarity=-0.011  Sum_probs=46.7

Q ss_pred             cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH----HHHHHhhccCChH
Q 036340          409 HGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA----SLVDIVGRHGRLE  484 (579)
Q Consensus       409 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~~~  484 (579)
                      .|+..+|-..++++.+ ..+.|...+...=.+|+..|+.+.-...+++++..  ..|+..+|.    .++-++..+|-++
T Consensus       116 ~g~~h~a~~~wdklL~-d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLD-DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHH-hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            3444444444444443 12223334443344444455544444444444321  133332222    1222334455555


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 036340          485 DAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEA  524 (579)
Q Consensus       485 ~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~  524 (579)
                      +|.+.-++. ++.| |...-.+....+...|++.++.++..+
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            555544444 2222 333444444444444555555444433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.071  Score=46.74  Aligned_cols=121  Identities=14%  Similarity=0.129  Sum_probs=84.5

Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHH---HHHHHhhcCCHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGA---LLGACRVHNNVE  516 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~  516 (579)
                      .....|++.+|...|......  .+-+......++++|...|+.+.|..++..++..-....+..   -+..+.+..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            456788899999988888754  223466777888999999999999999998864433333333   223333333333


Q ss_pred             HHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          517 LAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +. ..+++-...+|+|...-..|+..+...|+.++|.+.+=.+.+++
T Consensus       221 ~~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d  266 (304)
T COG3118         221 EI-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRD  266 (304)
T ss_pred             CH-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            32 22344556789988888999999999999999998877775543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.44  E-value=0.059  Score=41.92  Aligned_cols=114  Identities=13%  Similarity=0.109  Sum_probs=61.2

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhCCCCCC---hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc
Q 036340          403 IGGCASHGFATEALELFKSMRSFKVLPT---YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR  479 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  479 (579)
                      .....+.|++++|++.|+.+...- +..   ...-..++.+|.+.+++++|...+++.++-+.-.|++. |.....++..
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ry-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vd-Ya~Y~~gL~~   94 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRY-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVD-YAYYMRGLSY   94 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcC-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCcc-HHHHHHHHHH
Confidence            344556777777777777776532 211   22455566677777777777777777776543334332 2222222221


Q ss_pred             cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          480 HGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       480 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      -...+   ..+..+            ...=...+....|...|+++++..|++.
T Consensus        95 ~~~~~---~~~~~~------------~~~drD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   95 YEQDE---GSLQSF------------FRSDRDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHhh---hHHhhh------------cccccCcHHHHHHHHHHHHHHHHCcCCh
Confidence            11111   111111            0001112335688899999999999865

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.40  E-value=0.14  Score=47.43  Aligned_cols=74  Identities=11%  Similarity=0.079  Sum_probs=53.8

Q ss_pred             HHHHHHHHhcCChhhHHHHHccCCCC-------CcchHHHHHHHHHh---CCCHHHHHHHHHHhccCCCCCCCchhhHHH
Q 036340           95 NAMISGFLQNGDVANAIEFFDRMPGR-------DSASLSALVSGLIQ---NGELDEAARVLVKCGSRCDGGEDLVRAYNT  164 (579)
Q Consensus        95 ~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  164 (579)
                      ..++-.|-...+++..+++.+.+...       .+..-...+-++-+   .|+.++|++++..++..  ...+++.+|..
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~--~~~~~~d~~gL  222 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES--DENPDPDTLGL  222 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc--cCCCChHHHHH
Confidence            34455677888999999999988763       22233345566667   89999999999996655  55677778888


Q ss_pred             HHHHHh
Q 036340          165 LIVGYG  170 (579)
Q Consensus       165 l~~~~~  170 (579)
                      ++..|-
T Consensus       223 ~GRIyK  228 (374)
T PF13281_consen  223 LGRIYK  228 (374)
T ss_pred             HHHHHH
Confidence            887764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.37  E-value=0.64  Score=40.99  Aligned_cols=219  Identities=15%  Similarity=0.076  Sum_probs=92.0

Q ss_pred             CCchHHHHHHHHHHHcCCCC-ChhhHHHHHHhccCCCchhhHHHHHHHHhh--cCCCCchHHHHHHHHhhhcCCHHHHHH
Q 036340          309 KDYEGAIKLFIQMQVEGEKP-DRHTFSSILSMSSGIVDLHLGMQIHQMVTK--TVIPDVPINNALITMYARCGAIVEARI  385 (579)
Q Consensus       309 ~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~  385 (579)
                      +....+...+.......... ...........+...+....+...+.....  ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            33444444444443332211 133344444444455555555554444222  333334444444445555555555555


Q ss_pred             HHHhcc-CCCCe-eeHHHHHH-HHHhcCChHHHHHHHHHhHhCCCCC----ChhhHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          386 IFEEMK-LLKNV-VSWNAMIG-GCASHGFATEALELFKSMRSFKVLP----TYITFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       386 ~~~~~~-~~~~~-~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      .+.... ..++. ........ .+...|+++.|...+.+...  ..|    ....+......+...++.+.+...+....
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            555443 11111 11222222 44555555555555555533  222    11122222223344455555555555554


Q ss_pred             HhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          459 NEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       459 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ..  .+. ....+..+...+...++++.|...+... ...|+ ...+......+...+..+.+...+.+.....|.
T Consensus       195 ~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         195 KL--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hh--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            32  111 2334444444555555555555554444 22222 223333333333344455555555555555544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.37  E-value=0.02  Score=42.94  Aligned_cols=87  Identities=15%  Similarity=0.150  Sum_probs=41.5

Q ss_pred             hhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC----CCchhhhhhhhhcCCch
Q 036340          477 VGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS----TPYVLLYNMYADVGRWD  550 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~  550 (579)
                      +...|+.+.|++.|.+. ..- .....||.-..++.-.|+.++|+.-+++++++..+..    .+|..-+.+|...|+-+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd  132 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDD  132 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchH
Confidence            34455555555555443 222 2444555555555555555555555555555432221    12344444555555555


Q ss_pred             HHHHHHHHHHhCC
Q 036340          551 DANEVRLLMKSNN  563 (579)
Q Consensus       551 ~A~~~~~~~~~~~  563 (579)
                      .|..-|+...+.|
T Consensus       133 ~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  133 AARADFEAAAQLG  145 (175)
T ss_pred             HHHHhHHHHHHhC
Confidence            5555555444433

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.26  E-value=0.13  Score=38.90  Aligned_cols=141  Identities=15%  Similarity=0.107  Sum_probs=83.3

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED  485 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  485 (579)
                      +.-.|..++..++..+....   .+..-++.++--....-+-+-..+.++.+-+-+.+.              .+|+...
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis--------------~C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS--------------KCGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG--------------G-S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCch--------------hhcchHH
Confidence            34468888999998888753   234455555544444455555666666654332222              2333333


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          486 AMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       486 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      ....+-.++  .+...+...+..+..+|.-+.-.+++..+.+.+..+|..+..++.+|.+.|+..++.++++++-++|++
T Consensus        75 Vi~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   75 VIECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            333333332  233445556677778888888888888888666666788999999999999999999999999999874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.25  E-value=0.32  Score=41.97  Aligned_cols=64  Identities=20%  Similarity=0.133  Sum_probs=54.9

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ..+..-+....+.|++++|.+.|+.+....+..+-...+...++.++.+.++++.|+..+++..
T Consensus        35 ~~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi   98 (254)
T COG4105          35 SELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFI   98 (254)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            4455566667789999999999999998888888888888899999999999999999999887

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.24  E-value=0.012  Score=33.09  Aligned_cols=33  Identities=27%  Similarity=0.246  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      ..|..+...+...|++++|++.++++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356677788888888999999999888888875

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PRK11906 transcriptional regulator; Provisional

Probab=96.17  E-value=0.13  Score=48.51  Aligned_cols=141  Identities=13%  Similarity=0.049  Sum_probs=91.5

Q ss_pred             CHHHHHHHHHhcc----CCCC-eeeHHHHHHHHHhc---------CChHHHHHHHHHhHhCCCCCChhhHHHHHHHhccc
Q 036340          379 AIVEARIIFEEMK----LLKN-VVSWNAMIGGCASH---------GFATEALELFKSMRSFKVLPTYITFISVLSACAHA  444 (579)
Q Consensus       379 ~~~~A~~~~~~~~----~~~~-~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  444 (579)
                      ..+.|..+|.+..    ..|+ ...|..+..++...         .+..+|.++.++..+.+ +-|......+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            4567788888764    3333 33455555444321         23556777888877643 33555777777777778


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHh-CCCCCCHH---HHHHHHHHHhhcCCHHHHH
Q 036340          445 GLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKG-MPFEPDKA---VWGALLGACRVHNNVELAQ  519 (579)
Q Consensus       445 ~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~~~A~  519 (579)
                      ++++.|...|++..   .+.|+ ...+...+....-.|+.++|.+.+++ +...|...   .....+..|+.. -.++|+
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhH
Confidence            88999999999886   56775 45666677777789999999999988 46666433   333333455544 456677


Q ss_pred             HHHHH
Q 036340          520 VAAEA  524 (579)
Q Consensus       520 ~~~~~  524 (579)
                      .+|-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            76654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.15  E-value=0.0097  Score=47.94  Aligned_cols=69  Identities=20%  Similarity=0.174  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH-----hCCCCCCCc
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK-----SNNIKKPTG  569 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~  569 (579)
                      ....++..+...|++++|+..+++++..+|.+...|..++.+|...|+..+|.++++++.     +.|+.|.+.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            455666777889999999999999999999999999999999999999999999988762     567776654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.14  E-value=0.0099  Score=33.41  Aligned_cols=33  Identities=18%  Similarity=0.149  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      .+|..++.++...|++++|+..|+++++++|++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            467788888889999999999999999988863

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.26  Score=43.39  Aligned_cols=157  Identities=17%  Similarity=0.137  Sum_probs=95.3

Q ss_pred             HHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC---CCCcchHHHHHHHHHccCCHHHHHHHhhcCCC-
Q 036340           13 KARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMP---ERDCVTWNTVISGYAKTGEMEEALRLFNSMPA-   88 (579)
Q Consensus        13 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-   88 (579)
                      ..++++++...+....-..-.......++   +.+|..+|....   +.+....-.++.+|...|+.+.|..++..++. 
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~---~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~  197 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAED---FGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQ  197 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccc---hhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCccc
Confidence            34455555555422222223333445555   888888888776   34556677888888899999999999998872 


Q ss_pred             Cch---hhHHHHHHHHHhcCChhhHHHHHccCCC-C-CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHH
Q 036340           89 RNV---VSWNAMISGFLQNGDVANAIEFFDRMPG-R-DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYN  163 (579)
Q Consensus        89 ~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  163 (579)
                      ...   .....-+..+.+..+..+...+-++.-. | |...-..+...+...|+.+.|.+.+-.++++..+. .+..+-.
T Consensus       198 ~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~-~d~~~Rk  276 (304)
T COG3118         198 AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEARK  276 (304)
T ss_pred             chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHHHH
Confidence            111   1222334455555555544444444322 3 55666678888888999999988887777654333 3344555


Q ss_pred             HHHHHHhhCC
Q 036340          164 TLIVGYGQRG  173 (579)
Q Consensus       164 ~l~~~~~~~g  173 (579)
                      .++..+.-.|
T Consensus       277 ~lle~f~~~g  286 (304)
T COG3118         277 TLLELFEAFG  286 (304)
T ss_pred             HHHHHHHhcC
Confidence            6666665555

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.10  E-value=0.024  Score=53.09  Aligned_cols=58  Identities=10%  Similarity=0.161  Sum_probs=36.0

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcc----hhHHHHHHhhccCChHHHHHHHHhC
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIE----HFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      .++.+..+|...|++++|+..|++.+.   +.|+..    .|..++.+|...|+.++|+..++++
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            566666666666666666666666653   345432    3566666666666666666666655

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.06  E-value=0.53  Score=45.52  Aligned_cols=157  Identities=15%  Similarity=0.125  Sum_probs=106.5

Q ss_pred             hhhcCCCHHHHHHHhc--cCCC-CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHH
Q 036340            4 GYVKRREMAKARKLFD--EMPQ-RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEAL   80 (579)
Q Consensus         4 ~~~~~~~~~~A~~~~~--~~~~-~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~   80 (579)
                      ..+-+|+++++.+..+  ++.. -.....+.++.-+.+.|.   ++.|+++-     .|+.   .--....+.|+++.|.
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~---~e~AL~~~-----~D~~---~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGY---PELALQFV-----TDPD---HRFELALQLGNLDIAL  338 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT----HHHHHHHS-----S-HH---HHHHHHHHCT-HHHHH
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCC---HHHHHhhc-----CChH---HHhHHHHhcCCHHHHH
Confidence            3455778888655554  2221 124446677777777777   89998873     3332   3445556889999999


Q ss_pred             HHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchh
Q 036340           81 RLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVR  160 (579)
Q Consensus        81 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  160 (579)
                      ++.++.  +++..|..|.....++|+++-|++.|++..     .+..++-.|...|+.+.-.++.+.+..++        
T Consensus       339 ~~a~~~--~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~--------  403 (443)
T PF04053_consen  339 EIAKEL--DDPEKWKQLGDEALRQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERG--------  403 (443)
T ss_dssp             HHCCCC--STHHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT--------
T ss_pred             HHHHhc--CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHcc--------
Confidence            988887  477799999999999999999999999864     46777778888999888888887776642        


Q ss_pred             hHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          161 AYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       161 ~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      -++....++.-.|+.++..+++.+..
T Consensus       404 ~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  404 DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             -HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            25555666677789999988887764

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.06  E-value=0.092  Score=38.61  Aligned_cols=75  Identities=17%  Similarity=0.233  Sum_probs=45.0

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHcCC-CCChhhHHHHHHhccCCCc--------hhhHHHHHHH-HhhcCCCCchHHHH
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVEGE-KPDRHTFSSILSMSSGIVD--------LHLGMQIHQM-VTKTVIPDVPINNA  369 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~--------~~~a~~~~~~-~~~~~~~~~~~~~~  369 (579)
                      ..|..+...+++.....+|+.+.+.|+ .|+..+|+.++.+..+..-        +.....+++. ...+..|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345555666888888888888888888 7888888888876543321        1122223333 44445555555555


Q ss_pred             HHHHh
Q 036340          370 LITMY  374 (579)
Q Consensus       370 l~~~~  374 (579)
                      ++..+
T Consensus       110 vl~~L  114 (120)
T PF08579_consen  110 VLGSL  114 (120)
T ss_pred             HHHHH
Confidence            54444

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.03  E-value=0.39  Score=41.48  Aligned_cols=58  Identities=22%  Similarity=0.261  Sum_probs=30.1

Q ss_pred             HHHHhcCChhhHHHHHccCCCC------CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCC
Q 036340           99 SGFLQNGDVANAIEFFDRMPGR------DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGE  156 (579)
Q Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  156 (579)
                      ..-.+.|++++|.+.|+.+...      ...+...++.++.+.+++++|+..+++.....|..+
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~  105 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHP  105 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCC
Confidence            3344555555555555555432      112333445555566666666666666666543333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.02  E-value=0.061  Score=48.23  Aligned_cols=18  Identities=11%  Similarity=0.217  Sum_probs=10.7

Q ss_pred             HhCCCchHHHHHHHHHHH
Q 036340          306 ETNKDYEGAIKLFIQMQV  323 (579)
Q Consensus       306 ~~~~~~~~a~~~~~~~~~  323 (579)
                      ....+.++|+..+.+-..
T Consensus        17 y~s~~~~~al~~w~~~L~   34 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLE   34 (518)
T ss_pred             hcCchHHHHHHHHHHHHH
Confidence            345666677766665543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=96.00  E-value=0.2  Score=48.32  Aligned_cols=156  Identities=17%  Similarity=0.172  Sum_probs=104.2

Q ss_pred             HHHHcCCCCChHHHHHHHh--hCC-CCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHH
Q 036340           35 GYISSRGSGFLEEARYLFD--IMP-ERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAI  111 (579)
Q Consensus        35 ~~~~~~~~~~~~~A~~~~~--~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  111 (579)
                      .....++   ++++.+..+  ++. .-+..-.+.++..+.+.|..+.|+++...-        ..-.....+.|+++.|.
T Consensus       270 ~av~~~d---~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  270 TAVLRGD---FEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIAL  338 (443)
T ss_dssp             HHHHTT----HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHH
T ss_pred             HHHHcCC---hhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHH
Confidence            3344555   888555544  222 122455788889999999999999876532        33456778899999999


Q ss_pred             HHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCC
Q 036340          112 EFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDR  191 (579)
Q Consensus       112 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  191 (579)
                      ++.++..  ++..|..|.....++|+++-|++.|.+...           +..++-.|...|+.+.-.++.+...     
T Consensus       339 ~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d-----------~~~L~lLy~~~g~~~~L~kl~~~a~-----  400 (443)
T PF04053_consen  339 EIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD-----------FSGLLLLYSSTGDREKLSKLAKIAE-----  400 (443)
T ss_dssp             HHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT------------HHHHHHHHHHCT-HHHHHHHHHHHH-----
T ss_pred             HHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC-----------ccccHHHHHHhCCHHHHHHHHHHHH-----
Confidence            9988765  566899999999999999999999998543           6677778888898888777776664     


Q ss_pred             CCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          192 GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       192 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                         ..|      -++....++.-.|+.++..+++.+.
T Consensus       401 ---~~~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  401 ---ERG------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             ---HTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             ---Hcc------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence               111      2555666677778888887777653

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.98  E-value=0.15  Score=40.82  Aligned_cols=84  Identities=7%  Similarity=-0.051  Sum_probs=44.6

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChH
Q 036340          406 CASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLE  484 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  484 (579)
                      +...|++++|..+|+-+.-.  .| +..-+..|..++-..+++++|+..|.....- . ..|+..+...+.++...|+.+
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~--d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIY--DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHhCCHH
Confidence            34556666666666665532  23 2223344444555566666666666554321 1 123444445566666666666


Q ss_pred             HHHHHHHhC
Q 036340          485 DAMDLIKGM  493 (579)
Q Consensus       485 ~A~~~~~~~  493 (579)
                      .|+..|...
T Consensus       123 ~A~~~f~~a  131 (165)
T PRK15331        123 KARQCFELV  131 (165)
T ss_pred             HHHHHHHHH
Confidence            666666555

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.97  E-value=2.3  Score=43.62  Aligned_cols=306  Identities=9%  Similarity=-0.015  Sum_probs=142.1

Q ss_pred             HHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHh--cCChHHHHHHhhcCC-CCCh-hhHHHHHHHHHhcCCHHHHHHH
Q 036340          211 CYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIH--VLDMEEASNLFVKMP-HPDT-LTWNAMVSGYAQIGNLELALDF  286 (579)
Q Consensus       211 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~  286 (579)
                      ...+.|++..+.++...+.+.-...|.........  ....++....+++-. .|-. ..-...+..+.+.+++.....+
T Consensus        42 ~a~~~g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~  121 (644)
T PRK11619         42 QAWDNRQMDVVEQLMPTLKDYPLYPYLEYRQLTQDLMNQPAVQVTNFIRANPTLPPARSLQSRFVNELARREDWRGLLAF  121 (644)
T ss_pred             HHHHCCCHHHHHHHHHhccCCCcHhHHHHHHHHhccccCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHh
Confidence            34577888888887777753322222222222222  234566666666543 1222 2223334456677888888874


Q ss_pred             HccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH---Hhhc----
Q 036340          287 FKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM---VTKT----  359 (579)
Q Consensus       287 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~~~----  359 (579)
                      +..- ..+...-.....+....|+.++|....+.+-..|.. .......++..+...|........-+.   ...+    
T Consensus       122 ~~~~-p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~~~~~~l  199 (644)
T PRK11619        122 SPEK-PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNACDKLFSVWQQSGKQDPLAYLERIRLAMKAGNTGL  199 (644)
T ss_pred             cCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHH
Confidence            4332 334444455666777788888787777777655533 344555666665544444333222111   1111    


Q ss_pred             -------CCCCch-HHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHH--hcCChHHHHHHHHHhHhCC-CC
Q 036340          360 -------VIPDVP-INNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCA--SHGFATEALELFKSMRSFK-VL  428 (579)
Q Consensus       360 -------~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~A~~~~~~~~~~~-~~  428 (579)
                             .+++.. ....++..+   .+...+...+...  .++...-..++.++.  ...+.+.|...+....... ..
T Consensus       200 A~~l~~~l~~~~~~~a~a~~al~---~~p~~~~~~~~~~--~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~  274 (644)
T PRK11619        200 VTYLAKQLPADYQTIASALIKLQ---NDPNTVETFARTT--GPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLN  274 (644)
T ss_pred             HHHHHHhcChhHHHHHHHHHHHH---HCHHHHHHHhhcc--CCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCC
Confidence                   111100 111111111   1122222222211  112111111222222  2345567777777654322 22


Q ss_pred             CChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCC--CCCHHHHHH
Q 036340          429 PTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPF--EPDKAVWGA  504 (579)
Q Consensus       429 p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~  504 (579)
                      +...  ....+.......+..+++...+......   ..+......-+..-.+.++++.+...+..|+.  .....-.--
T Consensus       275 ~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~~~~~rw~YW  351 (644)
T PRK11619        275 EDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYW  351 (644)
T ss_pred             HHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhhccCHhhHHH
Confidence            2221  2333333223322244555555543211   12334444444444577777777777777631  112233334


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHh
Q 036340          505 LLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      +++++...|+.++|...|+++.
T Consensus       352 ~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        352 QADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHh
Confidence            4555555677777777777764

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.84  E-value=0.016  Score=47.19  Aligned_cols=103  Identities=10%  Similarity=0.074  Sum_probs=67.5

Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCCC---cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhc
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEPR---IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVH  512 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~  512 (579)
                      ..-++..|++++|..-|..++....-.+.   ..+|..-+.++.+.+.++.|+.-..+. .+.| ....+..-..+|.+.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            44677888999998888888754211111   234555566777888888888777665 4444 233444445567777


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      ..+++|++-|+++++.+|....+....+
T Consensus       182 ek~eealeDyKki~E~dPs~~ear~~i~  209 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDPSRREAREAIA  209 (271)
T ss_pred             hhHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            8888888888888888888654444333

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=95.81  E-value=0.089  Score=43.98  Aligned_cols=90  Identities=19%  Similarity=0.231  Sum_probs=70.1

Q ss_pred             CCCeeeHHHHHHHHHh-----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhccc----------------CcHHHHH
Q 036340          393 LKNVVSWNAMIGGCAS-----HGFATEALELFKSMRSFKVLPTYITFISVLSACAHA----------------GLVEEGR  451 (579)
Q Consensus       393 ~~~~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----------------~~~~~a~  451 (579)
                      ..+..+|..++..|.+     .|..+=....++.|.+.|+.-|..+|+.|++.+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            4566667777777764     467777788888999999999999999999987541                2345688


Q ss_pred             HHHHHhHHhhCCCCCcchhHHHHHHhhccCCh
Q 036340          452 QHFKSMVNEYGIEPRIEHFASLVDIVGRHGRL  483 (579)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  483 (579)
                      +++++|.. +|+-||.+++..+++++.+.+..
T Consensus       124 ~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  124 DLLEQMEN-NGVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHH-cCCCCcHHHHHHHHHHhccccHH
Confidence            99999955 49999999999999998777654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.62  E-value=0.023  Score=45.71  Aligned_cols=77  Identities=19%  Similarity=0.294  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchH
Q 036340          124 SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIV  203 (579)
Q Consensus       124 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  203 (579)
                      ....++..+...|++++|...++.+..   ..|.+...|..++.++...|+...|.++|+.+...-.   .+.|+.|+..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~---~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~---~elg~~Ps~~  137 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALA---LDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLR---EELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH---HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH---HHHS----HH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH---HHhCcCcCHH
Confidence            344566777889999999999999998   5677888999999999999999999999988752111   1457788776


Q ss_pred             HHH
Q 036340          204 SWN  206 (579)
Q Consensus       204 ~~~  206 (579)
                      +-.
T Consensus       138 ~~~  140 (146)
T PF03704_consen  138 TRA  140 (146)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.61  E-value=1.4  Score=38.64  Aligned_cols=196  Identities=19%  Similarity=0.180  Sum_probs=124.8

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK----LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLS  439 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  439 (579)
                      ..........+...+.+..+...+....    .......+......+...+++..+...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            4555666677777777777777766653    123334455566666677777888888887775432221 22222223


Q ss_pred             -HhcccCcHHHHHHHHHHhHHhhCCCC----CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHhh
Q 036340          440 -ACAHAGLVEEGRQHFKSMVNEYGIEP----RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD--KAVWGALLGACRV  511 (579)
Q Consensus       440 -~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~--~~~~~~l~~~~~~  511 (579)
                       .+...|+++.+...+.....   ..|    ....+......+...++.+++...+.+. ...++  ...+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             57778888888888887743   222    2333344444466777888888877776 22333  5566667777777


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          512 HNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       512 ~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .++++.|...+..+....|.....+..++..+...|.++++...+.+..+..
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7788888888888888777754556666666666667788877777665433

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.61  E-value=0.11  Score=40.05  Aligned_cols=50  Identities=16%  Similarity=0.232  Sum_probs=32.4

Q ss_pred             CCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHH
Q 036340          426 KVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVD  475 (579)
Q Consensus       426 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  475 (579)
                      ...|+..+..+++.+|+..|++..|.++.+...+.++++-+...|..|.+
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            34566666777777777777777777777777666665555555555544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.56  E-value=0.035  Score=41.69  Aligned_cols=61  Identities=11%  Similarity=-0.066  Sum_probs=54.8

Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCC
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKP  567 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  567 (579)
                      .++...|+.+.|++.|.+++.+-|.++.+|+.-+.++.-+|+.++|+.-+++..+..-+.+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~t  111 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQT  111 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccc
Confidence            4567899999999999999999999999999999999999999999999999876554443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.55  E-value=0.72  Score=43.77  Aligned_cols=150  Identities=11%  Similarity=-0.003  Sum_probs=82.2

Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC---ChhhHHHHHHHhcccCcHHHHHHHHHHhHHh-hCCCCCcchh
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP---TYITFISVLSACAHAGLVEEGRQHFKSMVNE-YGIEPRIEHF  470 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~  470 (579)
                      ...+|..++..+.+.|+++.|...+.++......+   .+.....-+..+-..|+..+|+..++..+.. .....+....
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~~  224 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSISN  224 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhccccccH
Confidence            34567788888888999999998888887543111   2223333344555678888888888877762 1111111111


Q ss_pred             HHHHHHhhccCChHHHHHH-HHhCCCCCCHHHHHHHHHHHhhc------CCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          471 ASLVDIVGRHGRLEDAMDL-IKGMPFEPDKAVWGALLGACRVH------NNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      ..+...+..  ..+..... ........-...+..+...+...      ++.+++...|.++.+..|....+|..++..+
T Consensus       225 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~  302 (352)
T PF02259_consen  225 AELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWALFN  302 (352)
T ss_pred             HHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHHHH
Confidence            111111100  00000000 00000000122333344444344      7889999999999999999888888877766


Q ss_pred             hhc
Q 036340          544 ADV  546 (579)
Q Consensus       544 ~~~  546 (579)
                      .+.
T Consensus       303 ~~~  305 (352)
T PF02259_consen  303 DKL  305 (352)
T ss_pred             HHH
Confidence            544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.47  E-value=0.038  Score=33.27  Aligned_cols=41  Identities=29%  Similarity=0.276  Sum_probs=31.5

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHH
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLI  166 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  166 (579)
                      .++..+...|...|++++|+++|+++++   ..|.+..++..++
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~---~~P~~~~a~~~La   42 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALA---LDPDDPEAWRALA   42 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCcCCHHHHHHhh
Confidence            4567788888899999999999999888   4566666666554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.47  E-value=0.3  Score=47.87  Aligned_cols=114  Identities=18%  Similarity=0.137  Sum_probs=68.4

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCCcchhH-HHHHHhhccCChHHHHHHHHhCC-----CCC-CHHHHHHHHHHHhhcCCHH
Q 036340          444 AGLVEEGRQHFKSMVNEYGIEPRIEHFA-SLVDIVGRHGRLEDAMDLIKGMP-----FEP-DKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~  516 (579)
                      ....+.|.++++.+.++   -|+...|. .-++.+...|+.++|++.+++.-     .++ ....+-.++..+....+++
T Consensus       246 ~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            44566777777777644   35444332 34455666777777777777541     111 2234444556666777888


Q ss_pred             HHHHHHHHHhhcCCCCCCCchhh-hhhhhhcCCc-------hHHHHHHHHHH
Q 036340          517 LAQVAAEALMKVEPENSTPYVLL-YNMYADVGRW-------DDANEVRLLMK  560 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~~~~~~l-~~~~~~~g~~-------~~A~~~~~~~~  560 (579)
                      +|...+.++.+.+.-+...|..+ +-++...|+.       ++|.+++++..
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            88888888877655544433333 3445566777       77777777664

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.41  E-value=0.36  Score=47.34  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=13.5

Q ss_pred             hHHHHHHhccCCCchhhHHHHHHH
Q 036340          332 TFSSILSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       332 ~~~~l~~~~~~~~~~~~a~~~~~~  355 (579)
                      .+..++....-.||-+.+.+.+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~  213 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWE  213 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHH
Confidence            344455555556666666665555

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.40  E-value=3.7  Score=41.93  Aligned_cols=178  Identities=12%  Similarity=0.103  Sum_probs=113.5

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcch
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI  202 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  202 (579)
                      .....-+..+.+...++-|+.+.+.-..   +..........-+..+.+.|++++|...|-+.+.         -+.|. 
T Consensus       335 k~le~kL~iL~kK~ly~~Ai~LAk~~~~---d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~---------~le~s-  401 (933)
T KOG2114|consen  335 KDLETKLDILFKKNLYKVAINLAKSQHL---DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIG---------FLEPS-  401 (933)
T ss_pred             ccHHHHHHHHHHhhhHHHHHHHHHhcCC---CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcc---------cCChH-
Confidence            3455677888888889999888776322   1122223455556667889999999999888761         12332 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCCh-hhHHHHHHHHHhcC
Q 036340          203 VSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDT-LTWNAMVSGYAQIG  278 (579)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~l~~~~~~~g  278 (579)
                          .++.-|........-..+++.+.+.   +...-..|+.+|.+.++.++-.+..+....... .-....+..+.+.+
T Consensus       402 ----~Vi~kfLdaq~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~sn  477 (933)
T KOG2114|consen  402 ----EVIKKFLDAQRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSN  477 (933)
T ss_pred             ----HHHHHhcCHHHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhC
Confidence                2455555555566666666666554   455667789999999999988888877641111 12344556666666


Q ss_pred             CHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHH
Q 036340          279 NLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQM  321 (579)
Q Consensus       279 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  321 (579)
                      -.++|..+-.+... +...   +--.+-..+++++|++.+..+
T Consensus       478 yl~~a~~LA~k~~~-he~v---l~ille~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  478 YLDEAELLATKFKK-HEWV---LDILLEDLHNYEEALRYISSL  516 (933)
T ss_pred             hHHHHHHHHHHhcc-CHHH---HHHHHHHhcCHHHHHHHHhcC
Confidence            67777666555433 2222   223344568899999988765

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.39  E-value=0.63  Score=39.39  Aligned_cols=128  Identities=14%  Similarity=0.176  Sum_probs=57.3

Q ss_pred             hcCChHHHHHHHHHhHhCCCCCChh-----hHHHHHHHhccc-CcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHh
Q 036340          408 SHGFATEALELFKSMRSFKVLPTYI-----TFISVLSACAHA-GLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIV  477 (579)
Q Consensus       408 ~~~~~~~A~~~~~~~~~~~~~p~~~-----~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~  477 (579)
                      +.+++++|...++..++--......     -...+...|... .++++|+..|+..-.=+.....    ..++...+..-
T Consensus        85 kk~~~~eAv~cL~~aieIyt~~Grf~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~ya  164 (288)
T KOG1586|consen   85 KKVDPEEAVNCLEKAIEIYTDMGRFTMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYA  164 (288)
T ss_pred             hccChHHHHHHHHHHHHHHHhhhHHHHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHH
Confidence            4447777777776655311000001     112333344333 5666666666655332211111    12223333334


Q ss_pred             hccCChHHHHHHHHhCC---CCCCHHHHHH---HH--HHH-hhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          478 GRHGRLEDAMDLIKGMP---FEPDKAVWGA---LL--GAC-RVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~~---~~~~~~~~~~---l~--~~~-~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      ...+++.+|+++|++..   ...+..-|..   ++  ..| ....|.-.+...+++-.+++|.-...
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~~~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLCKADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHhcccHHHHHHHHHHHHhcCCccccc
Confidence            45666667777766651   1111111111   11  112 22355555666666666666665544

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.38  E-value=0.26  Score=46.69  Aligned_cols=55  Identities=13%  Similarity=0.120  Sum_probs=28.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      ++.---+..+++.-++.-++..+  +.|+..+...++ +-.......++.+++++.++
T Consensus       174 IMq~AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvk  228 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVK  228 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHH
Confidence            33333445556666666666663  456544222222 22334456666666666554

The molecular function of this protein is uncertain.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.20  E-value=0.31  Score=40.57  Aligned_cols=181  Identities=19%  Similarity=0.184  Sum_probs=102.2

Q ss_pred             cCCHHHHHHHHHhcc-CCCC-eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHH
Q 036340          377 CGAIVEARIIFEEMK-LLKN-VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQH  453 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~  453 (579)
                      .|-+.-|.--|.+.. +.|+ +.+||-+.--+...|+++.|.+.|+...+.  .|... +...-.-++.-.|++.-|.+-
T Consensus        78 lGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq~d  155 (297)
T COG4785          78 LGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQDD  155 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhHHH
Confidence            344444444444332 3454 456888888888899999999999998854  45322 332222345567899888876


Q ss_pred             HHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC-
Q 036340          454 FKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN-  532 (579)
Q Consensus       454 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~-  532 (579)
                      +...-+...-.|-...|..+.   .+.-++.+|..-+.+--...|..-|...+..+.- |... ....++++.....++ 
T Consensus       156 ~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~  230 (297)
T COG4785         156 LLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNT  230 (297)
T ss_pred             HHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchH
Confidence            665544322222223333322   2445667776544332113344445444433321 2111 123344444333332 


Q ss_pred             ------CCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          533 ------STPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       533 ------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                            ..+|..|++-+...|+.++|..+++-.+..++
T Consensus       231 ~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         231 SLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence                  24588899999999999999999987766554

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=95.10  E-value=2.5  Score=38.35  Aligned_cols=19  Identities=16%  Similarity=-0.099  Sum_probs=14.1

Q ss_pred             HHhhcCCHHHHHHHHHHHh
Q 036340          508 ACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~~~~  526 (579)
                      .+.+.++++.|...|+-++
T Consensus       255 ~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  255 KHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHhhcCHHHHHHHHHHHH
Confidence            3567888888888887654

It is also involved in sporulation [].

>PRK09687 putative lyase; Provisional

Probab=95.05  E-value=2.6  Score=38.17  Aligned_cols=135  Identities=9%  Similarity=0.032  Sum_probs=70.6

Q ss_pred             cchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcC-ChHHHHHHhhcCC-CCChhhHHHHHHHHHhc
Q 036340          200 RNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVL-DMEEASNLFVKMP-HPDTLTWNAMVSGYAQI  277 (579)
Q Consensus       200 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~  277 (579)
                      ++..+-...+.++.+.++.+....+..-+.++|...-...+.++...+ +...+...+..+. .++..+-...+.++.+.
T Consensus       140 ~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~  219 (280)
T PRK09687        140 KSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIGLALR  219 (280)
T ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHcc
Confidence            355555666666666666443333333333445554444555555442 1334444444443 56666777777777777


Q ss_pred             CCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHh
Q 036340          278 GNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSM  339 (579)
Q Consensus       278 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  339 (579)
                      |+..-...+.+.+..++  .....+.++...|+. +|+..+..+.+.  .||..+-...+.+
T Consensus       220 ~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a  276 (280)
T PRK09687        220 KDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDK  276 (280)
T ss_pred             CChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHH
Confidence            77443333333333333  233455666666664 577777776653  2354444444433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.04  E-value=5.9  Score=42.32  Aligned_cols=117  Identities=10%  Similarity=0.129  Sum_probs=60.9

Q ss_pred             HHHHHHccCCHHHHHHHhhcCC-------CCchhhHHHHHHHHHhc-CChhhHHHHHccCCCCCcc--hHH----HHHHH
Q 036340           66 VISGYAKTGEMEEALRLFNSMP-------ARNVVSWNAMISGFLQN-GDVANAIEFFDRMPGRDSA--SLS----ALVSG  131 (579)
Q Consensus        66 l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~--~~~----~l~~~  131 (579)
                      .+.-++.+++|.+|..+.++-.       +-++..+..-+.++.+. ++.+--..++..+.+.|..  .|.    .-...
T Consensus       683 ~vr~~l~~~~y~~AF~~~RkhRidlnii~d~~~~~Fl~nv~afl~~in~~~~l~lfl~~lk~eDvtk~~y~~~~~s~k~~  762 (1265)
T KOG1920|consen  683 KVRTLLDRLRYKEAFEVMRKHRIDLNIIFDYDPKRFLKNVPAFLKQINRVNHLELFLTELKEEDVTKTMYSSTSGSGKQV  762 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCccchhhcCHHHHHhhHHHHhccCCcHHHHHHHHhhcccchhhhhhcccccccccee
Confidence            3445567788999988877654       33444455555566655 3344444444444432221  111    11111


Q ss_pred             HHhC----CCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCC--CHHHHHHHHcccc
Q 036340          132 LIQN----GELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRG--RVEEARKLFDKIP  186 (579)
Q Consensus       132 ~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~  186 (579)
                      |...    .+.+..-+.++....   ...|+ .....++.+|.+.+  ..+.++....+..
T Consensus       763 ~~~r~~~d~kv~~vc~~vr~~l~---~~~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~  819 (1265)
T KOG1920|consen  763 YMSRDPYDNKVNSVCDAVRNALE---RRAPD-KFNLFILTSYVKSNPPEIEEALQKIKELQ  819 (1265)
T ss_pred             EEeccchhhHHHHHHHHHHHHHh---hcCcc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            1111    233344444444444   23443 45567788888877  6777777776664

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.96  E-value=1.2  Score=42.48  Aligned_cols=102  Identities=14%  Similarity=0.136  Sum_probs=69.8

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCC--CCCH--HHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPF--EPDK--AVWGALLGA  508 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~--~~~~~l~~~  508 (579)
                      +-..+..++-+.|+.++|++.+++++++........+...|++++...+.+.++..++.+...  -|..  ..|...+-.
T Consensus       261 ~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  261 AKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             hHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            334566677889999999999999987643333456778899999999999999999998842  2333  344443322


Q ss_pred             HhhcCC---------------HHHHHHHHHHHhhcCCCCCC
Q 036340          509 CRVHNN---------------VELAQVAAEALMKVEPENST  534 (579)
Q Consensus       509 ~~~~~~---------------~~~A~~~~~~~~~~~p~~~~  534 (579)
                      ....+|               -..|.+.+.++.+.+|--+.
T Consensus       341 aRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  341 ARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             HHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            222222               13466788888888876543

The molecular function of this protein is uncertain.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.95  E-value=2.5  Score=44.94  Aligned_cols=110  Identities=18%  Similarity=0.180  Sum_probs=50.2

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      |...+..+...+.+++|.-.|+..-+           ...-+.+|...|+|.+|..+..++..         +-..-..+
T Consensus       942 ~~~ya~hL~~~~~~~~Aal~Ye~~Gk-----------lekAl~a~~~~~dWr~~l~~a~ql~~---------~~de~~~~ 1001 (1265)
T KOG1920|consen  942 YEAYADHLREELMSDEAALMYERCGK-----------LEKALKAYKECGDWREALSLAAQLSE---------GKDELVIL 1001 (1265)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHhcc-----------HHHHHHHHHHhccHHHHHHHHHhhcC---------CHHHHHHH
Confidence            33444444555555555555555432           12234455556666666666655530         00000111


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhc
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVK  258 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (579)
                      -..|+.-+...++.-+|-++..+....-..    .+..+++...+++|+++-..
T Consensus      1002 a~~L~s~L~e~~kh~eAa~il~e~~sd~~~----av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1002 AEELVSRLVEQRKHYEAAKILLEYLSDPEE----AVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHHHcccchhHHHHHHHHhcCHHH----HHHHHhhHhHHHHHHHHHHh
Confidence            134555555556555555555554433222    22233344445555544443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.92  E-value=0.71  Score=41.31  Aligned_cols=118  Identities=14%  Similarity=-0.022  Sum_probs=67.7

Q ss_pred             HhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHH
Q 036340          133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCY  212 (579)
Q Consensus       133 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  212 (579)
                      --.|+..+|-..++++++   ..|.+..++...=.+|.-.|+.+.-...++++...=     ..++|-...+...+.-++
T Consensus       114 ~~~g~~h~a~~~wdklL~---d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w-----n~dlp~~sYv~GmyaFgL  185 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLD---DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW-----NADLPCYSYVHGMYAFGL  185 (491)
T ss_pred             hccccccHHHHHHHHHHH---hCchhhhhhhhhhhHHHhccchhhhhhHHHHhcccc-----CCCCcHHHHHHHHHHhhH
Confidence            346777777777777777   556666667666677777777777777777765110     111121222222333445


Q ss_pred             HhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhc
Q 036340          213 AKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVK  258 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~  258 (579)
                      ...|-+++|++.-++.++-   |..+-.+....+...|++.++.+...+
T Consensus       186 ~E~g~y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  186 EECGIYDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHhccchhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            5677777777777777654   333334444444445555555544443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.89  E-value=0.047  Score=30.54  Aligned_cols=31  Identities=16%  Similarity=0.108  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      +|..+...+...|++++|...|+++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            5667777788888888888888888888874

...

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.84  E-value=2.4  Score=36.81  Aligned_cols=239  Identities=15%  Similarity=0.210  Sum_probs=128.5

Q ss_pred             CCHHHHHHHHccCCC--C-----ChhhHHHHHHHHHhCCCchHHHHHHHHHHH---cCC--CCChhhHHHHHHhccCCCc
Q 036340          278 GNLELALDFFKRMPQ--K-----NLVSWNSMIAGCETNKDYEGAIKLFIQMQV---EGE--KPDRHTFSSILSMSSGIVD  345 (579)
Q Consensus       278 g~~~~A~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~~~  345 (579)
                      .++++|+.-|.++.+  +     ...+...++..+.+.|++++.+..|.++..   +.+  .-+..+.+.++.-.....+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            456667666666553  1     122445566777777777777777777642   111  1234455666665555566


Q ss_pred             hhhHHHHHHH-Hh--h---cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CC-C----C-------eeeHHHHHHH
Q 036340          346 LHLGMQIHQM-VT--K---TVIPDVPINNALITMYARCGAIVEARIIFEEMK--LL-K----N-------VVSWNAMIGG  405 (579)
Q Consensus       346 ~~~a~~~~~~-~~--~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~-~----~-------~~~~~~l~~~  405 (579)
                      .+.-..+++. ..  +   ....--.+-..+...|...+.+.+-.++++++.  .+ .    |       ...|..=|..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            5555555544 11  1   111111233567778888888888888888774  00 0    1       2246666777


Q ss_pred             HHhcCChHHHHHHHHHhHhCC-CCCChhhHHHHHHHh-----cccCcHHHHHHHHHHhHHhhCC--CCCc---chhHHHH
Q 036340          406 CASHGFATEALELFKSMRSFK-VLPTYITFISVLSAC-----AHAGLVEEGRQHFKSMVNEYGI--EPRI---EHFASLV  474 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~~~--~~~~---~~~~~l~  474 (579)
                      |....+-.+-..++++...-. --|.+... .+++-|     .+.|.+++|-.=|-++.+.+.-  .|..   --|..|+
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            877777777777777765322 22433333 334433     4678888876544444443221  2221   2245566


Q ss_pred             HHhhccCC----hHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Q 036340          475 DIVGRHGR----LEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       475 ~~~~~~g~----~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      .++.+.|-    .++|.    -....|.......++.+| +.++..+-++++
T Consensus       280 NMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aY-Q~NdI~eFE~Il  326 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAY-QNNDIIEFERIL  326 (440)
T ss_pred             HHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHH-hcccHHHHHHHH
Confidence            66666651    12221    012345555667777777 344544443333

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.76  E-value=1.9  Score=36.63  Aligned_cols=78  Identities=10%  Similarity=0.139  Sum_probs=46.9

Q ss_pred             HHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhC-CCHHHHHHHHHHhccCCCCCCCch---hhHHHHHHHHhhCC
Q 036340           98 ISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQN-GELDEAARVLVKCGSRCDGGEDLV---RAYNTLIVGYGQRG  173 (579)
Q Consensus        98 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g  173 (579)
                      |..|...|++..|-....           .+...|-.. .+++.|+..|+.+-+-..+...+.   ..+..+...-...+
T Consensus       100 ieIyt~~Grf~~aAk~~~-----------~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~le  168 (288)
T KOG1586|consen  100 IEIYTDMGRFTMAAKHHI-----------EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLE  168 (288)
T ss_pred             HHHHHhhhHHHHHHhhhh-----------hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHH
Confidence            455666666655544322           344444433 667777777777654332322222   23445555566788


Q ss_pred             CHHHHHHHHcccc
Q 036340          174 RVEEARKLFDKIP  186 (579)
Q Consensus       174 ~~~~A~~~~~~~~  186 (579)
                      ++.+|+++|+++.
T Consensus       169 qY~~Ai~iyeqva  181 (288)
T KOG1586|consen  169 QYSKAIDIYEQVA  181 (288)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999986

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.76  E-value=1.5  Score=37.58  Aligned_cols=51  Identities=16%  Similarity=0.206  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHccCCC-------CChhhHHHHHHHHHhCCCchHHHHHH
Q 036340          267 WNAMVSGYAQIGNLELALDFFKRMPQ-------KNLVSWNSMIAGCETNKDYEGAIKLF  318 (579)
Q Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~a~~~~  318 (579)
                      |...+-.+.-..++..|...++.-.+       .+..+...|+.+| ..||.+.+..++
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            33444445555666777777666332       2344555566555 345555544443

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=94.75  E-value=0.35  Score=37.29  Aligned_cols=54  Identities=15%  Similarity=0.114  Sum_probs=42.1

Q ss_pred             CCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHh
Q 036340          154 GGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK  214 (579)
Q Consensus       154 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  214 (579)
                      ...|+.....+++.+|+..|++..|.++++....       ..+++-+...|..|++-...
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~-------~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR-------KYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH-------HcCCCCCHHHHHHHHHHHHH
Confidence            4567788899999999999999999999988863       33566677888888875443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.72  E-value=0.29  Score=41.62  Aligned_cols=167  Identities=13%  Similarity=0.135  Sum_probs=83.5

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      |..-..+|....++++|...+.++.+   +...+...|       .....++.|.-+.+++.          .++.-...
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~~---~yEnnrslf-------hAAKayEqaamLake~~----------klsEvvdl   93 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKASK---GYENNRSLF-------HAAKAYEQAAMLAKELS----------KLSEVVDL   93 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHH---HHHhcccHH-------HHHHHHHHHHHHHHHHH----------HhHHHHHH
Confidence            44455666677778888777777664   222222111       12233445555555553          11222334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCC---------CCChhhHHHHHHHHH
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMP---------HPDTLTWNAMVSGYA  275 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---------~~~~~~~~~l~~~~~  275 (579)
                      ++-....|..+|.++.|-..+++.-+            ....-++++|+++|++..         +.-...+..+.+.+.
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lV  161 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLV  161 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhh
Confidence            45555667777777666555554311            122234445555554433         011123444556666


Q ss_pred             hcCCHHHHHHHHccCCC--------CCh-hhHHHHHHHHHhCCCchHHHHHHHHHHH
Q 036340          276 QIGNLELALDFFKRMPQ--------KNL-VSWNSMIAGCETNKDYEGAIKLFIQMQV  323 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~~--------~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~  323 (579)
                      +..++++|-..|.+-..        ++. ..|-..|-.+.-..|+..|...++.-.+
T Consensus       162 rl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~q  218 (308)
T KOG1585|consen  162 RLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQ  218 (308)
T ss_pred             hhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhc
Confidence            66666666655554332        111 1244445555556677777777766433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.54  E-value=1.9  Score=34.24  Aligned_cols=126  Identities=17%  Similarity=0.228  Sum_probs=80.6

Q ss_pred             HHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHH
Q 036340          162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMIS  241 (579)
Q Consensus       162 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~  241 (579)
                      ...++..+...+.......+++.+.        ..+ ..+...++.++..|++.+ ..+..+.+..  ..+......++.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~--------~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~   77 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESAL--------KLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGK   77 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH--------ccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHH
Confidence            3467777777888999999999987        333 356778889999998764 4455555552  234455556777


Q ss_pred             HHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhc-CCHHHHHHHHccCCCCChhhHHHHHHHHH
Q 036340          242 GYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQI-GNLELALDFFKRMPQKNLVSWNSMIAGCE  306 (579)
Q Consensus       242 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~l~~~~~  306 (579)
                      .|.+.+-++++.-++.++..     +...+..+... ++++.|.+++.+.  .++..|..++..+.
T Consensus        78 ~c~~~~l~~~~~~l~~k~~~-----~~~Al~~~l~~~~d~~~a~~~~~~~--~~~~lw~~~~~~~l  136 (140)
T smart00299       78 LCEKAKLYEEAVELYKKDGN-----FKDAIVTLIEHLGNYEKAIEYFVKQ--NNPELWAEVLKALL  136 (140)
T ss_pred             HHHHcCcHHHHHHHHHhhcC-----HHHHHHHHHHcccCHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            77777777777777766531     11222333333 6677777777653  34556666665554

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.51  E-value=2.1  Score=34.54  Aligned_cols=119  Identities=12%  Similarity=0.063  Sum_probs=73.2

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH-----HHHHHhhc
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA-----SLVDIVGR  479 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~  479 (579)
                      +.+.+..++|+.-|..+.+.|...=+. ..........+.|+...|...|.++-..   .|.+....     .-+..+..
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~ARlraa~lLvD  144 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLARLRAAYLLVD  144 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHHHHHHHHHHhc
Confidence            345666788888888887766433222 2222233456778888888888887644   23222222     22334667


Q ss_pred             cCChHHHHHHHHhCCC--CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          480 HGRLEDAMDLIKGMPF--EP-DKAVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       480 ~g~~~~A~~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      .|.+++....++-+..  .| ....-..|.-+-.+.|++.+|...|.++..
T Consensus       145 ~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         145 NGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            8888888777777632  23 233445566666788888888888887765

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.49  E-value=3.8  Score=37.43  Aligned_cols=123  Identities=10%  Similarity=0.086  Sum_probs=62.6

Q ss_pred             HHHhccCCCchhhHHHHHHH-Hhhc-----CCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-----C-CCCeee-H---
Q 036340          336 ILSMSSGIVDLHLGMQIHQM-VTKT-----VIPDVPINNALITMYARCGAIVEARIIFEEMK-----L-LKNVVS-W---  399 (579)
Q Consensus       336 l~~~~~~~~~~~~a~~~~~~-~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~-~~~~~~-~---  399 (579)
                      +..++...+.++++.+.|+. .+..     ......++..|...|.+..++++|.-+....-     . ..|... |   
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~  207 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAM  207 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHH
Confidence            33444445555555555444 1111     11133456677777777777777665554431     0 111111 1   


Q ss_pred             --HHHHHHHHhcCChHHHHHHHHHhH----hCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          400 --NAMIGGCASHGFATEALELFKSMR----SFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       400 --~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                        ..+..++...|..-.|.+.-++..    ..|-+|... ....+.+.|...|+.+.|..-|+.+.
T Consensus       208 ~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  208 SLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence              123344555666655555554433    334333322 45556667777777777777776654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.33  E-value=0.46  Score=38.06  Aligned_cols=127  Identities=11%  Similarity=0.092  Sum_probs=88.0

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHhCC-CCCCHHHHHHHH----
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKGMP-FEPDKAVWGALL----  506 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~----  506 (579)
                      .|..-+. +.+.+..++|+.-|..+.+. |...- +-.....+......|+...|...|.+.. ..|.+.....+.    
T Consensus        61 ~flaAL~-lA~~~k~d~Alaaf~~lekt-g~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlra  138 (221)
T COG4649          61 AFLAALK-LAQENKTDDALAAFTDLEKT-GYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRA  138 (221)
T ss_pred             HHHHHHH-HHHcCCchHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHH
Confidence            4444333 45678889999999988654 43321 1122234456778999999999999983 333333332222    


Q ss_pred             -HHHhhcCCHHHHHHHHHHHh-hcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          507 -GACRVHNNVELAQVAAEALM-KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       507 -~~~~~~~~~~~A~~~~~~~~-~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                       ..+...|-++....-.+-+- ..+|-...+-..|+.+-.+.|++.+|...|..+..
T Consensus       139 a~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         139 AYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence             33567888888777766654 45676667788999999999999999999999875

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.33  E-value=0.07  Score=30.37  Aligned_cols=25  Identities=20%  Similarity=0.046  Sum_probs=14.7

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          502 WGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      |..+..+|.+.|++++|+.+|++++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666666666666666666644

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.32  E-value=1.1  Score=37.00  Aligned_cols=93  Identities=11%  Similarity=0.064  Sum_probs=64.5

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCCCc----chhHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHhh
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEPRI----EHFASLVDIVGRHGRLEDAMDLIKGMPFEP-DKAVWGALLGACRV  511 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~  511 (579)
                      +...+...|++++|...++..+..   +.|.    ..-..|+......|.+++|+..++....+. .......-..++..
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~  171 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLA  171 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHH
Confidence            334677888999998888876532   2221    223456778888999999999998764221 22233444577888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCC
Q 036340          512 HNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       512 ~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      .|+.++|+..|+++++..+++
T Consensus       172 kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         172 KGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             cCchHHHHHHHHHHHHccCCh
Confidence            999999999999999877543

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.97  E-value=8.1  Score=39.30  Aligned_cols=160  Identities=16%  Similarity=0.147  Sum_probs=89.4

Q ss_pred             HHHHHccCCHHHHHHHhhcCCC--C---chhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHH
Q 036340           67 ISGYAKTGEMEEALRLFNSMPA--R---NVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEA  141 (579)
Q Consensus        67 ~~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  141 (579)
                      ++.+.+.+.+++|+.+.+....  +   -...+..+|..+...|+++.|-...-.|...+..-|...+..+...++....
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~I  442 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDI  442 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchh
Confidence            4555677888888888776652  2   1235666777888888888888888887777777777777777666665443


Q ss_pred             HHHHHHhccCCCCCC-CchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCC-----CCccC---CcchHHHHHHHHHH
Q 036340          142 ARVLVKCGSRCDGGE-DLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGE-----GNVRF---KRNIVSWNSMIMCY  212 (579)
Q Consensus       142 ~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~---~~~~~~~~~l~~~~  212 (579)
                      ..++-.      +++ .+...|..++..+.. .+...-.++............     -...+   .-+......|+..|
T Consensus       443 a~~lPt------~~~rL~p~vYemvLve~L~-~~~~~F~e~i~~Wp~~Lys~l~iisa~~~q~~q~Se~~~L~e~La~LY  515 (846)
T KOG2066|consen  443 APYLPT------GPPRLKPLVYEMVLVEFLA-SDVKGFLELIKEWPGHLYSVLTIISATEPQIKQNSESTALLEVLAHLY  515 (846)
T ss_pred             hccCCC------CCcccCchHHHHHHHHHHH-HHHHHHHHHHHhCChhhhhhhHHHhhcchHHHhhccchhHHHHHHHHH
Confidence            333221      222 344567777766665 333333333332210000000     00000   11122333466677


Q ss_pred             HhcCCHHHHHHHHHhcCCCCh
Q 036340          213 AKAGDVVSAREIFEQMLERDT  233 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~~~~~~  233 (579)
                      ...++++.|+.++-...+.+.
T Consensus       516 l~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  516 LYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             HHccChHHHHHHHHhccChHH
Confidence            777777777777766655543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.80  E-value=0.12  Score=46.14  Aligned_cols=90  Identities=13%  Similarity=0.115  Sum_probs=45.4

Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhCC-C-CCCHHHHHHHHHHHhhcCCHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMP-F-EPDKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~  516 (579)
                      -|+++|.+++|+.+|...+   ...| ++.++..-+.+|.+..++..|..-+..+- . +.-...|..-+.+-...|+..
T Consensus       106 ~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            3555666666666665544   3344 55555555555556555555554443331 0 111223333333333455666


Q ss_pred             HHHHHHHHHhhcCCCC
Q 036340          517 LAQVAAEALMKVEPEN  532 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~  532 (579)
                      +|.+-++.++.+.|++
T Consensus       183 EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  183 EAKKDCETVLALEPKN  198 (536)
T ss_pred             HHHHhHHHHHhhCccc
Confidence            6666666666666664

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.73  E-value=0.4  Score=39.37  Aligned_cols=93  Identities=13%  Similarity=0.121  Sum_probs=62.2

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhCCCCCCh-----hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHH
Q 036340          403 IGGCASHGFATEALELFKSMRSFKVLPTY-----ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDI  476 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~  476 (579)
                      ..-+...|++++|..-|...+.. +++..     +.|..-..++.+.+.++.|+.-..+.+   .+.|+ ......-+.+
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKai---el~pty~kAl~RRAea  177 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAI---ELNPTYEKALERRAEA  177 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhH---hcCchhHHHHHHHHHH
Confidence            34577888999999888888864 33322     234444456778888888888777666   33452 2333445677


Q ss_pred             hhccCChHHHHHHHHhC-CCCCCH
Q 036340          477 VGRHGRLEDAMDLIKGM-PFEPDK  499 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~-~~~~~~  499 (579)
                      |.+...+++|+.-|+++ ...|..
T Consensus       178 yek~ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  178 YEKMEKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             HHhhhhHHHHHHHHHHHHHhCcch
Confidence            88888888888888877 445543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.69  E-value=0.053  Score=30.89  Aligned_cols=25  Identities=20%  Similarity=0.147  Sum_probs=21.8

Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHH
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      |..|+.+|.+.|+|++|.+++++..
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6789999999999999999999854

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.54  E-value=3.1  Score=36.19  Aligned_cols=255  Identities=15%  Similarity=0.142  Sum_probs=146.8

Q ss_pred             CccCCcchHHHHHHHHH-HHhcCCHHHHHHHHHhcCCC-------ChhHHHHHHHHHHhcCChHHHHHHhhcCC------
Q 036340          195 NVRFKRNIVSWNSMIMC-YAKAGDVVSAREIFEQMLER-------DTFSWNTMISGYIHVLDMEEASNLFVKMP------  260 (579)
Q Consensus       195 ~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------  260 (579)
                      +.+-.||+..-|..-+. -.+..++++|+.-|+++++-       ...+...++....+.+++++....+.+++      
T Consensus        19 ds~sEpdVDlENQYYnsK~l~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSA   98 (440)
T KOG1464|consen   19 DSNSEPDVDLENQYYNSKGLKEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSA   98 (440)
T ss_pred             ccCCCCCcchHhhhhccccccccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHH
Confidence            34557776665543322 12445889999999988652       23456677899999999999999999887      


Q ss_pred             ---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC-----CChh----hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCC
Q 036340          261 ---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ-----KNLV----SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKP  328 (579)
Q Consensus       261 ---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  328 (579)
                         .-+....+++++.-+.+.+.+.-..+|+.-.+     .|..    +-..|...|...|++.+..++++++.++-...
T Consensus        99 VTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~e  178 (440)
T KOG1464|consen   99 VTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTE  178 (440)
T ss_pred             HhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccc
Confidence               23445667777766666666666666554332     2222    33457777888888888888888876442111


Q ss_pred             C-----------hhhHHHHHHhccCCCchhhHHHHHHH--HhhcCCCCchHHHHHH----HHhhhcCCHHHHHH-HHHhc
Q 036340          329 D-----------RHTFSSILSMSSGIVDLHLGMQIHQM--VTKTVIPDVPINNALI----TMYARCGAIVEARI-IFEEM  390 (579)
Q Consensus       329 ~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~--~~~~~~~~~~~~~~l~----~~~~~~~~~~~A~~-~~~~~  390 (579)
                      +           ...|..-+..|....+-..-..+++.  ..+...|.+.+...+-    .++.+.|.+++|.. +|+..
T Consensus       179 dGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAF  258 (440)
T KOG1464|consen  179 DGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAF  258 (440)
T ss_pred             cCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHH
Confidence            1           23455556666666666666666666  3344445554443332    34556778887754 33333


Q ss_pred             c-----CCCCeee---HHHHHHHHHhcCC--hHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHH
Q 036340          391 K-----LLKNVVS---WNAMIGGCASHGF--ATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFK  455 (579)
Q Consensus       391 ~-----~~~~~~~---~~~l~~~~~~~~~--~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  455 (579)
                      +     -.|...+   |..|...+.+.|=  ++.     ++..--.-.|.......++.+|.. ++..+-.+++.
T Consensus       259 KNYDEsGspRRttCLKYLVLANMLmkS~iNPFDs-----QEAKPyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~  327 (440)
T KOG1464|consen  259 KNYDESGSPRRTTCLKYLVLANMLMKSGINPFDS-----QEAKPYKNDPEILAMTNLVAAYQN-NDIIEFERILK  327 (440)
T ss_pred             hcccccCCcchhHHHHHHHHHHHHHHcCCCCCcc-----cccCCCCCCHHHHHHHHHHHHHhc-ccHHHHHHHHH
Confidence            3     1222222   4445555555441  110     001111123445567777777754 44444444443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=93.49  E-value=19  Score=42.01  Aligned_cols=309  Identities=10%  Similarity=0.052  Sum_probs=155.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhc----CCCC--hhHHHHHHHHHHhcCChHHHHHHhhc-CCCCChhhHHHHHHHHHhcCC
Q 036340          207 SMIMCYAKAGDVVSAREIFEQM----LERD--TFSWNTMISGYIHVLDMEEASNLFVK-MPHPDTLTWNAMVSGYAQIGN  279 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~----~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~g~  279 (579)
                      .+..+-.+++.+..|.-.++.-    .+.+  ..-+..+...|...+++++...+... ...|+  .+. -+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s--l~~-qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS--LYQ-QILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc--HHH-HHHHHHhhcc
Confidence            5666778899999999999883    2222  22344555589999999888877763 32333  222 2344567899


Q ss_pred             HHHHHHHHccCCC--CC-hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHH-HHhccCCCchhhHHHHHHH
Q 036340          280 LELALDFFKRMPQ--KN-LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSI-LSMSSGIVDLHLGMQIHQM  355 (579)
Q Consensus       280 ~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~  355 (579)
                      ++.|...|+.+.+  |+ ..+++.++......|.++.++...+-.... ..+....++.. ..+.-+.++++....... 
T Consensus      1465 ~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~- 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS- 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh-
Confidence            9999999999987  33 557888887777778887777654443322 12222222221 122234555555444433 


Q ss_pred             HhhcCCCCchHHHHHHHHhhhcCC---HH--HHHHHHHhccCCC---------CeeeHHHHHHHHHhcCChHHHHHHHHH
Q 036340          356 VTKTVIPDVPINNALITMYARCGA---IV--EARIIFEEMKLLK---------NVVSWNAMIGGCASHGFATEALELFKS  421 (579)
Q Consensus       356 ~~~~~~~~~~~~~~l~~~~~~~~~---~~--~A~~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~  421 (579)
                        .+...+-.+. .++....+..+   +.  +..+..++....|         -...|..++....-.. .+.   ..+.
T Consensus      1543 --~~n~e~w~~~-~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e-l~~---~~~~ 1615 (2382)
T KOG0890|consen 1543 --DRNIEYWSVE-SIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE-LEN---SIEE 1615 (2382)
T ss_pred             --cccccchhHH-HHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-HHH---HHHH
Confidence              1111111111 02222222111   11  1111111111000         0112333333222111 111   1111


Q ss_pred             hHhCCCCCChh------hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-----cchhHHHHHHhhccCChHHHHHHH
Q 036340          422 MRSFKVLPTYI------TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-----IEHFASLVDIVGRHGRLEDAMDLI  490 (579)
Q Consensus       422 ~~~~~~~p~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~  490 (579)
                      ..  +..++..      -|..-+.--....+..+-+-.+++..-....+|+     .++|...++.-...|+++.|...+
T Consensus      1616 l~--~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nal 1693 (2382)
T KOG0890|consen 1616 LK--KVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNAL 1693 (2382)
T ss_pred             hh--ccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHH
Confidence            11  2222221      1111111111111111211112222111122322     467788888888899999998876


Q ss_pred             HhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          491 KGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       491 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      -++...--+..+...+..+...|+...|+.++++.++.+
T Consensus      1694 l~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1694 LNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            665322244566667777889999999999999998643

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.36  E-value=0.43  Score=37.29  Aligned_cols=53  Identities=17%  Similarity=0.095  Sum_probs=33.0

Q ss_pred             hcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          511 VHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ..++.+++..++..+.-+.|+.+..-..-++.+...|+|++|..+++++.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            35666666666666666666666655566666666666666666666655444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.32  E-value=0.36  Score=38.50  Aligned_cols=71  Identities=18%  Similarity=0.106  Sum_probs=40.5

Q ss_pred             hccCChHHHHHHHHhC-CCCCCHHHHHHH-HHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          478 GRHGRLEDAMDLIKGM-PFEPDKAVWGAL-LGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~~~~~~~~l-~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      .+.++.+++..++..+ ...|.......+ ...+...|++.+|+.+++.+.+-.|..+..-..++.++...|+
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            3566677777766666 234443333222 2335566777777777777666666665544555555555554

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.22  E-value=3.5  Score=32.72  Aligned_cols=123  Identities=20%  Similarity=0.225  Sum_probs=64.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHhhcCCC---CchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHH
Q 036340           63 WNTVISGYAKTGEMEEALRLFNSMPA---RNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELD  139 (579)
Q Consensus        63 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  139 (579)
                      ...++..+...+.......+++.+..   .++..++.++..|++. +..+..+.++.  ..+......++..+.+.+-++
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~-~~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~   86 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKY-DPQKEIERLDN--KSNHYDIEKVGKLCEKAKLYE   86 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHH-CHHHHHHHHHh--ccccCCHHHHHHHHHHcCcHH
Confidence            34555555555666666666665542   2334555666666554 23344444442  223344455666666666666


Q ss_pred             HHHHHHHHhccCCCCCCCchhhHHHHHHHHhhC-CCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHH
Q 036340          140 EAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR-GRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYA  213 (579)
Q Consensus       140 ~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  213 (579)
                      ++.-++.++..           +...+..+... ++++.|.++..+..              +...|..++..+.
T Consensus        87 ~~~~l~~k~~~-----------~~~Al~~~l~~~~d~~~a~~~~~~~~--------------~~~lw~~~~~~~l  136 (140)
T smart00299       87 EAVELYKKDGN-----------FKDAIVTLIEHLGNYEKAIEYFVKQN--------------NPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHhhcC-----------HHHHHHHHHHcccCHHHHHHHHHhCC--------------CHHHHHHHHHHHH
Confidence            66666665422           22233333333 66777777666532              3446666665554

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.11  E-value=0.075  Score=29.75  Aligned_cols=32  Identities=31%  Similarity=0.231  Sum_probs=25.2

Q ss_pred             HHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHH
Q 036340          145 LVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEAR  179 (579)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  179 (579)
                      |+++++   ..|.+..+|+.++..+...|++++|+
T Consensus         2 y~kAie---~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIE---LNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHH---HCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            344555   55778889999999999999998886

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=93.08  E-value=1.8  Score=40.97  Aligned_cols=93  Identities=15%  Similarity=0.161  Sum_probs=48.7

Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~  517 (579)
                      .+...|.++.+...+.....  -+-....+...++......|++++|...-..| +.+ .++.............|-+++
T Consensus       332 i~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~  409 (831)
T PRK15180        332 IFSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDK  409 (831)
T ss_pred             HHHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHH
Confidence            34556666666666655432  22233445555566666666666666666555 211 133333322333344556666


Q ss_pred             HHHHHHHHhhcCCCCCC
Q 036340          518 AQVAAEALMKVEPENST  534 (579)
Q Consensus       518 A~~~~~~~~~~~p~~~~  534 (579)
                      +...|++++.++|....
T Consensus       410 ~~~~wk~~~~~~~~~~~  426 (831)
T PRK15180        410 SYHYWKRVLLLNPETQS  426 (831)
T ss_pred             HHHHHHHHhccCChhcc
Confidence            66666666666654433

>PRK09687 putative lyase; Provisional

Probab=92.80  E-value=7.3  Score=35.30  Aligned_cols=215  Identities=10%  Similarity=0.054  Sum_probs=98.8

Q ss_pred             CCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh----hhHHHHHccC--CCCCcchHHHHH
Q 036340           56 PERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDV----ANAIEFFDRM--PGRDSASLSALV  129 (579)
Q Consensus        56 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~A~~~~~~~--~~~~~~~~~~l~  129 (579)
                      ..+|..+....+..+...|..+-...+..-...+|+..-..-+.++...|+.    .++...+..+  ..++...-...+
T Consensus        33 ~d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~~A~  112 (280)
T PRK09687         33 DDHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRASAI  112 (280)
T ss_pred             hCCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHHHHH
Confidence            3455555555555565555443333333323345555555555555555542    3455555543  223444444444


Q ss_pred             HHHHhCCC-----HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          130 SGLIQNGE-----LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       130 ~~~~~~g~-----~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      .++...+.     ...+...+.....     .++..+-...+.++.+.|+. .+...+-.+.        .   .++..+
T Consensus       113 ~aLG~~~~~~~~~~~~a~~~l~~~~~-----D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L--------~---d~~~~V  175 (280)
T PRK09687        113 NATGHRCKKNPLYSPKIVEQSQITAF-----DKSTNVRFAVAFALSVINDE-AAIPLLINLL--------K---DPNGDV  175 (280)
T ss_pred             HHHhcccccccccchHHHHHHHHHhh-----CCCHHHHHHHHHHHhccCCH-HHHHHHHHHh--------c---CCCHHH
Confidence            44443321     1223333333322     22334445555666666653 3444444443        1   334444


Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHhc-CCCChhHHHHHHHHHHhcCChHHHHHHhhcCC-CCChhhHHHHHHHHHhcCCHH
Q 036340          205 WNSMIMCYAKAG-DVVSAREIFEQM-LERDTFSWNTMISGYIHVLDMEEASNLFVKMP-HPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       205 ~~~l~~~~~~~~-~~~~A~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      -...+.++.+.+ +...+...+..+ .+++...-...+.++.+.|+.. |+..+-... .++  .....+.++.+.|.. 
T Consensus       176 R~~A~~aLg~~~~~~~~~~~~L~~~L~D~~~~VR~~A~~aLg~~~~~~-av~~Li~~L~~~~--~~~~a~~ALg~ig~~-  251 (280)
T PRK09687        176 RNWAAFALNSNKYDNPDIREAFVAMLQDKNEEIRIEAIIGLALRKDKR-VLSVLIKELKKGT--VGDLIIEAAGELGDK-  251 (280)
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHhcCCChHHHHHHHHHHHccCChh-HHHHHHHHHcCCc--hHHHHHHHHHhcCCH-
Confidence            444555555442 122333333333 3345555666666666666643 333333333 333  233455666666664 


Q ss_pred             HHHHHHccCC
Q 036340          282 LALDFFKRMP  291 (579)
Q Consensus       282 ~A~~~~~~~~  291 (579)
                      +|...+..+.
T Consensus       252 ~a~p~L~~l~  261 (280)
T PRK09687        252 TLLPVLDTLL  261 (280)
T ss_pred             hHHHHHHHHH
Confidence            4555555544

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.27  E-value=0.25  Score=27.15  Aligned_cols=28  Identities=18%  Similarity=0.094  Sum_probs=17.2

Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          504 ALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       504 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      .++.++.+.|++++|...|+++++..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            3445555666666666666666666665

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.19  E-value=0.44  Score=42.24  Aligned_cols=60  Identities=20%  Similarity=0.316  Sum_probs=42.2

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      .++..+++.+...|+.+.+...++++ ...| +...|..++.+|.+.|+...|+..|+++.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            45566777777777777777777766 3444 666777777777777777777777777765

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.94  E-value=2.9  Score=34.56  Aligned_cols=91  Identities=20%  Similarity=0.135  Sum_probs=46.5

Q ss_pred             HHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc--hHHHH
Q 036340          129 VSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN--IVSWN  206 (579)
Q Consensus       129 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  206 (579)
                      ...+...|++++|+..++..+...........+-..|.......|.+++|...++...            .++  .....
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~------------~~~w~~~~~e  163 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIK------------EESWAAIVAE  163 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc------------cccHHHHHHH
Confidence            3445556666666666666553210001111122334555566666666666666654            221  22233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCC
Q 036340          207 SMIMCYAKAGDVVSAREIFEQMLER  231 (579)
Q Consensus       207 ~l~~~~~~~~~~~~A~~~~~~~~~~  231 (579)
                      .-.+++...|+-++|..-|++.++.
T Consensus       164 lrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         164 LRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HhhhHHHHcCchHHHHHHHHHHHHc
Confidence            3445666666666666666665543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.92  E-value=13  Score=36.02  Aligned_cols=179  Identities=7%  Similarity=0.034  Sum_probs=115.1

Q ss_pred             cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhH-HH
Q 036340          359 TVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITF-IS  436 (579)
Q Consensus       359 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~-~~  436 (579)
                      ..+.|.....+++..+....++.-.+.+..++. ...+-..|..++.+|..+ ..+.-..+|+++.+..  -|.... ..
T Consensus        61 ~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~Re  137 (711)
T COG1747          61 KQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGRE  137 (711)
T ss_pred             hccccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHHH
Confidence            344556666777777777777777777777764 445666788888888888 4577888888888653  333333 33


Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC---C---cchhHHHHHHhhccCChHHHHHHHHhCC----CCCCHHHHHHHH
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP---R---IEHFASLVDIVGRHGRLEDAMDLIKGMP----FEPDKAVWGALL  506 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~  506 (579)
                      |...| ..++.+.+..+|.+++.+  +-|   +   .+.|..+...  -..+.+..+.+..+.+    ..--...+..+.
T Consensus       138 La~~y-Ekik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~  212 (711)
T COG1747         138 LADKY-EKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVY  212 (711)
T ss_pred             HHHHH-HHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHH
Confidence            44444 448888888888888754  233   1   1244444332  1456666666666652    222334455555


Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      .-|....++.+|++++..+++.+..|..+...++.-+..
T Consensus       213 ~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd  251 (711)
T COG1747         213 KKYSENENWTEAIRILKHILEHDEKDVWARKEIIENLRD  251 (711)
T ss_pred             HHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHH
Confidence            667788899999999998888887776665555554444

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.87  E-value=17  Score=37.50  Aligned_cols=417  Identities=11%  Similarity=-0.005  Sum_probs=205.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHh--cCChhhHHHHHccCCC-CCcch-HHHHHHHHHhCCC
Q 036340           62 TWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQ--NGDVANAIEFFDRMPG-RDSAS-LSALVSGLIQNGE  137 (579)
Q Consensus        62 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~-~~~~~-~~~l~~~~~~~g~  137 (579)
                      .|.....+ .+.|++..+.++...+.+.-...|.........  ....++...++++... |-... -...+..+.+.++
T Consensus        36 ~f~~A~~a-~~~g~~~~~~~~~~~l~d~pL~~yl~y~~L~~~l~~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~  114 (644)
T PRK11619         36 RYQQIKQA-WDNRQMDVVEQLMPTLKDYPLYPYLEYRQLTQDLMNQPAVQVTNFIRANPTLPPARSLQSRFVNELARRED  114 (644)
T ss_pred             HHHHHHHH-HHCCCHHHHHHHHHhccCCCcHhHHHHHHHHhccccCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccC
Confidence            34444444 367888888888877753323333222222222  3356667777776554 32222 2234445566777


Q ss_pred             HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCC
Q 036340          138 LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGD  217 (579)
Q Consensus       138 ~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  217 (579)
                      +...+..+ .      ..|.+.........+....|+.++|.+..+.+=        ..| ...+..+..++..+.+.|.
T Consensus       115 w~~~~~~~-~------~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW--------~~g-~~~p~~cd~l~~~~~~~g~  178 (644)
T PRK11619        115 WRGLLAFS-P------EKPKPVEARCNYYYAKWATGQQQEAWQGAKELW--------LTG-KSLPNACDKLFSVWQQSGK  178 (644)
T ss_pred             HHHHHHhc-C------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh--------ccC-CCCChHHHHHHHHHHHcCC
Confidence            77666622 1      234555566677777888888776655555542        111 3345567777777776665


Q ss_pred             HHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHccCCCCChh
Q 036340          218 VVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPD-TLTWNAMVSGYAQIGNLELALDFFKRMPQKNLV  296 (579)
Q Consensus       218 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  296 (579)
                      ..... ++            .-+......|+...|..+...+. ++ ......++..+.   +...+...+.... ++..
T Consensus       179 lt~~d-~w------------~R~~~al~~~~~~lA~~l~~~l~-~~~~~~a~a~~al~~---~p~~~~~~~~~~~-~~~~  240 (644)
T PRK11619        179 QDPLA-YL------------ERIRLAMKAGNTGLVTYLAKQLP-ADYQTIASALIKLQN---DPNTVETFARTTG-PTDF  240 (644)
T ss_pred             CCHHH-HH------------HHHHHHHHCCCHHHHHHHHHhcC-hhHHHHHHHHHHHHH---CHHHHHHHhhccC-CChh
Confidence            43321 11            12334445666666666666552 22 222333333333   3444444444332 2221


Q ss_pred             hHHHHHHH--HHhCCCchHHHHHHHHHHHcC-CCCChh--hHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHH
Q 036340          297 SWNSMIAG--CETNKDYEGAIKLFIQMQVEG-EKPDRH--TFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALI  371 (579)
Q Consensus       297 ~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~-~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  371 (579)
                      .-..++.+  -....+.+.|..++....... ..+...  ....+.......+..+.+..++..... ...+.......+
T Consensus       241 ~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~-~~~~~~~~e~r~  319 (644)
T PRK11619        241 TRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM-RSQSTSLLERRV  319 (644)
T ss_pred             hHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc-ccCCcHHHHHHH
Confidence            11111222  223456788999998875443 222221  122222222222113344444443211 112444555556


Q ss_pred             HHhhhcCCHHHHHHHHHhccC--CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHH
Q 036340          372 TMYARCGAIVEARIIFEEMKL--LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEE  449 (579)
Q Consensus       372 ~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  449 (579)
                      ....+.++++.+...+..|..  .....-.-=+.+++...|+.++|..+|+++..   ..   +|..++.+ .+.|..-.
T Consensus       320 r~Al~~~dw~~~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~---~~---~fYG~LAa-~~Lg~~~~  392 (644)
T PRK11619        320 RMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ---QR---GFYPMVAA-QRLGEEYP  392 (644)
T ss_pred             HHHHHccCHHHHHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc---CC---CcHHHHHH-HHcCCCCC
Confidence            666688888888888888751  11122223356676678999999999988742   12   23222211 11121100


Q ss_pred             H-HHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 036340          450 G-RQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEAL  525 (579)
Q Consensus       450 a-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  525 (579)
                      - ......-..  .+ +... -..-+..+...|+...|...+..+....+......+.......|.++.++....+.
T Consensus       393 ~~~~~~~~~~~--~~-~~~~-~~~ra~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~  465 (644)
T PRK11619        393 LKIDKAPKPDS--AL-TQGP-EMARVRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAG  465 (644)
T ss_pred             CCCCCCCchhh--hh-ccCh-HHHHHHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhc
Confidence            0 000000000  00 0001 11233455567777777777766532345555555666666777777777666544

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.68  E-value=1.9  Score=35.81  Aligned_cols=62  Identities=18%  Similarity=0.199  Sum_probs=30.4

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      +..++..|.+.|+.+.|++.|.++.....+.......+..++......|++..+...+.++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44455555555555555555555544322222233344555555555555555555554443

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.65  E-value=0.88  Score=40.44  Aligned_cols=83  Identities=17%  Similarity=0.093  Sum_probs=68.6

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcch
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI  202 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  202 (579)
                      .++..++..+...|+++.+.+.++++..   ..|-+...|..++.+|.+.|+...|+..|+.+...   .....|+.|..
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~---~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~---~~edlgi~P~~  227 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIE---LDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKT---LAEELGIDPAP  227 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHh---cCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHH---hhhhcCCCccH
Confidence            3456678888999999999999999998   56777889999999999999999999999988632   22367889988


Q ss_pred             HHHHHHHHH
Q 036340          203 VSWNSMIMC  211 (579)
Q Consensus       203 ~~~~~l~~~  211 (579)
                      .+.......
T Consensus       228 ~~~~~y~~~  236 (280)
T COG3629         228 ELRALYEEI  236 (280)
T ss_pred             HHHHHHHHH
Confidence            887766665

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=91.64  E-value=0.19  Score=44.81  Aligned_cols=90  Identities=13%  Similarity=0.065  Sum_probs=74.0

Q ss_pred             HHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          474 VDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       474 ~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      +.-|.++|.+++|++.+... ...| +++++..-..+|.+.+.+..|+.-...++.++.....+|..-+.+-...|+..+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHH
Confidence            45678999999999999875 5666 889999999999999999999999999998888777777777777777888888


Q ss_pred             HHHHHHHHHhCC
Q 036340          552 ANEVRLLMKSNN  563 (579)
Q Consensus       552 A~~~~~~~~~~~  563 (579)
                      |.+-.+...+..
T Consensus       184 AKkD~E~vL~LE  195 (536)
T KOG4648|consen  184 AKKDCETVLALE  195 (536)
T ss_pred             HHHhHHHHHhhC
Confidence            877766655443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=91.42  E-value=2.7  Score=35.33  Aligned_cols=196  Identities=17%  Similarity=0.154  Sum_probs=109.3

Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcc-
Q 036340           45 LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSA-  123 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-  123 (579)
                      -+.|.-+|++-     ..|.++.---..+.|+.+++.+.-    .-+.+||-|.-.+...|+++.|.+.|+...+-|+. 
T Consensus        62 eeRA~l~fERG-----vlYDSlGL~~LAR~DftQaLai~P----~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y  132 (297)
T COG4785          62 EERAQLLFERG-----VLYDSLGLRALARNDFSQALAIRP----DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTY  132 (297)
T ss_pred             HHHHHHHHHhc-----chhhhhhHHHHHhhhhhhhhhcCC----CcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcc
Confidence            56666666654     334444443344566666665432    33567888888889999999999999988775543 


Q ss_pred             hHHHHH--HHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHc-cccccCCCCCCCccCCc
Q 036340          124 SLSALV--SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFD-KIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       124 ~~~~l~--~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~-~~~~~~~~~~~~~~~~~  200 (579)
                      .|..+=  -++---|++.-|.+-+...-+.. ...|-...|..+..   +.-++.+|..-+. +..          +...
T Consensus       133 ~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~D-~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~----------~~d~  198 (297)
T COG4785         133 NYAHLNRGIALYYGGRYKLAQDDLLAFYQDD-PNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAE----------KSDK  198 (297)
T ss_pred             hHHHhccceeeeecCchHhhHHHHHHHHhcC-CCChHHHHHHHHHH---hhCCHHHHHHHHHHHHH----------hccH
Confidence            222222  23345788888887777766532 11222223333332   2335556554443 332          1122


Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-------ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCCh
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLER-------DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDT  264 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  264 (579)
                      +..-|+ ++..|.-.=..+.+.+-...-...       =+.+|..+.+.+...|+.++|..+|+-....++
T Consensus       199 e~WG~~-iV~~yLgkiS~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         199 EQWGWN-IVEFYLGKISEETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             hhhhHH-HHHHHHhhccHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            222222 233333333334444443333222       135778888888888999999988887664443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.39  E-value=1.7  Score=36.07  Aligned_cols=96  Identities=11%  Similarity=0.058  Sum_probs=60.4

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH--HH
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA--SL  473 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l  473 (579)
                      .+..++..|.+.|+.+.|++.|.++.+....|...  .+..+++.....+++..+...+.++..-.....+...-+  ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            46667778888888888888888887765555543  566677777778888888877776643211111111111  11


Q ss_pred             H--HHhhccCChHHHHHHHHhC
Q 036340          474 V--DIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       474 ~--~~~~~~g~~~~A~~~~~~~  493 (579)
                      .  -.+...+++.+|...|-..
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHcc
Confidence            1  1234577888887777665

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=91.31  E-value=3.1  Score=33.31  Aligned_cols=49  Identities=12%  Similarity=0.104  Sum_probs=22.1

Q ss_pred             hcCChHHHHHHHHHhHhCCCCCChhhHHH-HHHHhcccCcHHHHHHHHHHhH
Q 036340          408 SHGFATEALELFKSMRSFKVLPTYITFIS-VLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       408 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      +.++.+.+..++..+.-  +.|....... -...+...|++.+|+.+++++.
T Consensus        22 ~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELE   71 (160)
T ss_pred             ccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            34455555555555542  3444332211 1123445555555555555543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=91.26  E-value=4  Score=35.85  Aligned_cols=36  Identities=14%  Similarity=0.115  Sum_probs=29.3

Q ss_pred             hHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcH
Q 036340          412 ATEALELFKSMRSFKVLPTYITFISVLSACAHAGLV  447 (579)
Q Consensus       412 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  447 (579)
                      -+-++.++++|..+|+.||..+-..|+.++.+.+-.
T Consensus       139 Q~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  139 QNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            356788899999999999988888888888776643

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.12  E-value=0.17  Score=28.17  Aligned_cols=29  Identities=17%  Similarity=0.216  Sum_probs=24.7

Q ss_pred             CchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          535 PYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++..++.++...|++++|.+.+++..+..
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            47789999999999999999999987654

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=90.78  E-value=7.9  Score=31.55  Aligned_cols=115  Identities=7%  Similarity=0.105  Sum_probs=61.0

Q ss_pred             CccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhc--CChHHHHHHhhcCCCCChhhHHHHHH
Q 036340          195 NVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHV--LDMEEASNLFVKMPHPDTLTWNAMVS  272 (579)
Q Consensus       195 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~l~~  272 (579)
                      ..+++|+...+..+++.+.+.|++.....++.--+=+|.......+-.+...  .-..-|++++.++.    ..+..+++
T Consensus        22 ~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~----~~~~~iie   97 (167)
T PF07035_consen   22 QHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG----TAYEEIIE   97 (167)
T ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh----hhHHHHHH
Confidence            4577889899999999999999988887777654444443322222111111  01223333333332    12333445


Q ss_pred             HHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchH
Q 036340          273 GYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEG  313 (579)
Q Consensus       273 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  313 (579)
                      .+...|++-+|.++.+.....+......++.+..+.+|...
T Consensus        98 vLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~l  138 (167)
T PF07035_consen   98 VLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQL  138 (167)
T ss_pred             HHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHH
Confidence            55566666666666655433333333344444444444433

>KOG2300 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.77  E-value=16  Score=35.08  Aligned_cols=413  Identities=13%  Similarity=0.029  Sum_probs=202.3

Q ss_pred             HHHHHHHhCC--CHHHHHHHHHHhccCCCCCCCch--hhHHHHHHHH-hhCCCHHHHHHHHccccccCCCCCCCccC-Cc
Q 036340          127 ALVSGLIQNG--ELDEAARVLVKCGSRCDGGEDLV--RAYNTLIVGY-GQRGRVEEARKLFDKIPVNCDRGEGNVRF-KR  200 (579)
Q Consensus       127 ~l~~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~~--~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~~~~~~~~-~~  200 (579)
                      .++..+...|  ++..++++++.....  .++...  .+...++..+ .-..+++.|...+++.-.....   -..+ ..
T Consensus        12 GlAe~~rt~~PPkIkk~IkClqA~~~~--~is~~veart~LqLg~lL~~yT~N~elAksHLekA~~i~~~---ip~fydv   86 (629)
T KOG2300|consen   12 GLAEHFRTSGPPKIKKCIKCLQAIFQF--QISFLVEARTHLQLGALLLRYTKNVELAKSHLEKAWLISKS---IPSFYDV   86 (629)
T ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcc--CChHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHcc---cccHHhh
Confidence            4556666677  788888888887764  222222  2333333332 3356677776666654311000   0011 12


Q ss_pred             chHHHHHHHHHHHhcC-CHHHHHHHHHhcCCC--ChhH-----HHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHH
Q 036340          201 NIVSWNSMIMCYAKAG-DVVSAREIFEQMLER--DTFS-----WNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNA  269 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~--~~~~-----~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~  269 (579)
                      ...++..+...|.... .+..+..++.+.++-  +...     ...++..+.-..++..|.+++.---   ++-...|..
T Consensus        87 Kf~a~SlLa~lh~~~~~s~~~~KalLrkaielsq~~p~wsckllfQLaql~~idkD~~sA~elLavga~sAd~~~~~ylr  166 (629)
T KOG2300|consen   87 KFQAASLLAHLHHQLAQSFPPAKALLRKAIELSQSVPYWSCKLLFQLAQLHIIDKDFPSALELLAVGAESADHICFPYLR  166 (629)
T ss_pred             hhHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCCchhhHHHHHHHHHHHhhhccchhHHHHHhccccccchhhhHHHH
Confidence            2345677778887766 777788888777552  3323     3345667777789999998865443   222223322


Q ss_pred             HHH------HHHhcCCHHHHHHHHccC---CC---CChh------hH--HHHHHHHHhCCCchHHHHHHHHHHHc---CC
Q 036340          270 MVS------GYAQIGNLELALDFFKRM---PQ---KNLV------SW--NSMIAGCETNKDYEGAIKLFIQMQVE---GE  326 (579)
Q Consensus       270 l~~------~~~~~g~~~~A~~~~~~~---~~---~~~~------~~--~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  326 (579)
                      ++.      .+....+..+..++....   .+   +|..      .|  +.-+.-|...|+...+...++++++.   +.
T Consensus       167 ~~ftls~~~ll~me~d~~dV~~ll~~~~qi~~n~~sdk~~~E~LkvFyl~lql~yy~~~gq~rt~k~~lkQLQ~siqtis  246 (629)
T KOG2300|consen  167 MLFTLSMLMLLIMERDDYDVEKLLQRCGQIWQNISSDKTQKEMLKVFYLVLQLSYYLLPGQVRTVKPALKQLQDSIQTIS  246 (629)
T ss_pred             HHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHhcccchhhhHHHHHHHHHHHhccC
Confidence            221      122233444444444333   22   3322      11  11233456677777777777766543   22


Q ss_pred             CCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchH----H-----HHHHHHhhh--cCCHHHHHHHHHhccCCC-
Q 036340          327 KPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPI----N-----NALITMYAR--CGAIVEARIIFEEMKLLK-  394 (579)
Q Consensus       327 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~-----~~l~~~~~~--~~~~~~A~~~~~~~~~~~-  394 (579)
                      .|+ .....-   ........    .+..     -|...+    |     ..+..+|.+  .+-.|+++...++.+..+ 
T Consensus       247 t~~-~~h~e~---ilgsps~~----l~~w-----lpkeqicaLV~l~tv~hsm~~gy~~~~~K~tDe~i~q~eklkq~d~  313 (629)
T KOG2300|consen  247 TSS-RGHDEK---ILGSPSPI----LFEW-----LPKEQICALVYLVTVIHSMPAGYFKKAQKYTDEAIKQTEKLKQADL  313 (629)
T ss_pred             CCC-CCcccc---ccCCCChH----HHhh-----ccHhhhHhhhhhhHHhhhhhhHHHHHHHHHHHHHHHHHhhcccccc
Confidence            211 000000   00000000    0000     011000    0     011111211  011233333333333222 


Q ss_pred             CeeeHHH--------HHHHHHhcCChHHHHHHHHHhHhCC-CCCChh--------hHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          395 NVVSWNA--------MIGGCASHGFATEALELFKSMRSFK-VLPTYI--------TFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       395 ~~~~~~~--------l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~--------~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      ....++.        ++.+-.-.|++.+|++-...|.+-- -.|.+.        .-..+...+...|.++.|...|..+
T Consensus       314 ~srilsm~km~~LE~iv~c~lv~~~~~~al~~i~dm~~w~~r~p~~~Llr~~~~~ih~LlGlys~sv~~~enAe~hf~~a  393 (629)
T KOG2300|consen  314 MSRILSMFKMILLEHIVMCRLVRGDYVEALEEIVDMKNWCTRFPTPLLLRAHEAQIHMLLGLYSHSVNCYENAEFHFIEA  393 (629)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhCCchHHHHHhHHHHHHHHhhHhhhcchHHHHHHHHHHH
Confidence            2222221        1222234688888888888876421 123311        1112222455678888888888877


Q ss_pred             HHhhCCCCC--cchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHH------HH--HHHH--HhhcCCHHHHHHHHHHH
Q 036340          458 VNEYGIEPR--IEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVW------GA--LLGA--CRVHNNVELAQVAAEAL  525 (579)
Q Consensus       458 ~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~--l~~~--~~~~~~~~~A~~~~~~~  525 (579)
                      .+.. -.-|  ...-..++..|.+.|+.+.-.++++..+ +|+..++      +.  ++.+  ....+++.+|...+.+.
T Consensus       394 ~k~t-~~~dl~a~~nlnlAi~YL~~~~~ed~y~~ld~i~-p~nt~s~ssq~l~a~~~~v~glfaf~qn~lnEaK~~l~e~  471 (629)
T KOG2300|consen  394 TKLT-ESIDLQAFCNLNLAISYLRIGDAEDLYKALDLIG-PLNTNSLSSQRLEASILYVYGLFAFKQNDLNEAKRFLRET  471 (629)
T ss_pred             HHhh-hHHHHHHHHHHhHHHHHHHhccHHHHHHHHHhcC-CCCCCcchHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            6541 1222  2233456778888888888888887774 1111111      11  1122  34678899999998888


Q ss_pred             hhcCCC-C-----CCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          526 MKVEPE-N-----STPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       526 ~~~~p~-~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ++...- +     ...+..|+.+....|+..++.+..+-.
T Consensus       472 Lkmanaed~~rL~a~~LvLLs~v~lslgn~~es~nmvrpa  511 (629)
T KOG2300|consen  472 LKMANAEDLNRLTACSLVLLSHVFLSLGNTVESRNMVRPA  511 (629)
T ss_pred             HhhcchhhHHHHHHHHHHHHHHHHHHhcchHHHHhccchH
Confidence            875511 1     112445666777778888877766533

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=90.08  E-value=0.17  Score=26.14  Aligned_cols=23  Identities=17%  Similarity=0.108  Sum_probs=15.6

Q ss_pred             CchhhhhhhhhcCCchHHHHHHH
Q 036340          535 PYVLLYNMYADVGRWDDANEVRL  557 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~  557 (579)
                      +...++.++...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            34566777777777777777664

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=90.05  E-value=26  Score=36.27  Aligned_cols=462  Identities=14%  Similarity=0.122  Sum_probs=218.4

Q ss_pred             CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHH-ccCCHHHHHHHhhcCC----CCch-----hh
Q 036340           24 RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYA-KTGEMEEALRLFNSMP----ARNV-----VS   93 (579)
Q Consensus        24 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~----~~~~-----~~   93 (579)
                      .+...|..|+....+.     ++.+.+-+.--+..+..++-.++..+. ...+++.|+..+++..    +++.     ..
T Consensus        28 ~~l~~Y~kLI~~ai~C-----L~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~  102 (608)
T PF10345_consen   28 EQLKQYYKLIATAIKC-----LEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRC  102 (608)
T ss_pred             hhHHHHHHHHHHHHHH-----HHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHH
Confidence            3456677777766555     333333111111223356667777665 6789999999999775    2221     12


Q ss_pred             HHHHHHHHHhcCChhhHHHHHccCCCC----CcchHHH---HH--HHHHhCCCHHHHHHHHHHhccCCC-CCCCchhhHH
Q 036340           94 WNAMISGFLQNGDVANAIEFFDRMPGR----DSASLSA---LV--SGLIQNGELDEAARVLVKCGSRCD-GGEDLVRAYN  163 (579)
Q Consensus        94 ~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~---l~--~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~  163 (579)
                      ...++..+.+.+... |...+++..+.    ....|.-   ++  ..+...+++..|.+.++.+..... ...+...++.
T Consensus       103 ~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~  181 (608)
T PF10345_consen  103 QFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLA  181 (608)
T ss_pred             HHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHH
Confidence            334556666666655 88877775431    1112221   22  222233799999999988766421 1333444454


Q ss_pred             HHHHHHh--hCCCHHHHHHHHccccccCCC--CCCCccCCcchHHHHHHHHHH--HhcCCHHHHHHHHHhcCC---C--C
Q 036340          164 TLIVGYG--QRGRVEEARKLFDKIPVNCDR--GEGNVRFKRNIVSWNSMIMCY--AKAGDVVSAREIFEQMLE---R--D  232 (579)
Q Consensus       164 ~l~~~~~--~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~---~--~  232 (579)
                      .++.+..  +.+..+.+.+.++.+......  -.+.. -.|...+|..+++.+  ...|++..+...++++.+   .  +
T Consensus       182 ~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~-~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~~~~~~~~  260 (608)
T PF10345_consen  182 SLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSV-HIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQFLDEIKK  260 (608)
T ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCC-CcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhc
Confidence            5554433  456566666666655321110  01112 356677777777654  467887777776665522   1  0


Q ss_pred             hhHHHH-----HHHHHHhcCC--hHHHHHHhhcCCCCChhhHHHHHHH--HHhcCCHHHHHHHHcc-------CC-C---
Q 036340          233 TFSWNT-----MISGYIHVLD--MEEASNLFVKMPHPDTLTWNAMVSG--YAQIGNLELALDFFKR-------MP-Q---  292 (579)
Q Consensus       233 ~~~~~~-----l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~-------~~-~---  292 (579)
                      ...|..     .+..-...+.  .+...-.|..+...+..+...++.+  .+..+..++|.+++++       .. .   
T Consensus       261 ~~~w~~~~~d~~i~l~~~~~~~~~~~~~~~f~wl~~~~l~~L~y~lS~l~~~~~~~~~ks~k~~~k~l~~i~~~~~~~~~  340 (608)
T PF10345_consen  261 SPSWPSWDEDGSIPLNIGEGSSNSGGTPLVFSWLPKEELYALVYFLSGLHNLYKGSMDKSEKFLEKALKQIEKLKIKSPS  340 (608)
T ss_pred             CccCCCcCCCeeEEeecccccccCCCceeEEeecCHHHHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHhhccCCC
Confidence            000100     0000000000  0000122333322333322222222  2333444455444443       33 1   


Q ss_pred             -CC--------hhhHHHH---------HHHHHhCCCchHHHHHHHHHHHcCC-CCC-----hhhHHHHHH--hccCCCch
Q 036340          293 -KN--------LVSWNSM---------IAGCETNKDYEGAIKLFIQMQVEGE-KPD-----RHTFSSILS--MSSGIVDL  346 (579)
Q Consensus       293 -~~--------~~~~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~-~~~-----~~~~~~l~~--~~~~~~~~  346 (579)
                       ++        ...|...         +...+-.+++..|...++.|..... .|+     ...+...+.  .+...|+.
T Consensus       341 ~~~~sl~~~~~~~~~~~~l~~~~~~y~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l  420 (608)
T PF10345_consen  341 APSESLSEASERIQWLRYLQCYLLFYQIWCNFIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDL  420 (608)
T ss_pred             CCCcCHHHHHHhHHHHHHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCH
Confidence             00        0112111         2233457889999999998875421 111     223333333  34567999


Q ss_pred             hhHHHHHH-------H--HhhcCCCCchHHHH--HHHHhhh--cCCHHH--HHHHHHhcc----CCC--CeeeHHHH-HH
Q 036340          347 HLGMQIHQ-------M--VTKTVIPDVPINNA--LITMYAR--CGAIVE--ARIIFEEMK----LLK--NVVSWNAM-IG  404 (579)
Q Consensus       347 ~~a~~~~~-------~--~~~~~~~~~~~~~~--l~~~~~~--~~~~~~--A~~~~~~~~----~~~--~~~~~~~l-~~  404 (579)
                      +.|...|.       .  ...+...+..++..  ++-.+..  .....+  +..+++.+.    ..|  +..++..+ +.
T Consensus       421 ~~A~~~y~~~~~~~~~~~~~~~~~~El~ila~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~  500 (608)
T PF10345_consen  421 EAALYQYQKPRFLLCEAANRKSKFRELYILAALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLA  500 (608)
T ss_pred             HHHHHHHhhhHHhhhhhhccCCcchHHHHHHHHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHH
Confidence            99999997       2  33333333333322  1222222  222333  778888775    122  12223333 33


Q ss_pred             HHHhcCC--hHHHHHHHHHhH-----hCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC--cchh----
Q 036340          405 GCASHGF--ATEALELFKSMR-----SFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR--IEHF----  470 (579)
Q Consensus       405 ~~~~~~~--~~~A~~~~~~~~-----~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~----  470 (579)
                      ++.....  ..++...+.+..     ..+..- ...+++.+...+. .|+..+.............-.||  ...|    
T Consensus       501 ~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~~l~~~~L~lm~~~lf-~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~  579 (608)
T PF10345_consen  501 TYNTFEPFSSNEAKRHLQEALKMANNKLGNSQLLAILLNLMGHRLF-EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVA  579 (608)
T ss_pred             HHhhCCccccHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            3322111  123333332221     112111 1123333333344 67666655544433222122232  2333    


Q ss_pred             -HHHHHHhhccCChHHHHHHHHhC
Q 036340          471 -ASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       471 -~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                       ..+.+.+...|+.++|.....+.
T Consensus       580 ~~~l~~~~~~~G~~~ka~~~~~~~  603 (608)
T PF10345_consen  580 SGMLADSYEVQGDRDKAEEARQQL  603 (608)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHH
Confidence             34667799999999998877654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=89.98  E-value=4.7  Score=30.92  Aligned_cols=58  Identities=9%  Similarity=0.033  Sum_probs=27.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHccCC---CCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCC
Q 036340          269 AMVSGYAQIGNLELALDFFKRMP---QKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGE  326 (579)
Q Consensus       269 ~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  326 (579)
                      ..+..+...|+-+.-.+++..+.   ++++...-.+..+|.+.|+..++-+++.+.-+.|+
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            33444455555555555555443   24444445555555555555555555555555443

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=89.76  E-value=2.1  Score=41.63  Aligned_cols=86  Identities=12%  Similarity=-0.015  Sum_probs=54.3

Q ss_pred             ccCChHHHHHHHHhC-CCCC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHH
Q 036340          479 RHGRLEDAMDLIKGM-PFEP--DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       479 ~~g~~~~A~~~~~~~-~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      ..|+...|...+..+ ...|  ..+....+...+.+.|...+|-.++.+.+.+....|.++..++.+|....+.+.|++.
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~  698 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGALEA  698 (886)
T ss_pred             ecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHHHH
Confidence            356777776666554 2233  2234445555666666666777777777776666666677777777777777777777


Q ss_pred             HHHHHhCCC
Q 036340          556 RLLMKSNNI  564 (579)
Q Consensus       556 ~~~~~~~~~  564 (579)
                      +++..++..
T Consensus       699 ~~~a~~~~~  707 (886)
T KOG4507|consen  699 FRQALKLTT  707 (886)
T ss_pred             HHHHHhcCC
Confidence            777665543

>PRK12798 chemotaxis protein; Reviewed

Probab=89.70  E-value=19  Score=34.15  Aligned_cols=186  Identities=19%  Similarity=0.241  Sum_probs=121.8

Q ss_pred             cCCHHHHHHHHHhcc---CCCCeeeHHHHHHHH-HhcCChHHHHHHHHHhHhCCCCCChh----hHHHHHHHhcccCcHH
Q 036340          377 CGAIVEARIIFEEMK---LLKNVVSWNAMIGGC-ASHGFATEALELFKSMRSFKVLPTYI----TFISVLSACAHAGLVE  448 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~---~~~~~~~~~~l~~~~-~~~~~~~~A~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~  448 (579)
                      .|+-+++.+.+..+.   .++....+..|+.+- ....++.+|+++|+...-  .-|...    ...--+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRL--laPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARL--LAPGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHH--hCCchHHHHHHHHHhhHHHHhcCcHH
Confidence            488899999998885   344555677776654 456789999999998763  345433    3333344567889999


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhH-HHHHHhhccC---ChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFA-SLVDIVGRHG---RLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEA  524 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  524 (579)
                      ++..+-.....++...|-...|. .++..+.+.+   ..+.-..++..|.-.--...|..+.+.-.-.|+.+-|...-++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            99888888888777667444333 3333444433   3344455555554233456888888888899999999999999


Q ss_pred             HhhcCCCCCCCchhhhhhh-----hhcCCchHHHHHHHHHHhCCCC
Q 036340          525 LMKVEPENSTPYVLLYNMY-----ADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       525 ~~~~~p~~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      +..+.+.+ ..-...+..|     .-..++++|.+.+..+-...+.
T Consensus       283 A~~L~~~~-~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~~~L~  327 (421)
T PRK12798        283 ALKLADPD-SADAARARLYRGAALVASDDAESALEELSQIDRDKLS  327 (421)
T ss_pred             HHHhccCC-CcchHHHHHHHHHHccCcccHHHHHHHHhcCChhhCC
Confidence            99876443 3333334444     3345677777777766544443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=89.68  E-value=27  Score=36.07  Aligned_cols=186  Identities=14%  Similarity=0.096  Sum_probs=89.6

Q ss_pred             hhcCCHHHHHHHHHhcc----CCCC-----eeeHHHHHHH--HHhcCChHHHHHHHH--------HhHhCCCCCChhhHH
Q 036340          375 ARCGAIVEARIIFEEMK----LLKN-----VVSWNAMIGG--CASHGFATEALELFK--------SMRSFKVLPTYITFI  435 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~--~~~~~~~~~A~~~~~--------~~~~~~~~p~~~~~~  435 (579)
                      +-.+++..|...++.+.    ..|+     ...+..++.+  +-..|+.+.|+..|.        .....+..++..++.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            34678888888888775    1222     1122222222  334689999999997        444434333333333


Q ss_pred             HH--HHHhcccC--cHHH--HHHHHHHhHHhhCCCCCc--chhHHH-HHHhhcc---------CChHHHHHHH-HhCCCC
Q 036340          436 SV--LSACAHAG--LVEE--GRQHFKSMVNEYGIEPRI--EHFASL-VDIVGRH---------GRLEDAMDLI-KGMPFE  496 (579)
Q Consensus       436 ~l--~~~~~~~~--~~~~--a~~~~~~~~~~~~~~~~~--~~~~~l-~~~~~~~---------g~~~~A~~~~-~~~~~~  496 (579)
                      .+  +..+...+  ..++  ..++++.+.....-.|+.  .++..+ +.++..-         ..+.++++.. +..+..
T Consensus       452 ~LNl~~I~~~~~~~~~~~~~~~~l~~~i~p~~~~~~~~~~~~a~~~~~~~~~~~~~~~~ne~k~~l~~~L~~~~~~~~n~  531 (608)
T PF10345_consen  452 ALNLAIILQYESSRDDSESELNELLEQIEPLCSNSPNSYNRTAYCLVLATYNTFEPFSSNEAKRHLQEALKMANNKLGNS  531 (608)
T ss_pred             HHHHHHHhHhhcccchhhhHHHHHHHhcCccccCCccHHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHHHHHHhhccc
Confidence            21  11222222  2222  666666553322222221  222222 2222211         1223344444 332222


Q ss_pred             CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC---CCCCCCch------hhhhhhhhcCCchHHHHHHHHHH
Q 036340          497 PDKAVWGALLGACRVHNNVELAQVAAEALMKVE---PENSTPYV------LLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       497 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~------~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .-......++..-.-.|+..+.......+....   |+......      .+...+...|+.++|.+...+..
T Consensus       532 ~l~~~~L~lm~~~lf~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  532 QLLAILLNLMGHRLFEGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             hHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            212222333333333788877666666665432   44343333      44556788899999999887764

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.54  E-value=0.26  Score=27.46  Aligned_cols=29  Identities=24%  Similarity=0.277  Sum_probs=24.9

Q ss_pred             CchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          535 PYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +|..++.+|...|++++|+..+++..+..
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            47889999999999999999999987654

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=89.52  E-value=0.28  Score=39.75  Aligned_cols=110  Identities=13%  Similarity=0.133  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccC---ChHHHHHHHHhC--------CCCCC-HHHHHHHHHHHhhcC-
Q 036340          447 VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHG---RLEDAMDLIKGM--------PFEPD-KAVWGALLGACRVHN-  513 (579)
Q Consensus       447 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~--------~~~~~-~~~~~~l~~~~~~~~-  513 (579)
                      ++.|.+.++.....  -+.|...++.-+.++....   ...++.+++++.        .+.|+ ..++..+..++...+ 
T Consensus         7 FE~ark~aea~y~~--nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    7 FEHARKKAEAAYAK--NPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            55666666654433  1335665555555554332   223344444333        35564 456666776654322 


Q ss_pred             ---C-------HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          514 ---N-------VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       514 ---~-------~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                         +       +++|...|+++...+|+|     .+-+.-.  ...++|-++..++.+.+..
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~~~P~n-----e~Y~ksL--e~~~kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVDEDPNN-----ELYRKSL--EMAAKAPELHMEIHKQGLG  139 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHH-TT------HHHHHHH--HHHHTHHHHHHHHHHSSS-
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHhcCCCc-----HHHHHHH--HHHHhhHHHHHHHHHHHhh
Confidence               2       455556666666677874     3322222  4446777787777766544

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>smart00028 TPR Tetratricopeptide repeats

Probab=89.37  E-value=0.72  Score=24.67  Aligned_cols=30  Identities=17%  Similarity=0.069  Sum_probs=17.8

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      |..+...+...|+++.|...++++++..|.
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            444555555666666666666666665553

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=89.04  E-value=17  Score=32.95  Aligned_cols=23  Identities=17%  Similarity=-0.086  Sum_probs=18.1

Q ss_pred             hhhhhhhhhcCCchHHHHHHHHH
Q 036340          537 VLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       537 ~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ..-+..++++++|++|...++-.
T Consensus       250 W~~~~~~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  250 WNKGKKHYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHHHHHHHhhcCHHHHHHHHHHH
Confidence            34466788999999999998854

It is also involved in sporulation [].

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.01  E-value=7.2  Score=38.37  Aligned_cols=150  Identities=21%  Similarity=0.214  Sum_probs=92.0

Q ss_pred             cCCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcC
Q 036340            7 KRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSM   86 (579)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   86 (579)
                      =+|+++.|-.++-.++++   ..+.+..-+-+.|.   .++|+++     .+|+..   --....+.|+++.|.++..+.
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~---~e~AL~~-----s~D~d~---rFelal~lgrl~iA~~la~e~  663 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGM---KEQALEL-----STDPDQ---RFELALKLGRLDIAFDLAVEA  663 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccc---hHhhhhc-----CCChhh---hhhhhhhcCcHHHHHHHHHhh
Confidence            345555555544444422   23344444445544   6666654     233322   122234667777777766555


Q ss_pred             CCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHH
Q 036340           87 PARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLI  166 (579)
Q Consensus        87 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  166 (579)
                        .+..-|..|..+....+++..|.+.|....     .+..|+-.+...|+-+....+-....+.  + .     .|...
T Consensus       664 --~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~-----d~~~LlLl~t~~g~~~~l~~la~~~~~~--g-~-----~N~AF  728 (794)
T KOG0276|consen  664 --NSEVKWRQLGDAALSAGELPLASECFLRAR-----DLGSLLLLYTSSGNAEGLAVLASLAKKQ--G-K-----NNLAF  728 (794)
T ss_pred             --cchHHHHHHHHHHhhcccchhHHHHHHhhc-----chhhhhhhhhhcCChhHHHHHHHHHHhh--c-c-----cchHH
Confidence              566778899999999999999999888753     3566677777777776655555555443  1 1     22333


Q ss_pred             HHHhhCCCHHHHHHHHccc
Q 036340          167 VGYGQRGRVEEARKLFDKI  185 (579)
Q Consensus       167 ~~~~~~g~~~~A~~~~~~~  185 (579)
                      -++...|+++++.+++..-
T Consensus       729 ~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  729 LAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHcCCHHHHHHHHHhc
Confidence            4566789999999888765

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.87  E-value=4.6  Score=39.59  Aligned_cols=25  Identities=16%  Similarity=0.087  Sum_probs=12.9

Q ss_pred             hHHHHHHHHhhCCCHHHHHHHHccc
Q 036340          161 AYNTLIVGYGQRGRVEEARKLFDKI  185 (579)
Q Consensus       161 ~~~~l~~~~~~~g~~~~A~~~~~~~  185 (579)
                      -|..|..+....|++..|.+.|...
T Consensus       668 Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  668 KWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             HHHHHHHHHhhcccchhHHHHHHhh
Confidence            3455555555555555555555444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.85  E-value=29  Score=35.28  Aligned_cols=248  Identities=11%  Similarity=-0.010  Sum_probs=127.6

Q ss_pred             hCCCchHHHHHHHHHHH-------cCCCCChhhHHHHHHhccCCC-----chhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          307 TNKDYEGAIKLFIQMQV-------EGEKPDRHTFSSILSMSSGIV-----DLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       307 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      ...|.+.|+.+|+.+.+       .|   .......+..+|.+..     +...|..++......-.|+.......+...
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~~~a~~~lg~~~~~  337 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGNPDAQYLLGVLYET  337 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCCchHHHHHHHHHHc
Confidence            34566677777766655       33   2223333444443322     445566666663333333333332222222


Q ss_pred             hh-cCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHH
Q 036340          375 AR-CGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEE  449 (579)
Q Consensus       375 ~~-~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  449 (579)
                      .. ..+...|.++|......-.+..+-.+..+|..    ..+.+.|..++++..+.| .|...--...+..+.. +.++.
T Consensus       338 g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~  415 (552)
T KOG1550|consen  338 GTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDT  415 (552)
T ss_pred             CCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccH
Confidence            22 24567788888776534444444444444432    246778888888888777 3332222222233333 55555


Q ss_pred             HHHHHHHhHHhhCCCCCcchhHHHHHH---hhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHH
Q 036340          450 GRQHFKSMVNEYGIEPRIEHFASLVDI---VGR----HGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELA  518 (579)
Q Consensus       450 a~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A  518 (579)
                      +.-.+..+.. .+.......-..+...   ...    ..+.+.+...+......-+......+...+..    ..+++.|
T Consensus       416 ~~~~~~~~a~-~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a  494 (552)
T KOG1550|consen  416 ALALYLYLAE-LGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQGNADAILKLGDYYYYGLGTGRDPEKA  494 (552)
T ss_pred             HHHHHHHHHH-hhhhHHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhccCHHHHhhhcceeeecCCCCCChHHH
Confidence            5555444422 1322111111111111   111    22455566666666444566666666665543    3468888


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhc---CCchHHHHHHHHHHhCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADV---GRWDDANEVRLLMKSNN  563 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  563 (579)
                      ...|.++....   ......++..+..-   ..+..|.+++++..+.+
T Consensus       495 ~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  495 AAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEED  539 (552)
T ss_pred             HHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhcC
Confidence            88888887666   55666777666432   11577888888776544

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=88.78  E-value=0.98  Score=38.43  Aligned_cols=85  Identities=8%  Similarity=0.038  Sum_probs=52.9

Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCCc-chhHHHHHHhhccCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHhhcCCHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPRI-EHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKA-VWGALLGACRVHNNVE  516 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~-~~~~l~~~~~~~~~~~  516 (579)
                      .|.....++.|+..|.+.+   -+.|.. ..|..-+.++.+..+++.+..-..+. .+.||.. ....+..+......++
T Consensus        19 k~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhcccc
Confidence            4666677777777777665   446655 44456666677777777766554444 5556544 3333445556666777


Q ss_pred             HHHHHHHHHhh
Q 036340          517 LAQVAAEALMK  527 (579)
Q Consensus       517 ~A~~~~~~~~~  527 (579)
                      +|+..+.++..
T Consensus        96 eaI~~Lqra~s  106 (284)
T KOG4642|consen   96 EAIKVLQRAYS  106 (284)
T ss_pred             HHHHHHHHHHH
Confidence            77777777754

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.62  E-value=0.63  Score=27.80  Aligned_cols=27  Identities=19%  Similarity=0.251  Sum_probs=22.1

Q ss_pred             hhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          537 VLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       537 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ..|+.+|...|+.+.|.++++++...|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            467888999999999999998887544

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=88.12  E-value=0.27  Score=27.04  Aligned_cols=29  Identities=21%  Similarity=0.217  Sum_probs=25.0

Q ss_pred             CchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          535 PYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++..++.++.+.|++++|.+.++++.+.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            35678999999999999999999998643

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.80  E-value=0.49  Score=42.52  Aligned_cols=87  Identities=13%  Similarity=0.226  Sum_probs=56.2

Q ss_pred             ccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHH
Q 036340          479 RHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVR  556 (579)
Q Consensus       479 ~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  556 (579)
                      ..|.+++|++.+... +..| ....|..-..++.+.+....|++-+..+++++|+....|-.-+.+..-.|+|++|...+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            455566666666555 3333 34444455556666777777777777777777777666666666777777777777777


Q ss_pred             HHHHhCCCC
Q 036340          557 LLMKSNNIK  565 (579)
Q Consensus       557 ~~~~~~~~~  565 (579)
                      +...+.++.
T Consensus       206 ~~a~kld~d  214 (377)
T KOG1308|consen  206 ALACKLDYD  214 (377)
T ss_pred             HHHHhcccc
Confidence            776666654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=87.70  E-value=1.3  Score=37.08  Aligned_cols=63  Identities=17%  Similarity=0.194  Sum_probs=44.5

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      ...+..+.+.+..++|+...+.- +.+| |...-..++..++-.|++++|..-++-+-++.|++.
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            34455667778888887776554 4455 555666677778888888888888888888888754

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=87.66  E-value=0.87  Score=28.58  Aligned_cols=32  Identities=25%  Similarity=0.270  Sum_probs=26.0

Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          504 ALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       504 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      .+.-++.+.|++++|....+.+++.+|+|..+
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            45567889999999999999999999998653

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.45  E-value=23  Score=32.42  Aligned_cols=132  Identities=13%  Similarity=0.172  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhccC--CCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHh
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSSG--IVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEE  389 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  389 (579)
                      ++.+.+++.|.+.|.+-+..++.........  ..++                              ......|..+|+.
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~------------------------------~~~~~ra~~iy~~  128 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDY------------------------------DEIIQRAKEIYKE  128 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccH------------------------------HHHHHHHHHHHHH
Confidence            4566778888888888777666443321111  0000                              0124567778888


Q ss_pred             cc------CCCCeeeHHHHHHHHHhcCC----hHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCc--HHHHHHHHH
Q 036340          390 MK------LLKNVVSWNAMIGGCASHGF----ATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGL--VEEGRQHFK  455 (579)
Q Consensus       390 ~~------~~~~~~~~~~l~~~~~~~~~----~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~--~~~a~~~~~  455 (579)
                      |+      ..++..++..++..  ..++    .+.++.+|+.+.+.|...+..  ....++..+.....  ...+.++++
T Consensus       129 mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~  206 (297)
T PF13170_consen  129 MKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYN  206 (297)
T ss_pred             HHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            75      23344445444433  2233    356778888888888777654  33333333222222  447778888


Q ss_pred             HhHHhhCCCCCcchhHHHHHH
Q 036340          456 SMVNEYGIEPRIEHFASLVDI  476 (579)
Q Consensus       456 ~~~~~~~~~~~~~~~~~l~~~  476 (579)
                      .+.++ ++++....|..++-.
T Consensus       207 ~l~~~-~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  207 ALKKN-GVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHc-CCccccccccHHHHH
Confidence            87655 888877777666543

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.40  E-value=1.9  Score=41.93  Aligned_cols=127  Identities=14%  Similarity=0.073  Sum_probs=88.8

Q ss_pred             HHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC--CcchhHHHHHHhhccCChHHHHHHHH
Q 036340          414 EALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP--RIEHFASLVDIVGRHGRLEDAMDLIK  491 (579)
Q Consensus       414 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~  491 (579)
                      -+-.++..|.. -+.|-..+.+...-.+...|+...|..++..+..   ..|  .......|+..+.+.|...+|-.++.
T Consensus       591 ~~~~~~~~~~~-~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~---~~p~~~~v~~v~la~~~~~~~~~~da~~~l~  666 (886)
T KOG4507|consen  591 IGSFLFHAINK-PNAPIWLILNEAGLYWRAVGNSTFAIACLQRALN---LAPLQQDVPLVNLANLLIHYGLHLDATKLLL  666 (886)
T ss_pred             HHHHHHHHhcC-CCCCeEEEeecccceeeecCCcHHHHHHHHHHhc---cChhhhcccHHHHHHHHHHhhhhccHHHHHH
Confidence            34444444432 3344444444444445678999999999887763   344  23345567888888898888888876


Q ss_pred             hC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          492 GM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       492 ~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      .. . ....+.++..+.+++....+++.|++.++.++++.|+++.+-..|..+-+
T Consensus       667 q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  667 QALAINSSEPLTFLSLGNAYLALKNISGALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHhhcccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            54 2 23356677888899999999999999999999999999887666654433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.37  E-value=30  Score=33.67  Aligned_cols=174  Identities=13%  Similarity=0.126  Sum_probs=118.6

Q ss_pred             CCcchHHHHHHHHHccCCHHHHHHHhhcCC--CCchhhHHHHHHHHHhcCChhhHHHHHccCCCC--CcchHHHHHHHHH
Q 036340           58 RDCVTWNTVISGYAKTGEMEEALRLFNSMP--ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR--DSASLSALVSGLI  133 (579)
Q Consensus        58 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~l~~~~~  133 (579)
                      .|....-+++..+++.-++.-.+.+..++.  ..+-..|..++.+|..+ .-++-..+++++.+-  +......-+..+.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa~~y  142 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELADKY  142 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            455678889999999999999999999887  56777899999999988 556777788866552  2233333344444


Q ss_pred             hCCCHHHHHHHHHHhccCCCCCCC-----chhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHH
Q 036340          134 QNGELDEAARVLVKCGSRCDGGED-----LVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSM  208 (579)
Q Consensus       134 ~~g~~~~A~~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  208 (579)
                      ..++.+.+...|.++..+  -.|.     --..|..+...-  ..+.+....+..++..       ..|...-...+..+
T Consensus       143 Ekik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt-------~lg~~~~~Vl~qdv  211 (711)
T COG1747         143 EKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQT-------KLGEGRGSVLMQDV  211 (711)
T ss_pred             HHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHH-------hhccchHHHHHHHH
Confidence            458888898888887764  2221     112344444322  3567777777777652       33444455667777


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHH
Q 036340          209 IMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGY  243 (579)
Q Consensus       209 ~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~  243 (579)
                      -.-|....++.+|++++..+++.   |..+-..++.-+
T Consensus       212 ~~~Ys~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~l  249 (711)
T COG1747         212 YKKYSENENWTEAIRILKHILEHDEKDVWARKEIIENL  249 (711)
T ss_pred             HHHhccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence            78888999999999999988764   444444554433

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=87.36  E-value=15  Score=30.06  Aligned_cols=115  Identities=13%  Similarity=0.077  Sum_probs=71.1

Q ss_pred             CCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh
Q 036340          154 GGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT  233 (579)
Q Consensus       154 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  233 (579)
                      +.++....+..++..+.+.|++..-..++.--.            -+|.......+-.+.  +....+.++--.|..+=.
T Consensus        24 ~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~V------------i~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   24 NIPVQHELYELLIDLLIRNGQFSQLHQLLQYHV------------IPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcc------------cCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhh
Confidence            667777889999999999999888777775433            444333332222221  222334444334443333


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHH
Q 036340          234 FSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLEL  282 (579)
Q Consensus       234 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  282 (579)
                      ..+..++..+...|++-+|+++.+.....+......++++..+.++...
T Consensus        90 ~~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~l  138 (167)
T PF07035_consen   90 TAYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQL  138 (167)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHH
Confidence            4566778888999999999999887643333344556666666665433

>PRK10941 hypothetical protein; Provisional

Probab=87.09  E-value=2  Score=38.38  Aligned_cols=62  Identities=23%  Similarity=0.129  Sum_probs=50.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .+.+-.++.+.++++.|+.+.+.++.+.|+++.-+.-.+.+|.+.|.+..|..-++...+.-
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            34555667888999999999999999999988888888889999999999988887776544

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.98  E-value=7.2  Score=37.30  Aligned_cols=105  Identities=13%  Similarity=0.021  Sum_probs=67.3

Q ss_pred             HHHhhhcCCHHHHHHHHHhcc--------CCC---CeeeHHHHHHHHHhcCChHHHHHHHHHhHh-------CCCCCCh-
Q 036340          371 ITMYARCGAIVEARIIFEEMK--------LLK---NVVSWNAMIGGCASHGFATEALELFKSMRS-------FKVLPTY-  431 (579)
Q Consensus       371 ~~~~~~~~~~~~A~~~~~~~~--------~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~~~~p~~-  431 (579)
                      ...+.-.|++.+|.+++....        +.|   .-..||.|.-.+.+.|.+..+..+|.+..+       .|+.|.. 
T Consensus       247 sq~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~  326 (696)
T KOG2471|consen  247 SQLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKT  326 (696)
T ss_pred             HHHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcc
Confidence            344555788889988887653        111   122356676666677777776666666553       4555532 


Q ss_pred             ----------hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhh
Q 036340          432 ----------ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVG  478 (579)
Q Consensus       432 ----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  478 (579)
                                .+|+ +.-.|...|++-.|.+.|.+.+..+  ..++..|..+++++.
T Consensus       327 ~tls~nks~eilYN-cG~~~Lh~grPl~AfqCf~~av~vf--h~nPrlWLRlAEcCi  380 (696)
T KOG2471|consen  327 FTLSQNKSMEILYN-CGLLYLHSGRPLLAFQCFQKAVHVF--HRNPRLWLRLAECCI  380 (696)
T ss_pred             eehhcccchhhHHh-hhHHHHhcCCcHHHHHHHHHHHHHH--hcCcHHHHHHHHHHH
Confidence                      1233 3335678899999999998887643  456678888887764

>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]

Probab=86.96  E-value=24  Score=32.26  Aligned_cols=48  Identities=10%  Similarity=-0.157  Sum_probs=26.6

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC---------------CchHHHHHHHHHHhCCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYADVG---------------RWDDANEVRLLMKSNNI  564 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---------------~~~~A~~~~~~~~~~~~  564 (579)
                      +.++|...|+++-+...  ......++ .+...|               +...|...+......+.
T Consensus       206 d~~~A~~wy~~Aa~~g~--~~a~~~~~-~~~~~g~g~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  268 (292)
T COG0790         206 DLKKAFRWYKKAAEQGD--GAACYNLG-LMYLNGEGVKKAAFLTAAKEEDKKQALEWLQKACELGF  268 (292)
T ss_pred             CHHHHHHHHHHHHHCCC--HHHHHHHH-HHHhcCCCchhhhhcccccCCCHHHHHHHHHHHHHcCC
Confidence            56666666666665554  33344444 444444               55666666666655554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=86.79  E-value=5.2  Score=35.18  Aligned_cols=109  Identities=16%  Similarity=0.124  Sum_probs=73.7

Q ss_pred             HHHHHhcc-CCCCeeeHHHHHHHHHh-----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccC------------
Q 036340          384 RIIFEEMK-LLKNVVSWNAMIGGCAS-----HGFATEALELFKSMRSFKVLPTYITFISVLSACAHAG------------  445 (579)
Q Consensus       384 ~~~~~~~~-~~~~~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~------------  445 (579)
                      +..|.... ...|..+|...+..+..     .+.++-....++.|.+.|+.-|..+|..|+..+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            33444443 23345556666665543     3556666677788888899999999999888765422            


Q ss_pred             ----cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH-HHHHHHhC
Q 036340          446 ----LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED-AMDLIKGM  493 (579)
Q Consensus       446 ----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~  493 (579)
                          +-+-++.++++|.. +|+.||.++-..++.++.+.+..-. ..+++-.|
T Consensus       134 HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                22347889999955 5999999999999999999886543 33343333

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.67  E-value=0.53  Score=27.61  Aligned_cols=25  Identities=28%  Similarity=0.270  Sum_probs=16.9

Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHH
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +..|+.+|...|++++|..++++..
T Consensus         5 ~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    5 LNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcchhhHHHHHHH
Confidence            5567777777777777777777654

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=86.64  E-value=54  Score=35.88  Aligned_cols=78  Identities=10%  Similarity=0.097  Sum_probs=31.6

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHH-HHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHh
Q 036340          261 HPDTLTWNAMVSGYAQIGNLELALD-FFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSM  339 (579)
Q Consensus       261 ~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  339 (579)
                      .+|..+-...+.++.+.|....+.. +...+..++...-...+.++...+. +++...+..+.+   .|+...-...+.+
T Consensus       786 D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L~---D~~~~VR~~A~~a  861 (897)
T PRK13800        786 DPDPLVRAAALAALAELGCPPDDVAAATAALRASAWQVRQGAARALAGAAA-DVAVPALVEALT---DPHLDVRKAAVLA  861 (897)
T ss_pred             CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcCCChHHHHHHHHHHHhccc-cchHHHHHHHhc---CCCHHHHHHHHHH
Confidence            4445555555555555554433322 2222223443333334444444433 233333333332   2333344444444


Q ss_pred             ccC
Q 036340          340 SSG  342 (579)
Q Consensus       340 ~~~  342 (579)
                      +.+
T Consensus       862 L~~  864 (897)
T PRK13800        862 LTR  864 (897)
T ss_pred             Hhc
Confidence            444

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=86.59  E-value=0.81  Score=32.79  Aligned_cols=53  Identities=19%  Similarity=0.123  Sum_probs=26.9

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC--CCCchhhhhhhhhcCCch
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN--STPYVLLYNMYADVGRWD  550 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~  550 (579)
                      |......+...+...|++++|++.+-.+++.+|+.  ..+-..|+.++.-.|.-+
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~   75 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGD   75 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCC
Confidence            44555555666666666666666666666655443  333445555555555433

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=86.58  E-value=0.61  Score=25.85  Aligned_cols=28  Identities=21%  Similarity=0.261  Sum_probs=24.8

Q ss_pred             CchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          535 PYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      +|..++.+|...|++++|.+.+++..+.
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4778999999999999999999988654

...

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.53  E-value=3.6  Score=29.47  Aligned_cols=61  Identities=10%  Similarity=0.053  Sum_probs=41.6

Q ss_pred             chHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHH
Q 036340          311 YEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALI  371 (579)
Q Consensus       311 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  371 (579)
                      .-++.+-++.+......|++......+++|.+.+++..|.++++..+.....+...|..++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~l   83 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHHH
Confidence            3345566666666777888888888888888888888888888875544443444554443

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.32  E-value=10  Score=27.39  Aligned_cols=60  Identities=17%  Similarity=0.218  Sum_probs=42.0

Q ss_pred             HHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhH
Q 036340          271 VSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTF  333 (579)
Q Consensus       271 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  333 (579)
                      +..+.+.|++++|..+.+...-||...|..|...  +.|-.++...-+.+|..+| .|....|
T Consensus        46 lsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg-~p~lq~F  105 (115)
T TIGR02508        46 LSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAASG-DPRLQTF  105 (115)
T ss_pred             HHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            3567788999999998888877888888776554  5666676666676776655 3444444

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=86.31  E-value=30  Score=32.68  Aligned_cols=63  Identities=10%  Similarity=-0.005  Sum_probs=45.0

Q ss_pred             CCchHHHHHHHHhhhcCCHHHHHHHHHhccCCC------CeeeHHHHHHHHHhcCChHHHHHHHHHhHh
Q 036340          362 PDVPINNALITMYARCGAIVEARIIFEEMKLLK------NVVSWNAMIGGCASHGFATEALELFKSMRS  424 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  424 (579)
                      ....++..++....+.|.++.|...+..+....      .+.....-+..+...|+..+|+..++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344566778888888889888888888775211      344445556667778888889888888776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=86.21  E-value=7.7  Score=32.51  Aligned_cols=79  Identities=19%  Similarity=0.061  Sum_probs=40.3

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC--CCCcchhHHHHHHhhccCCh
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGI--EPRIEHFASLVDIVGRHGRL  483 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~  483 (579)
                      +.+.|+ +.|.+.|-++...+.--++.....|.. |....+.+++..++...+.-.+-  .+|++.+..|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            334444 556666666655443333333333333 33355666666666655543211  34555666666666666666


Q ss_pred             HHH
Q 036340          484 EDA  486 (579)
Q Consensus       484 ~~A  486 (579)
                      +.|
T Consensus       195 e~A  197 (203)
T PF11207_consen  195 EQA  197 (203)
T ss_pred             hhh
Confidence            555

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=86.15  E-value=34  Score=33.18  Aligned_cols=97  Identities=8%  Similarity=0.039  Sum_probs=66.0

Q ss_pred             CCCcc-hhHHHHHHhhccCChHHHHHHHHhCC-C-CCCHHHHHHHHHHH--hhcCCHHHHHHHHHHHhhcCCCCCCCchh
Q 036340          464 EPRIE-HFASLVDIVGRHGRLEDAMDLIKGMP-F-EPDKAVWGALLGAC--RVHNNVELAQVAAEALMKVEPENSTPYVL  538 (579)
Q Consensus       464 ~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  538 (579)
                      .|+.. .-..+.+.+.+.|-..+|...+..+. . +|+...+..++..-  ...-+..-+...|+.+......++..|..
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~~lw~~  535 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADSDLWMD  535 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCChHHHHH
Confidence            34443 33567777778888888888888873 2 34677777776442  22234777888888888766677777777


Q ss_pred             hhhhhhhcCCchHHHHHHHHHH
Q 036340          539 LYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       539 l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ....-...|..+.+-.++-++.
T Consensus       536 y~~~e~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  536 YMKEELPLGRPENCGQIYWRAM  557 (568)
T ss_pred             HHHhhccCCCcccccHHHHHHH
Confidence            7777778888887777655443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.15  E-value=6.2  Score=28.65  Aligned_cols=60  Identities=12%  Similarity=0.244  Sum_probs=38.3

Q ss_pred             HHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHH
Q 036340          414 EALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVD  475 (579)
Q Consensus       414 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  475 (579)
                      +..+-+..+....+.|++......+++|.+.+++..|.++++.+..+.+  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            4555666666667788888888888888888888888888887766543  22335655543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.87  E-value=1.7  Score=25.37  Aligned_cols=28  Identities=21%  Similarity=0.181  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      .+++.+...+...|++++|..++++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4677888888888999999999988875

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=85.56  E-value=86  Score=37.22  Aligned_cols=147  Identities=10%  Similarity=0.035  Sum_probs=97.1

Q ss_pred             HHHHHHHccCCHHHHHHHhhcCC----CCc--hhhHHHHHHHHHhcCChhhHHHHHcc-CCCCCcchHHHHHHHHHhCCC
Q 036340           65 TVISGYAKTGEMEEALRLFNSMP----ARN--VVSWNAMISGFLQNGDVANAIEFFDR-MPGRDSASLSALVSGLIQNGE  137 (579)
Q Consensus        65 ~l~~~~~~~g~~~~A~~~~~~~~----~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~-~~~~~~~~~~~l~~~~~~~g~  137 (579)
                      .+..+-.+++.+..|...+++-.    +.+  ..-+..+...|...+++|....+... .-.   .+....+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~---~sl~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFAD---PSLYQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcC---ccHHHHHHHHHhhcc
Confidence            45556678899999999999832    211  22344455588888888888777663 222   233445556677899


Q ss_pred             HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHH-HHHHHhcC
Q 036340          138 LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSM-IMCYAKAG  216 (579)
Q Consensus       138 ~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~~  216 (579)
                      +..|...|+.+.+.   .|+....++-++......|.++..+-..+-...         ...+....++.+ ..+.-+.+
T Consensus      1465 ~~da~~Cye~~~q~---~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~---------~~se~~~~~~s~~~eaaW~l~ 1532 (2382)
T KOG0890|consen 1465 WADAAACYERLIQK---DPDKEKHHSGVLKSMLAIQHLSTEILHLDGLII---------NRSEEVDELNSLGVEAAWRLS 1532 (2382)
T ss_pred             HHHHHHHHHHhhcC---CCccccchhhHHHhhhcccchhHHHhhhcchhh---------ccCHHHHHHHHHHHHHHhhhc
Confidence            99999999999884   455566788888888888888888887766642         223444444433 34446777


Q ss_pred             CHHHHHHHHH
Q 036340          217 DVVSAREIFE  226 (579)
Q Consensus       217 ~~~~A~~~~~  226 (579)
                      +++.......
T Consensus      1533 qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1533 QWDLLESYLS 1542 (2382)
T ss_pred             chhhhhhhhh
Confidence            7777766655

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=85.39  E-value=3.4  Score=29.94  Aligned_cols=60  Identities=10%  Similarity=0.075  Sum_probs=38.1

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          313 GAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       313 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      +..+-++.+....+.|++......+.+|.+.+++..|.++++.++....+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHHH
Confidence            455556666666778888888888888888888888888888755555554445655543

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=85.33  E-value=2.1  Score=37.76  Aligned_cols=59  Identities=14%  Similarity=0.004  Sum_probs=50.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      +++.....|...|.+.+|.++-++++.++|-+.+.+-.|..++...|+--.|.+.++++
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            44555677889999999999999999999999999999999999999988888887766

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=85.17  E-value=0.53  Score=37.59  Aligned_cols=129  Identities=16%  Similarity=0.249  Sum_probs=77.2

Q ss_pred             HHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 036340          165 LIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYI  244 (579)
Q Consensus       165 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~  244 (579)
                      ++..+.+.+.+.....+++.+.        ..+...+....+.++..|++.++.++..++++..   +..-...++..+.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~--------~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~---~~yd~~~~~~~c~   81 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALV--------KENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS---NNYDLDKALRLCE   81 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHH--------HTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS---SSS-CTHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHH--------hcccccCHHHHHHHHHHHHhcCCchHHHHHcccc---cccCHHHHHHHHH
Confidence            5566677777888877887776        3333456778889999999998877777777632   2244455666677


Q ss_pred             hcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCc
Q 036340          245 HVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  311 (579)
                      +.|.++++.-++.++...+..     +..+...++++.|.+++.+.  +++..|..++..+...+..
T Consensus        82 ~~~l~~~a~~Ly~~~~~~~~a-----l~i~~~~~~~~~a~e~~~~~--~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   82 KHGLYEEAVYLYSKLGNHDEA-----LEILHKLKDYEEAIEYAKKV--DDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             TTTSHHHHHHHHHCCTTHTTC-----SSTSSSTHCSCCCTTTGGGC--SSSHHHHHHHHHHCTSTCT
T ss_pred             hcchHHHHHHHHHHcccHHHH-----HHHHHHHccHHHHHHHHHhc--CcHHHHHHHHHHHHhcCcc
Confidence            777777666665554311110     00122333444444333332  4577888888888776653

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.79  E-value=5.3  Score=33.71  Aligned_cols=78  Identities=14%  Similarity=0.098  Sum_probs=50.5

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      ....+..+.+.+.+.+++...+.-++   ..|.+...-..+++.++-.|+|++|..-++-....      .....+-..+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVk---akPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l------~p~~t~~a~l   74 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVK---AKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATL------SPQDTVGASL   74 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHh---cCCccccchhHHHHHHhhcchHHHHHHHHHHHhhc------CcccchHHHH
Confidence            34456667777888888888777666   44556666777788888888888887777665421      1223344555


Q ss_pred             HHHHHHH
Q 036340          205 WNSMIMC  211 (579)
Q Consensus       205 ~~~l~~~  211 (579)
                      |..++.+
T Consensus        75 yr~lir~   81 (273)
T COG4455          75 YRHLIRC   81 (273)
T ss_pred             HHHHHHH
Confidence            6666654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=84.43  E-value=7.2  Score=28.00  Aligned_cols=60  Identities=12%  Similarity=0.216  Sum_probs=40.4

Q ss_pred             HHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHH
Q 036340          413 TEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLV  474 (579)
Q Consensus       413 ~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  474 (579)
                      -++.+-+..+....+.|++......+++|.+.+++..|.++++.+..+.+.  +...|..++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~l   83 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHH
Confidence            355566666666677788888888888888888888888888876544332  333454443

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.28  E-value=55  Score=33.87  Aligned_cols=60  Identities=18%  Similarity=0.184  Sum_probs=38.3

Q ss_pred             HHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCC-------HHHHHHHHHhcCC
Q 036340          162 YNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGD-------VVSAREIFEQMLE  230 (579)
Q Consensus       162 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~~~~  230 (579)
                      .-.++-.|.+.|++++|.++.....         ..+......+...+..|....+       -++....|++...
T Consensus       114 ~Wa~Iyy~LR~G~~~~A~~~~~~~~---------~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r  180 (613)
T PF04097_consen  114 IWALIYYCLRCGDYDEALEVANENR---------NQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIR  180 (613)
T ss_dssp             HHHHHHHHHTTT-HHHHHHHHHHTG---------GGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTT
T ss_pred             cHHHHHHHHhcCCHHHHHHHHHHhh---------hhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhc
Confidence            4467778999999999999995543         2334445566677777766532       2455666666554

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=84.17  E-value=7.6  Score=32.55  Aligned_cols=77  Identities=17%  Similarity=0.050  Sum_probs=51.3

Q ss_pred             CHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcC
Q 036340          137 ELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAG  216 (579)
Q Consensus       137 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  216 (579)
                      .-+.|.+.|-.+...  +.-.++.....++..|. ..+.++++.++-.+.+..     ..+-.+|+..+.+|+..+.+.|
T Consensus       121 ~d~~A~~~fL~~E~~--~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~-----~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  121 GDQEALRRFLQLEGT--PELETAELQYALATYYT-KRDPEKTIQLLLRALELS-----NPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             CcHHHHHHHHHHcCC--CCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhc-----CCCCCCCHHHHHHHHHHHHHhc
Confidence            345677777666654  44455666666666665 567888888887776433     2223667778888888888888


Q ss_pred             CHHHH
Q 036340          217 DVVSA  221 (579)
Q Consensus       217 ~~~~A  221 (579)
                      +++.|
T Consensus       193 ~~e~A  197 (203)
T PF11207_consen  193 NYEQA  197 (203)
T ss_pred             chhhh
Confidence            88776

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=84.11  E-value=60  Score=34.18  Aligned_cols=24  Identities=4%  Similarity=0.029  Sum_probs=15.7

Q ss_pred             HHHHHhcccCcHHHHHHHHHHhHH
Q 036340          436 SVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       436 ~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      .|+......|++++|...+.++..
T Consensus       623 ~LA~l~~~~Gdl~~A~~~l~~~~~  646 (894)
T COG2909         623 MLAELEFLRGDLDKALAQLDELER  646 (894)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            455566667777777777666643

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=84.06  E-value=2  Score=22.08  Aligned_cols=18  Identities=22%  Similarity=0.427  Sum_probs=7.5

Q ss_pred             HHHHHHhcCChhhHHHHH
Q 036340           97 MISGFLQNGDVANAIEFF  114 (579)
Q Consensus        97 l~~~~~~~~~~~~A~~~~  114 (579)
                      +..++...|++++|..++
T Consensus         7 la~~~~~~G~~~eA~~~l   24 (26)
T PF07721_consen    7 LARALLAQGDPDEAERLL   24 (26)
T ss_pred             HHHHHHHcCCHHHHHHHH
Confidence            333444444444444433

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.72  E-value=12  Score=35.73  Aligned_cols=129  Identities=13%  Similarity=0.087  Sum_probs=77.3

Q ss_pred             hhcCCHHHHH-HHHHhccC-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHH
Q 036340          375 ARCGAIVEAR-IIFEEMKL-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQ  452 (579)
Q Consensus       375 ~~~~~~~~A~-~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  452 (579)
                      ...|++..|- +++..+.. +.++.........+...|+++.+...+....+ -+.....+...+++.....|+++.|..
T Consensus       300 ~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~-~~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        300 LADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEK-IIGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hhccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhh-hhcCCchHHHHHHHhhhchhhHHHHHH
Confidence            3456666554 44544442 22333333334445668889998888877653 244556688888888888999999988


Q ss_pred             HHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHH
Q 036340          453 HFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALL  506 (579)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~  506 (579)
                      .-+-|+.. .+ .+++....-+..--..|-++++.-.++++ . .+|....|..++
T Consensus       379 ~a~~~l~~-ei-e~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~  432 (831)
T PRK15180        379 TAEMMLSN-EI-EDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFL  432 (831)
T ss_pred             HHHHHhcc-cc-CChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeee
Confidence            87777643 22 23333333233334567788888888876 2 234444454444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.60  E-value=7.6  Score=34.82  Aligned_cols=102  Identities=9%  Similarity=0.079  Sum_probs=62.7

Q ss_pred             hcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCee-----eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh
Q 036340          358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVV-----SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI  432 (579)
Q Consensus       358 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~  432 (579)
                      .|.+....+...++..-....+++.++..+-.+...|+..     +-.+.++.+. .-++++++.++..=+.-|+.||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            3344444444455555555666777776666554233211     1122233333 234667888887777788888888


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      +++.+++.+.+.+++.+|..+.-.|+..
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            8888888888888888887776666544

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=82.67  E-value=5.3  Score=34.37  Aligned_cols=61  Identities=10%  Similarity=-0.056  Sum_probs=42.3

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .+...++...|++-++++....++...|.|..+|+.-+.+....=+.++|.+-|.+..+..
T Consensus       234 lNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ld  294 (329)
T KOG0545|consen  234 LNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELD  294 (329)
T ss_pred             HhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcC
Confidence            3344555667777777777777777777777777777777777767777777776665544

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=82.10  E-value=2.5  Score=35.86  Aligned_cols=53  Identities=15%  Similarity=0.147  Sum_probs=27.5

Q ss_pred             hcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          511 VHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +.+|.+.+.+.|.+++.+-|+....|..++....+.|+++.|...+++..+.+
T Consensus         7 ~~~D~~aaaely~qal~lap~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ld   59 (287)
T COG4976           7 ESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELD   59 (287)
T ss_pred             ccCChHHHHHHHHHHhhcCchhhhhhhhcchhhhhcccHHHHHHHHHHHHcCC
Confidence            44455555555555555555555555555555555555555555555544433

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.98  E-value=17  Score=26.37  Aligned_cols=72  Identities=18%  Similarity=0.203  Sum_probs=37.4

Q ss_pred             hHHHHHHHhhCC-CCC-cc-hHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCC
Q 036340           45 LEEARYLFDIMP-ERD-CV-TWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMP  118 (579)
Q Consensus        45 ~~~A~~~~~~~~-~~~-~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  118 (579)
                      .++|..+-+-+. .++ .. +--+-+..+.++|+|++|..+.+...-||...|.+|-.  .+.|-.+++..-+.++.
T Consensus        21 HqEA~tIAdwL~~~~~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla   95 (115)
T TIGR02508        21 HQEANTIADWLHLKGESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLA   95 (115)
T ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHH
Confidence            556655544443 221 11 11222345567777777777777776677766655432  34444444444444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.60  E-value=30  Score=32.57  Aligned_cols=27  Identities=15%  Similarity=0.362  Sum_probs=13.8

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK  391 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  391 (579)
                      .+.+...+..-|.  +++..+.+++++++
T Consensus       305 ~Pqlr~il~~fy~--sky~~cl~~L~~~k  331 (466)
T KOG0686|consen  305 EPQLREILFKFYS--SKYASCLELLREIK  331 (466)
T ss_pred             ChHHHHHHHHHhh--hhHHHHHHHHHHhc
Confidence            3344444443333  45666666666664

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=81.60  E-value=1.4  Score=35.16  Aligned_cols=83  Identities=19%  Similarity=0.160  Sum_probs=45.9

Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHH
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  517 (579)
                      +..+.+.+.+.....+++.+... +...+....+.++..|++.++.++..++++....    .-...++..|.+.|.+++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~----yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN----YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS----S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHHHcccccc----cCHHHHHHHHHhcchHHH
Confidence            44555566666666666666543 3334456666677777777666666666664321    222344555556666666


Q ss_pred             HHHHHHHH
Q 036340          518 AQVAAEAL  525 (579)
Q Consensus       518 A~~~~~~~  525 (579)
                      +..+|.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            66666553

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=81.46  E-value=17  Score=34.38  Aligned_cols=130  Identities=15%  Similarity=0.252  Sum_probs=0.0

Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCC------------cchhHHHHHHhhccCChHHHHHHHHhC---------------
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPR------------IEHFASLVDIVGRHGRLEDAMDLIKGM---------------  493 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~------------~~~~~~l~~~~~~~g~~~~A~~~~~~~---------------  493 (579)
                      +.....+.++...|..++.  ...|+            +.++..+..++.++|+.+.|.++++++               
T Consensus         4 f~hs~~Y~~~q~~F~~~v~--~~Dp~~l~~ll~~~PyHidtLlqls~v~~~~gd~~~A~~lleRALf~~e~~~~~~F~~~   81 (360)
T PF04910_consen    4 FEHSKAYQEAQEQFYAAVQ--SHDPNALINLLQKNPYHIDTLLQLSEVYRQQGDHAQANDLLERALFAFERAFHPSFSPF   81 (360)
T ss_pred             EeCCHHHHHHHHHHHHHHH--ccCHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHhhhh


Q ss_pred             -------------CCCCCHHHHHHHH---HHHhhcCCHHHHHHHHHHHhhcCCC-CCCCchhhhhhhh-hcCCchHHHHH
Q 036340          494 -------------PFEPDKAVWGALL---GACRVHNNVELAQVAAEALMKVEPE-NSTPYVLLYNMYA-DVGRWDDANEV  555 (579)
Q Consensus       494 -------------~~~~~~~~~~~l~---~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~-~~g~~~~A~~~  555 (579)
                                   ...-|...|.++.   ..+.+.|-+..|.+..+-++.++|. ||......+..|. +.+.++=-..+
T Consensus        82 ~~~~~~g~~rL~~~~~eNR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~  161 (360)
T PF04910_consen   82 RSNLTSGNCRLDYRRPENRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDF  161 (360)
T ss_pred             hcccccCccccCCccccchHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHH


Q ss_pred             HHHHHhCCCCC----CCccee
Q 036340          556 RLLMKSNNIKK----PTGYSW  572 (579)
Q Consensus       556 ~~~~~~~~~~~----~~~~~~  572 (579)
                      .+.......+.    .|++++
T Consensus       162 ~~~~~~~~~~~~~~~lPn~a~  182 (360)
T PF04910_consen  162 SESPLAKCYRNWLSLLPNFAF  182 (360)
T ss_pred             HHhHhhhhhhhhhhhCccHHH

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.07  E-value=42  Score=34.19  Aligned_cols=148  Identities=15%  Similarity=0.050  Sum_probs=72.3

Q ss_pred             cCChHHHHHHHHHhHh-------CCCCCChhhHHHHHHHhccc----C-cHHHHHHHHHHhHHhhCCCCCcchhHHHHHH
Q 036340          409 HGFATEALELFKSMRS-------FKVLPTYITFISVLSACAHA----G-LVEEGRQHFKSMVNEYGIEPRIEHFASLVDI  476 (579)
Q Consensus       409 ~~~~~~A~~~~~~~~~-------~~~~p~~~~~~~l~~~~~~~----~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  476 (579)
                      ..|.+.|+.+|+.+.+       .|.   ......+..+|.+.    . +.+.|..++...... + .|+..  ..++.+
T Consensus       262 ~~d~e~a~~~l~~aa~~~~~~a~~~~---~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~-g-~~~a~--~~lg~~  334 (552)
T KOG1550|consen  262 TQDLESAIEYLKLAAESFKKAATKGL---PPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAEL-G-NPDAQ--YLLGVL  334 (552)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHhhcC---CccccHHHHHHhcCCCCccccHHHHHHHHHHHHhc-C-CchHH--HHHHHH
Confidence            4566666666666655       342   22333344444432    2 556677777666432 2 22222  223333


Q ss_pred             hhcc---CChHHHHHHHHhCCCCCCHHHHHHHHHHHh----hcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc-CC
Q 036340          477 VGRH---GRLEDAMDLIKGMPFEPDKAVWGALLGACR----VHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV-GR  548 (579)
Q Consensus       477 ~~~~---g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~  548 (579)
                      +...   .+...|..+|..+...-....+..+...+.    ...+.+.|...++++.+.++  +.+...++..+... ++
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g~--~~A~~~~~~~~~~g~~~  412 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKGN--PSAAYLLGAFYEYGVGR  412 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHccC--hhhHHHHHHHHHHcccc
Confidence            3322   345677777766632223333333332221    23366777777777776663  23233333332222 66


Q ss_pred             chHHHHHHHHHHhCCCC
Q 036340          549 WDDANEVRLLMKSNNIK  565 (579)
Q Consensus       549 ~~~A~~~~~~~~~~~~~  565 (579)
                      ++.+.-.+..+.+.|..
T Consensus       413 ~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  413 YDTALALYLYLAELGYE  429 (552)
T ss_pred             ccHHHHHHHHHHHhhhh
Confidence            66666666665555543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	579
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-08
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	1e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	1e-07
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	7e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	3e-07
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	6e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-06
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	5e-06
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	2e-05
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	8e-06
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	3e-05
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	5e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	6e-05
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	8e-04
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	5e-04
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	6e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	8e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 61.0 bits (146), Expect = 7e-10
 Identities = 19/144 (13%), Positives = 48/144 (33%), Gaps = 10/144 (6%)

Query: 119 GRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDL-VRAYNTLIVGYGQRGRVEE 177
                 L A     +   +L  A  +LV    +    + L +  YN +++G+ ++G  +E
Sbjct: 124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKE 183

Query: 178 ARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVV-SAREIFEQMLERDTFSW 236
              +   +       +  +    +++S+ + + C  +      +     EQM +      
Sbjct: 184 LVYVLFMVK------DAGLTP--DLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQ 235

Query: 237 NTMISGYIHVLDMEEASNLFVKMP 260
               +  +   D         K+ 
Sbjct: 236 ALFTAVLLSEEDRATVLKAVHKVK 259

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 60.6 bits (145), Expect = 9e-10
 Identities = 27/185 (14%), Positives = 59/185 (31%), Gaps = 14/185 (7%)

Query: 229 LERDTFSWNTMISGYIHVLDMEEASNLFVKM-------PHPDTLTWNAMVSGYAQIGNLE 281
           L              +    +  A +L V                +NA++ G+A+ G  +
Sbjct: 123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFK 182

Query: 282 LALDFFKRMPQK----NLVSWNSMIAGCETNKDYEGAI-KLFIQMQVEGEKPDRHTFSSI 336
             +     +       +L+S+ + +          G I +   QM  EG K      + +
Sbjct: 183 ELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVL 242

Query: 337 LS--MSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLK 394
           LS    + ++     ++    +   + P V  +  L  +YA+ G +   ++      L  
Sbjct: 243 LSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQC 302

Query: 395 NVVSW 399
                
Sbjct: 303 LFEKQ 307

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 55.6 bits (132), Expect = 4e-08
 Identities = 22/186 (11%), Positives = 56/186 (30%), Gaps = 7/186 (3%)

Query: 321 MQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPIN-NALITMYARCGA 379
            +   E P     + +L  + G + L +        ++  +        A          
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 380 IVEARIIFEEMK------LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYIT 433
           +  A  +            L  +  +NA++ G A  G   E + +   ++   + P  ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM 493
           + + L             +     +++ G++ +    A L+    R   L+    +    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF 262

Query: 494 PFEPDK 499
              P  
Sbjct: 263 SLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.9 bits (125), Expect = 2e-07
 Identities = 24/237 (10%), Positives = 66/237 (27%), Gaps = 20/237 (8%)

Query: 23  QRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPER-------DCVTWNTVISGYAKTGE 75
                         + +     L  A +L  +   +           +N V+ G+A+ G 
Sbjct: 124 SGQQQRLLAFFKCCLLT---DQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGA 180

Query: 76  MEEALRLFNSMPAR----NVVSWNAMISGFLQNGDVANAIE-FFDRMPGRDSASLSALVS 130
            +E + +   +       +++S+ A +    +    A  IE   ++M        +   +
Sbjct: 181 FKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTA 240

Query: 131 GLIQNGELDEAARVLVKC--GSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVN 188
            L+   +     + + K                 + L+     +       KL   +   
Sbjct: 241 VLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTL 300

Query: 189 CDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIH 245
               E  +  +   ++    ++   K        +   + L+     W   +   + 
Sbjct: 301 QCLFEKQLHME---LASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRALR 354

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 56.4 bits (136), Expect = 2e-08
 Identities = 29/267 (10%), Positives = 76/267 (28%), Gaps = 31/267 (11%)

Query: 70  YAKTGEMEEALRLFNSMPARNVVSWNAMISG--FLQNGDVANAIEFFDR----MPGRDSA 123
                + + A +L        + +    + G  +    +   A E +            A
Sbjct: 177 NPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEA 236

Query: 124 SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRA-YNTLIVGYGQRGRVEEARKLF 182
               LVS  +   + +    + +   +        +R+ Y   +        +  A    
Sbjct: 237 -FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYL 295

Query: 183 DKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFS---WNTM 239
             I             +++                 +    I  ++LE D ++   +   
Sbjct: 296 SSINGL----------EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLH 345

Query: 240 ISGYIHVLDMEEASNLFVKM--PHPDT-LTWNAMVSGYAQIGNLELALDFFKR---MPQK 293
           ++      +  +   +   +   HP+  +TW A+   Y  +  +  A  +F +   M  +
Sbjct: 346 LASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQ 405

Query: 294 NLVSWNSMIAGCE--TNKDYEGAIKLF 318
              +W             +++ AI  +
Sbjct: 406 FGPAWIGF--AHSFAIEGEHDQAISAY 430

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 50.2 bits (120), Expect = 1e-06
 Identities = 40/352 (11%), Positives = 108/352 (30%), Gaps = 56/352 (15%)

Query: 5   YVKRREMAKARKLFDEMPQRDV---VSWNVMISGYISSRGSGFLEEARYLFDIMPERD-- 59
           Y       +A++ + E    D     +++ ++S ++ +    +    +  +    + D  
Sbjct: 210 YTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAA 269

Query: 60  --CVTWNTVISGYAKTGEMEEALRLFNSMPA--RNVVSWNAMISGFLQNGDVANAIEFFD 115
                +   ++  +   E+  A    +S+    ++                  + +    
Sbjct: 270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITT 329

Query: 116 RM----PGRDSASLSALVSGLIQNGELDEA---ARVLVKCGSRCDGGEDLVRAYNTLIVG 168
           ++    P          ++ L ++GE ++    +  LV          +    +  + + 
Sbjct: 330 KILEIDPYNLDV-YPLHLASLHESGEKNKLYLISNDLVDRHP------EKAVTWLAVGIY 382

Query: 169 YGQRGRVEEARKLFDK-IPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQ 227
           Y    ++ EAR+ F K   ++   G           +W      +A  G+   A   +  
Sbjct: 383 YLCVNKISEARRYFSKSSTMDPQFGP----------AWIGFAHSFAIEGEHDQAISAYTT 432

Query: 228 MLE---RDTFSWNTMISGYIHVL--DMEEASNLFVK----MPHPDTLTWNAMVSGYAQIG 278
                      +  +  G  H+   ++  A+           + D L  N +        
Sbjct: 433 AARLFQGTHLPYLFL--GMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKS 489

Query: 279 NLELALDFFKR----------MPQKNLVSWNSMIAGCETNKDYEGAIKLFIQ 320
           +++ A++ F+             +    +W ++       K Y+ AI    Q
Sbjct: 490 DMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQ 541

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 42/258 (16%), Positives = 70/258 (27%), Gaps = 50/258 (19%)

Query: 45  LEEARYLF----DIMPERDCVTWNTVISGYAKTGEMEEALRLFN---SMPARNVVSWNAM 97
             +   +     D  PE   VTW  V   Y    ++ EA R F+   +M  +   +W   
Sbjct: 355 KNKLYLISNDLVDRHPE-KAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGF 413

Query: 98  ISGFLQNGDVANAIEFFDR----MPGRDSASLS-ALVSGLIQNGELDEAARVLVKCGSRC 152
              F   G+   AI  +        G     L   +    +Q G +  A   L    +  
Sbjct: 414 AHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQ--HMQLGNILLANEYLQSSYALF 471

Query: 153 DGGEDLVRAYNTLIVGYGQRGRVEEARKLFDK-IPVNCDRGEGNVRFKRNIVSWNSMIMC 211
                     N L V    +  ++ A   F   + +           K    +W ++   
Sbjct: 472 Q---YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNE---KPWAATWANLGHA 525

Query: 212 YAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMV 271
           Y K     +A +   Q L                 L   +A+               A+ 
Sbjct: 526 YRKLKMYDAAIDALNQGLL----------------LSTNDAN------------VHTAIA 557

Query: 272 SGYAQIGNLELALDFFKR 289
             Y       LA+     
Sbjct: 558 LVYLHKKIPGLAITHLHE 575

>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 = 55.6 bits (133), Expect = 4e-08
 Identities = 69/459 (15%), Positives = 142/459 (30%), Gaps = 97/459 (21%)

Query: 169 YGQRGRVEEARKLFDKIPVNCDRGEGNV-RFKRNIVSWN-SMIM------CYAKAGDVVS 220
              +  V    +LF  +     + E  V +F   ++  N   +M          +     
Sbjct: 55  IMSKDAVSGTLRLFWTL---LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM--- 108

Query: 221 AREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKM----PHPDTLTWNAMVSGYAQ 276
              ++ +  +R  ++ N + + Y +V  ++    L   +    P       N ++ G   
Sbjct: 109 -TRMYIEQRDR-LYNDNQVFAKY-NVSRLQPYLKLRQALLELRPAK-----NVLIDGVLG 160

Query: 277 IGNLELALD------FFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDR 330
            G   +ALD         +M  K  + W ++          E   KL  Q+         
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFK--IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218

Query: 331 HTFSSILSMSSGIVDLHLGMQIHQMVTKT---VIPDVPINNALITMYARCGAIVEARIIF 387
           H+ +  L + S  +   L   +     +    V+ +V    A       C  ++  R   
Sbjct: 219 HSSNIKLRIHS--IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF-- 274

Query: 388 EEMKLLKNVVSWNAMIGGCASH--------GFAT-EALELFKS---MRSFKVLPTYITFI 435
                 K V   + +     +H             E   L       R    LP  +   
Sbjct: 275 ------KQVT--DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD-LPREVLTT 325

Query: 436 SVLSACAHAGLVEEGRQHFK--SMVNEYGIEPRIEHF-ASLVDIVGRHGRLED-AMDLIK 491
           +       A  + +G   +     VN   +   IE     L     R    +  ++    
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRK-MFDRLSV---- 380

Query: 492 GMPFEPD--------KAVWGALLGACRVHNNVE--LAQVAAEALMKVEPENSTPYVLLYN 541
              F P           +W  +     + ++V   + ++   +L++ +P+ ST    + +
Sbjct: 381 ---FPPSAHIPTILLSLIWFDV-----IKSDVMVVVNKLHKYSLVEKQPKESTIS--IPS 430

Query: 542 MYADVGRWDDANEVRL---LMKSNNIKKPTGYSWVDFSP 577
           +Y ++ +    NE  L   ++   NI K   +   D  P
Sbjct: 431 IYLEL-KVKLENEYALHRSIVDHYNIPK--TFDSDDLIP 466

>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 = 47.9 bits (113), Expect = 9e-06
 Identities = 83/561 (14%), Positives = 174/561 (31%), Gaps = 175/561 (31%)

Query: 6   VKRREMAKA--RKLFDEMPQRDVVSWNVMISGYISSRGSG----FLEEARYLFDIMPERD 59
           V R +      + L +  P ++V+     I G +   GSG     L+     + +  + D
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVL-----IDGVL---GSGKTWVALDVCLS-YKVQCKMD 181

Query: 60  C-VTWNTVISGYAKTGE--MEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAI-EFFD 115
             + W  +      + E  +E   +L   +        +   +  L+   +   +     
Sbjct: 182 FKIFWLNL--KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 116 RMPGRDSASLSALVSGL--IQNGELDEA----ARVLVKCGSRCDGGEDLVRAYNTLIVGY 169
             P  +   L  LV  L  +QN +   A     ++L+   +R     D + A  T  +  
Sbjct: 240 SKPYENC--L--LV--LLNVQNAKAWNAFNLSCKILLT--TRFKQVTDFLSAATTTHISL 291

Query: 170 GQRGRV---EEARKLFDKIPVNCDRGEGNVRFKRNIVSWN----SMIMCYAKAGDVVSAR 222
                    +E + L  K  ++C   +      R +++ N    S+I       D ++  
Sbjct: 292 DHHSMTLTPDEVKSLLLKY-LDCRPQD----LPREVLTTNPRRLSIIA--ESIRDGLATW 344

Query: 223 EIFEQMLERDTFSWNTMISGYIHVLDMEEASNLF---------VKMPHPDTLT--WNAMV 271
           + ++  +  D     T+I   ++VL+  E   +F           +P    L+  W  ++
Sbjct: 345 DNWKH-VNCDKL--TTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP-TILLSLIWFDVI 400

Query: 272 SGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRH 331
                       +    ++ + +LV            K                  P   
Sbjct: 401 K--------SDVMVVVNKLHKYSLV-----------EKQ-----------------PKES 424

Query: 332 TFSSILSMSSGIVDLHLGM--------QIHQ-MVTKTVIPDVPINNALIT----MY---- 374
           T S        I  ++L +         +H+ +V    IP    ++ LI      Y    
Sbjct: 425 TIS--------IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 375 --------ARCGAIVEARII-----FEEMKLLKNVVSWNAMIGGCASHGFATEALELFKS 421
                        +   R++     F E K+  +  +WNA          +   L   + 
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNA----------SGSILNTLQQ 526

Query: 422 MRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHG 481
           ++ +K    YI                +    ++ +VN       I  F   +  +  + 
Sbjct: 527 LKFYK---PYIC---------------DNDPKYERLVNA------ILDF---LPKIEENL 559

Query: 482 RLEDAMDLIKGMPFEPDKAVW 502
                 DL++      D+A++
Sbjct: 560 ICSKYTDLLRIALMAEDEAIF 580

>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 = 47.2 bits (111), Expect = 1e-05
 Identities = 71/498 (14%), Positives = 147/498 (29%), Gaps = 138/498 (27%)

Query: 45  LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQN 104
           +     LF  +  +       ++  +     +EE LR        N   +          
Sbjct: 61  VSGTLRLFWTLLSKQ----EEMVQKF-----VEEVLR-------IN-YKF---------- 93

Query: 105 GDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT 164
             + + I+   R P   +                    R+ ++   R      +   YN 
Sbjct: 94  --LMSPIKTEQRQPSMMT--------------------RMYIEQRDRLYNDNQVFAKYN- 130

Query: 165 LIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAK---AGDVVSA 221
                    R++   KL  +  +   R   NV     ++  + ++    K   A DV  +
Sbjct: 131 -------VSRLQPYLKL--RQALLELRPAKNV-----LI--DGVLGS-GKTWVALDVCLS 173

Query: 222 REIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLE 281
            ++ +  ++   F W  + +       +E    L  ++    T   +   +   +I +++
Sbjct: 174 YKV-QCKMDFKIF-WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQ 231

Query: 282 LAL-DFFKRMPQKN--LV---SWNSMIA-----GCET-----NK---DYEGAIK---LFI 319
             L    K  P +N  LV     N+         C+       K   D+  A     + +
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 320 QMQVEGEKPD--RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARC 377
                   PD  +      L       DL       +++T         N   +++ A  
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQ--DLP-----REVLT--------TNPRRLSIIAE- 335

Query: 378 GAIVEARIIFEEMKLLKNVVSW--NAMIGGCASHGFATEALELFKSMRSFKVLP--TYIT 433
            +I +    ++     K+V       +I    +     E  ++F       V P   +I 
Sbjct: 336 -SIRDGLATWDN---WKHVNCDKLTTIIESSLNVLEPAEYRKMFD---RLSVFPPSAHIP 388

Query: 434 FISVLSACAHAGLVEEGRQ-----HFKSMVNEYGIEPRIE----HFASLVDIVGR---HG 481
              +LS      +  +        H  S+V +   E  I     +    V +      H 
Sbjct: 389 -TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447

Query: 482 RLEDAMDLIKGMPFEPDK 499
            + D  ++ K   F+ D 
Sbjct: 448 SIVDHYNIPKT--FDSDD 463

>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 = 42.9 bits (100), Expect = 3e-04
 Identities = 43/327 (13%), Positives = 88/327 (26%), Gaps = 91/327 (27%)

Query: 206 NSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTL 265
                 Y    D++    +FE     + F    +      +L  EE  ++ +      + 
Sbjct: 12  GEHQYQY---KDIL---SVFEDAFVDN-FDCKDVQDMPKSILSKEEIDHI-IMSKDAVSG 63

Query: 266 TWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFI--QMQV 323
           T             L           Q+ +V             +Y+     F+   ++ 
Sbjct: 64  T-------LRLFWTLLSK--------QEEMVQ---KFVEEVLRINYK-----FLMSPIKT 100

Query: 324 EGEKPDRHT--FSSILSMSSGIVDLHLGMQI--HQMVTKTVIPDVPINNALITMYARCGA 379
           E  +P   T  +            +     +   Q   K       +  AL         
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK-------LRQAL--------- 144

Query: 380 IVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEAL--ELFKSMRSFKVLPTYITFISV 437
                    E++  KNV+  + +  G      A +       +    FK+   ++     
Sbjct: 145 --------LELRPAKNVLI-DGV-LGSGKTWVALDVCLSYKVQCKMDFKIF--WLNL--- 189

Query: 438 LSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMD----LIKGM 493
              C     V E  Q     ++      R +H +++        R+         L+K  
Sbjct: 190 -KNCNSPETVLEMLQKLLYQIDPNWTS-RSDHSSNIKL------RIHSIQAELRRLLKSK 241

Query: 494 PFEP---------DKAVWGALLGACRV 511
           P+E          +   W A   +C++
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKI 268

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio} Length = 307

 Score = 52.6 bits (126), Expect = 1e-07
 Identities = 23/169 (13%), Positives = 49/169 (28%), Gaps = 29/169 (17%)

Query: 70  YAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALV 129
                 M EA++                   +++NG    A    DR             
Sbjct: 86  LKDLQRMPEAVQYIEKA-----------SVMYVENGTPDTAAMALDRA------------ 122

Query: 130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRA---YNTLIVGYGQRGRVEEARKLFDKIP 186
             L++  +L +A  +  +  +  +  E L +A            ++ + +EA     K  
Sbjct: 123 GKLMEPLDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEK 182

Query: 187 VNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFS 235
                 E      +      + ++      D V+A++   +      FS
Sbjct: 183 SMYKEMENYPTCYK---KCIAQVLVQLHRADYVAAQKCVRESYSIPGFS 228

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio} Length = 307

 Score = 41.0 bits (96), Expect = 7e-04
 Identities = 17/189 (8%), Positives = 44/189 (23%), Gaps = 29/189 (15%)

Query: 156 EDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKA 215
           +     Y    V +    ++E+A+  + +          ++       ++    M     
Sbjct: 33  DSAASEYAKAAVAFKNAKQLEQAKDAYLQE-AEAHANNRSLFHAAK--AFEQAGMMLKDL 89

Query: 216 GDVVSAREIFEQMLE--------RDTFSWNTMISGYIHVLDMEEASNLFVK--------- 258
             +  A +  E+                        +  LD+ +A +L+ +         
Sbjct: 90  QRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEPLDLSKAVHLYQQAAAVFENEE 149

Query: 259 MPHPDTLTWNAMVSGYAQIGNLELALDFFKR-------MPQKNLV--SWNSMIAGCETNK 309
                            +    + A    ++       M           + +       
Sbjct: 150 RLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRA 209

Query: 310 DYEGAIKLF 318
           DY  A K  
Sbjct: 210 DYVAAQKCV 218

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 52.1 bits (125), Expect = 3e-07
 Identities = 32/308 (10%), Positives = 78/308 (25%), Gaps = 69/308 (22%)

Query: 36  YISSRGSGFLEEARYLFD---------IMPERDCVTWNTVISGYAKTGEMEEALRLFN-- 84
            I+ RG     EA + +          + PE   V   +   G      ++  L +    
Sbjct: 40  KIAKRGGVTAVEAVHAWRNALTGAPLNLTPE-QVVAIASHDGGKQALETVQRLLPVLCQA 98

Query: 85  -SMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAAR 143
             +  + VV+  +   G      V   +    +          A          L     
Sbjct: 99  HGLTPQQVVAIASHDGGKQALETVQRLLPVLCQ----------AH--------GLTP--- 137

Query: 144 VLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDK-IPVNCDRGEGNVRFKRNI 202
                        + V A  +   G      V+    +  +   +  +           +
Sbjct: 138 -------------EQVVAIASHDGGKQALETVQALLPVLCQAHGLTPE----------QV 174

Query: 203 VSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDMEEASNLFVK- 258
           V+  S          V     +  Q      +   +  +   G   +  ++    +  + 
Sbjct: 175 VAIASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLCQA 234

Query: 259 ---MPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYE 312
               P    +   +   G   +  ++  L    +      + +V+  S   G +  +  +
Sbjct: 235 HGLTPQ-QVVAIASNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQ 293

Query: 313 GAIKLFIQ 320
             + +  Q
Sbjct: 294 RLLPVLCQ 301

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.7 bits (98), Expect = 6e-04
 Identities = 21/181 (11%), Positives = 45/181 (24%), Gaps = 20/181 (11%)

Query: 59  DCVTWNTVISGYAKTGEMEEALRLFN---SMPARNVVSWNAMISGFLQNGDVANAIEFFD 115
             V   +   G      ++  L +      +  + VV+  +   G      V   +    
Sbjct: 275 QVVAIASNSGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNGGGKQALETVQRLLPVLC 334

Query: 116 RMPGRDSASLSALVS---GLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR 172
           +  G     + A+ S   G      +     VL +         + V A  +   G    
Sbjct: 335 QAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTP---EQVVAIASNGGGKQAL 391

Query: 173 GRVEEARKLFDK-IPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER 231
             V+    +  +   +  +           +V+  S          V     +  Q    
Sbjct: 392 ETVQRLLPVLCQAHGLTPE----------QVVAIASHDGGKQALETVQRLLPVLCQAHGL 441

Query: 232 D 232
            
Sbjct: 442 T 442

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 49.4 bits (117), Expect = 1e-06
 Identities = 26/219 (11%), Positives = 64/219 (29%), Gaps = 29/219 (13%)

Query: 45  LEEARYLFDIMPERDCVTWNTVI-SGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQ 103
           + E         +    T+  +  S Y      + ALR  +     ++      +   L+
Sbjct: 85  VAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLK 142

Query: 104 NGDVANAIEFFDRMPGRDSASL-----SALVSGLIQNGELDEAARVLVKCGSRCDGGEDL 158
              +  A +   +M  +D  +      +A VS      +L +A  +  +   +C      
Sbjct: 143 LDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC---SPT 199

Query: 159 VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDV 218
           +   N     +  +GR E A  +  +            +   +  +  ++++     G  
Sbjct: 200 LLLLNGQAACHMAQGRWEAAEGVLQEA---------LDKDSGHPETLINLVVLSQHLGKP 250

Query: 219 VSA-REIFEQMLERDTFSWNTMISGYIHVLDMEEASNLF 256
                    Q+ +            +  + +     N F
Sbjct: 251 PEVTNRYLSQLKDAH--------RSHPFIKEYRAKENDF 281

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 48.1 bits (114), Expect = 5e-06
 Identities = 38/296 (12%), Positives = 75/296 (25%), Gaps = 48/296 (16%)

Query: 40  RGSGFLEEARYLF--------DIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPA--- 88
              G  +EA  L                 V  + +       GE+  +L L         
Sbjct: 25  INDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMAR 84

Query: 89  ----RNVVSWNAMISGFL--QNGDVANAIEFFDR-------MPGRDSA----SLSALVSG 131
                +   W+ +    +    G +  A E  ++                   +      
Sbjct: 85  QHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQL 144

Query: 132 LIQNGELDEAARVLVKCGSRCD--GGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNC 189
           L     LDEA                +  ++    LI     RG ++ AR   +++    
Sbjct: 145 LWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLL 204

Query: 190 DRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT-------FSWNTMISG 242
             G+ +  +  N       ++ +   GD  +A        + +          W  +   
Sbjct: 205 GNGKYHSDWISNA--NKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA 262

Query: 243 YIHVLDMEEASNLFVKM--------PHPDTL-TWNAMVSGYAQIGNLELALDFFKR 289
            I + + E A  +  ++           D       +   Y Q G    A      
Sbjct: 263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLD 318

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 46.1 bits (109), Expect = 2e-05
 Identities = 37/263 (14%), Positives = 74/263 (28%), Gaps = 41/263 (15%)

Query: 5   YVKRREMAKARKLFDEMPQ-------RDVVSWNVMISGYISSRGSGFLEEARYLFD---- 53
              + E+ ++  L  +  Q            W+++    I     GFL+ A    +    
Sbjct: 63  LHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA-QGFLQTAWETQEKAFQ 121

Query: 54  IMPERD-------CVTWNTVISGYAKTGEMEEALRLF--------NSMPARNVVSWNAMI 98
           ++ E+                        ++EA            +  P + +     +I
Sbjct: 122 LINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI 181

Query: 99  SGFLQNGDVANAIEFFDRM--------PGRDSASLSALVSGLI--QNGELDEAARVLVKC 148
              L  GD+ NA    +R+           D  S +  V  +     G+   AA  L   
Sbjct: 182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT 241

Query: 149 GSRCDG-GEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNS 207
                     L   +  +       G  E A  + +++  N               +   
Sbjct: 242 AKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLR---LMSDLNRNLLL 298

Query: 208 MIMCYAKAGDVVSAREIFEQMLE 230
           +   Y +AG    A+ +    L+
Sbjct: 299 LNQLYWQAGRKSDAQRVLLDALK 321

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7 Length = 308

 Score = 47.0 bits (111), Expect = 8e-06
 Identities = 24/222 (10%), Positives = 54/222 (24%), Gaps = 42/222 (18%)

Query: 76  MEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLS----ALVSG 131
            E A+        +N++ + A                 ++R+   +    +      +  
Sbjct: 87  YERAISTLLK---KNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKF 143

Query: 132 LIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDR 191
             +   +     +  K          +      +   Y        A K+F+        
Sbjct: 144 ARRAEGIKSGRMIFKKAREDARTRHHVYVTAALME--YYCSKDKSVAFKIFEL------- 194

Query: 192 GEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEE 251
             G  ++        + I   +   +  + R +FE++L   +         +   L  E 
Sbjct: 195 --GLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFES 252

Query: 252 ASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQK 293
                                    IG+L   L   KR    
Sbjct: 253 ------------------------NIGDLASILKVEKRRFTA 270

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens} Length = 330

 Score = 45.0 bits (107), Expect = 3e-05
 Identities = 57/336 (16%), Positives = 97/336 (28%), Gaps = 57/336 (16%)

Query: 5   YVKRREMAKARKLFDEMPQRD---VVSWNVMISGYISSRGSGFLEEARYLF----DIMPE 57
           +    +     KL   + ++D        V I             E  YL     D+ P 
Sbjct: 32  HYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTL---VELNKANELFYLSHKLVDLYPS 88

Query: 58  RDCVTWNTVISGYAKTGEM-EEALRLFN---SMPARNVVSWNAMISGFLQNGDVANAIEF 113
            + V+W  V   Y   G   E A R  +   ++      +W A    F    +   A+  
Sbjct: 89  -NPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAA 147

Query: 114 FDR----MPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGY 169
           +      M G     +  +            A R   +  S      +     + + V  
Sbjct: 148 YFTAAQLMKGCHLP-MLYIGLEYGLTNNSKLAERFFSQALSIAP---EDPFVMHEVGVVA 203

Query: 170 GQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQML 229
            Q G  + A K F             V   +     N++     K      A +   Q L
Sbjct: 204 FQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQAL 263

Query: 230 ERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKR 289
                            L  + AS            T++A+   ++ +GN E A+D+F  
Sbjct: 264 V----------------LIPQNAS------------TYSAIGYIHSLMGNFENAVDYFHT 295

Query: 290 ---MPQKNLVSWNSMIAGC--ETNKDYEGAIKLFIQ 320
              + + +  S   M+  C      D E  I   I+
Sbjct: 296 ALGLRRDDTFSVT-MLGHCIEMYIGDSEAYIGADIK 330

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7 Length = 530

 Score = 45.2 bits (106), Expect = 5e-05
 Identities = 24/221 (10%), Positives = 54/221 (24%), Gaps = 42/221 (19%)

Query: 77  EEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLS----ALVSGL 132
           E A+        +N++ + A                 ++R+   +    +      +   
Sbjct: 310 ERAISTLLK---KNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFA 366

Query: 133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRG 192
            +   +     +  K          +      +   Y        A K+F+         
Sbjct: 367 RRAEGIKSGRMIFKKAREDARTRHHVYVTAALME--YYCSKDKSVAFKIFEL-------- 416

Query: 193 EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEA 252
            G  ++        + I   +   +  + R +FE++L   +         +   L  E  
Sbjct: 417 -GLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFES- 474

Query: 253 SNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQK 293
                                   IG+L   L   KR    
Sbjct: 475 -----------------------NIGDLASILKVEKRRFTA 492

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 45.0 bits (106), Expect = 6e-05
 Identities = 44/425 (10%), Positives = 108/425 (25%), Gaps = 59/425 (13%)

Query: 157 DLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN-IVSWNSMIMCYAKA 215
             V A  +   G      V+    +  +                  +V+  S        
Sbjct: 190 AQVVAIASNNGGKQALETVQRLLPVLCQA----------HGLTPAQVVAIASHDGGKQAL 239

Query: 216 GDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDMEEASNLFVKM----PHPDTLTWN 268
             +     +  Q          +  + I G   +  ++    +  +     P    +   
Sbjct: 240 ETMQRLLPVLCQAHGLPPDQVVAIASNIGGKQALETVQRLLPVLCQAHGLTPD-QVVAIA 298

Query: 269 AMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEG 325
           +   G   +  ++  L    +        +V+  S   G +  +  +  + +    Q  G
Sbjct: 299 SHGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVL--CQAHG 356

Query: 326 EKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIV---- 381
             PD+    +I S   G     L     Q +   +     +    +   A  G       
Sbjct: 357 LTPDQVV--AIASN--GGGKQALET--VQRLLPVLCQAHGLTPDQVVAIASNGGKQALET 410

Query: 382 --EARIIFEEMKLLK--NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISV 437
                 +  +   L    VV+  +  GG  +       L +    ++  + P  +     
Sbjct: 411 VQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLC--QTHGLTPAQVV---- 464

Query: 438 LSACAHAGLVEEGRQHFKSMVNEYG--IEPRIEHFASLV---DIVGRHGRLEDAM-DLIK 491
             A A     ++  +  + ++           +   ++            ++  +  L +
Sbjct: 465 --AIASHDGGKQALETVQQLLPVLCQAHGLTPDQVVAIASNIGGKQALATVQRLLPVLCQ 522

Query: 492 GMPFEPDKAV-WGALLGACRVHNNVELAQVAAEALMKV---EPENSTPYVLLYNMYADVG 547
                PD+ V   +  G  +    +E  Q     L +     P+              + 
Sbjct: 523 AHGLTPDQVVAIASNGGGKQ---ALETVQRLLPVLCQAHGLTPDQVVAIASNGGGKQALE 579

Query: 548 RWDDA 552
                
Sbjct: 580 TVQRL 584

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 41.6 bits (97), Expect = 8e-04
 Identities = 26/213 (12%), Positives = 55/213 (25%), Gaps = 29/213 (13%)

Query: 90  NVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVS---GLIQNGELDEAARVLV 146
            VV+  +   G      V   +    +  G   A + A+ S   G      +     VL 
Sbjct: 191 QVVAIASNNGGKQALETVQRLLPVLCQAHGLTPAQVVAIASHDGGKQALETMQRLLPVLC 250

Query: 147 KCGSRCDGGE---DLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN-I 202
           +            D V A  + I G      V+    +  +                + +
Sbjct: 251 Q------AHGLPPDQVVAIASNIGGKQALETVQRLLPVLCQA----------HGLTPDQV 294

Query: 203 VSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDMEEASNLFVKM 259
           V+  S          V     +  Q          +  +   G   +  ++    +  + 
Sbjct: 295 VAIASHGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLCQA 354

Query: 260 --PHPD-TLTWNAMVSGYAQIGNLELALDFFKR 289
               PD  +   +   G   +  ++  L    +
Sbjct: 355 HGLTPDQVVAIASNGGGKQALETVQRLLPVLCQ 387

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A Length = 450

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 39/284 (13%), Positives = 84/284 (29%), Gaps = 51/284 (17%)

Query: 70  YAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDR----MPGRDSASL 125
                   +++         +V     +    L  G +A+A+  F       P  +  + 
Sbjct: 13  LGTENLYFQSMA--------DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAY 63

Query: 126 SALVSGLIQNGELDEAA----RVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKL 181
               +  +  G+   A     +V+     +     D   A         ++G+++EA   
Sbjct: 64  YRRATVFLAMGKSKAALPDLTKVI-----QLK--MDFTAARLQRGHLLLKQGKLDEAEDD 116

Query: 182 FDKI----PVNCD--RGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE---RD 232
           F K+    P   +    +  +     +    S  +    +GD  +A    +++LE    D
Sbjct: 117 FKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWD 176

Query: 233 TFSWNTMISGYIHVLDMEEASNLFVKMPH--PD-TLTWNAMVSGYAQIGNLELALDFFK- 288
                     +I   +  +A +          D T  +  + + Y Q+G+ EL+L   + 
Sbjct: 177 AELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRE 236

Query: 289 --------------RMPQKNLVSWNSMIAGCETNKDYEGAIKLF 318
                             K L            +  Y  A   +
Sbjct: 237 CLKLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKY 280

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 41.5 bits (98), Expect = 6e-04
 Identities = 41/255 (16%), Positives = 84/255 (32%), Gaps = 37/255 (14%)

Query: 90  NVVSWNAMISGFLQNGDVANAIEFFDR----MPGRDSASLSALVSGLIQNGELDEAA--- 142
           +V     +    L  G +A+A+  F       P  +  +     +  +  G+   A    
Sbjct: 2   DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDL 60

Query: 143 -RVLVKCGSRCDGGE---DLVRAYNTLIVGYGQRGRVEEARKLFDKI----PVNCD--RG 192
            +V+              D   A         ++G+++EA   F K+    P   +    
Sbjct: 61  TKVI----------ALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEA 110

Query: 193 EGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNTMISGYIHVLDM 249
           E  +     +    S  +      D  +A    +++LE    D          +I   + 
Sbjct: 111 ESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEP 170

Query: 250 EEASNLFVKMPH--PD-TLTWNAMVSGYAQIGNLELALDFFK---RMPQKNLVSWNSMIA 303
            +A +          D T  +  + + Y Q+G+ EL+L   +   ++ Q +   +     
Sbjct: 171 RKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQ 230

Query: 304 GCETNKDYEGAIKLF 318
             + NK  E A +L 
Sbjct: 231 VKKLNKLIESAEELI 245

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1 Length = 388

 Score = 41.0 bits (97), Expect = 8e-04
 Identities = 35/268 (13%), Positives = 93/268 (34%), Gaps = 35/268 (13%)

Query: 70  YAKTGEMEEALRLFN---SMPARNVVSWNAMISGFLQNGDVANAIEFFDRM----PGRDS 122
           + +   ++ +                +++ + + + + G +  AIE +       P    
Sbjct: 43  HFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKP-DFI 101

Query: 123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLF 182
                L + L+  G+++ A +  V          DL    + L       GR+EEA+  +
Sbjct: 102 DGYINLAAALVAAGDMEGAVQAYVSALQYNP---DLYCVRSDLGNLLKALGRLEEAKACY 158

Query: 183 DKIPVNCDRGEGNVRFK-RNIVSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNT 238
            K           +  +    V+W+++   +   G++  A   FE+ +        ++  
Sbjct: 159 LKA----------IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYIN 208

Query: 239 MISGYIHVLDMEEASNLFVK----MPHPDTLTWNAMVSGYAQIGNLELALDFFKRM---- 290
           + +        + A   +++     P+   +    +   Y + G ++LA+D ++R     
Sbjct: 209 LGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ 267

Query: 291 PQKNLVSWNSMIAGCETNKDYEGAIKLF 318
           P     ++ ++    +       A   +
Sbjct: 268 P-HFPDAYCNLANALKEKGSVAEAEDCY 294

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	579
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.84
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.84
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.8
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.71
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.7
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.68
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.64
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.6
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.59
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.59
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.58
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.58
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.57
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.56
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.56
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.55
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.53
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.52
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.49
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.48
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.47
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.46
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.44
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.43
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.38
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.38
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.37
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.37
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.34
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.34
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.33
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.33
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.23
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.19
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.19
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.18
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.18
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.18
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.18
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.1
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.1
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.09
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.08
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.07
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.07
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.06
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.02
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.01
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.0
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.98
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.98
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.96
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.93
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.93
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.93
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.93
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.92
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.92
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.86
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.85
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.81
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.79
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.79
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.79
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.79
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.79
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.77
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.76
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.76
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.75
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.74
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.73
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.73
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.72
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.72
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.71
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.7
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.64
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.64
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.62
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.62
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.61
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.61
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.56
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.56
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.56
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.56
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.54
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.53
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.52
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.52
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.52
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.5
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.5
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.49
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.48
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.46
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.45
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.45
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.44
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.44
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.43
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.41
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.4
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.39
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.38
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.38
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.37
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.36
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.36
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.35
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.34
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.34
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.32
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.32
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.29
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.26
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.26
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.24
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.23
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.22
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.21
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.2
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.18
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.17
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.15
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.14
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.13
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.1
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.06
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.05
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.99
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.99
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.99
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.91
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.89
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.86
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.83
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.78
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.71
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.69
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.64
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.58
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.56
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.55
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.47
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.46
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.38
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.34
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.21
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.15
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.05
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.03
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.03
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.01
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.0
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.98
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.89
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.89
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.79
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.72
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.7
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.62
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.6
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.3
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.82
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.7
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.56
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.4
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.37
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.77
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.68
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.36
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	94.24
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.16
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.15
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.83
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.51
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	92.51
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.46
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.23
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	92.13
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	92.11
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	90.97
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.5
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	90.33
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	90.07
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.57
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	89.46
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.42
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.17
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.49
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	86.46
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	86.12
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	85.97
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.49
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.35
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.34
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	85.1
2p58_C	116	Putative type III secretion protein YSCG; type III	84.98
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.88
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	84.76
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	83.36
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.3
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.99
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	82.72
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.33

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.4e-42  Score=351.54  Aligned_cols=506  Identities=9%  Similarity=-0.007  Sum_probs=301.3

Q ss_pred             CCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCC--CCCcchHHHHHHHHHccCCHHHHHHHhhc
Q 036340            8 RREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMP--ERDCVTWNTVISGYAKTGEMEEALRLFNS   85 (579)
Q Consensus         8 ~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~   85 (579)
                      .|.+..+...+..+..+++..|+.++..+.+.|+   +++|..+|+++.  .|+..++..++.+|.+.|++++|+.+|++
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  142 (597)
T 2xpi_A           66 DGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQ---YKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTK  142 (597)
T ss_dssp             ----------------CHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCccCCCCCccccchHHHHHHHHHHHHHHHHccC---chHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            3444444555555544555556666666665555   666666665554  34555555566666666666666666665


Q ss_pred             CC--CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHH
Q 036340           86 MP--ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYN  163 (579)
Q Consensus        86 ~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  163 (579)
                      +.  ++++.+++.++.+|.+.|++++|+++|+++...+...     .++...             .....+.+.+..+|+
T Consensus       143 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-----~~~~~~-------------~~~~~~~~~~~~~~~  204 (597)
T 2xpi_A          143 EDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDE-----KNANKL-------------LMQDGGIKLEASMCY  204 (597)
T ss_dssp             TCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------------------------CCCSSCCHHHHHHH
T ss_pred             HhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccc-----cccccc-------------cccccccchhHHHHH
Confidence            53  4555556666666666666666666665432222000     000000             000002233455566


Q ss_pred             HHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHH---HHhcCCCC----hhHH
Q 036340          164 TLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREI---FEQMLERD----TFSW  236 (579)
Q Consensus       164 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~---~~~~~~~~----~~~~  236 (579)
                      .++.+|.+.|++++|.++|+++..        .+ +.+...+..++..+...+..+.+...   +..+...+    ...|
T Consensus       205 ~l~~~~~~~g~~~~A~~~~~~~~~--------~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  275 (597)
T 2xpi_A          205 LRGQVYTNLSNFDRAKECYKEALM--------VD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLY  275 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--------HC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--------hC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHH
Confidence            666666666666666666666541        11 22344444444433333222221111   22222221    2233


Q ss_pred             HHHHHHHHhcCChHHHHHHhhcCCC--CChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCc
Q 036340          237 NTMISGYIHVLDMEEASNLFVKMPH--PDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~  311 (579)
                      +.++..|.+.|++++|..+|+++..  ++..++..++.+|.+.|++++|..+|+++.+   .+..++..++.++.+.|++
T Consensus       276 ~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  355 (597)
T 2xpi_A          276 MLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEK  355 (597)
T ss_dssp             HTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCH
Confidence            4445555556666666666666653  5666666666666667777777766666642   3455666777777777777


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK  391 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  391 (579)
                      ++|..+++++.+.. ..+..++..++..+.+.|+++.|..+++......+.+..++..++.+|.+.|++++|.++|+++.
T Consensus       356 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  434 (597)
T 2xpi_A          356 NKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAA  434 (597)
T ss_dssp             HHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777766432 23455555555666666666666666655333344556677788888888888888888888764


Q ss_pred             --CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhh---CCCCC
Q 036340          392 --LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEY---GIEPR  466 (579)
Q Consensus       392 --~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~  466 (579)
                        .+.+..+|+.++.+|.+.|++++|+++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+..   +..|+
T Consensus       435 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          435 RLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             HTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             HhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence              34467778888888888888888888888887642 3356688888888888888888888888886542   44565


Q ss_pred             --cchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          467 --IEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       467 --~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                        ..++..++.+|.+.|++++|...++++ .. +.+..+|..++.+|...|++++|...|+++++++|+++.++..++.+
T Consensus       514 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~  593 (597)
T 2xpi_A          514 PWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRA  593 (597)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence              567888888888888888888888876 22 33677888888888888888888888888888888888878877777


Q ss_pred             hhh
Q 036340          543 YAD  545 (579)
Q Consensus       543 ~~~  545 (579)
                      |..
T Consensus       594 ~~~  596 (597)
T 2xpi_A          594 LEE  596 (597)
T ss_dssp             TC-
T ss_pred             Hhc
Confidence            653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=7.3e-41  Score=341.72  Aligned_cols=487  Identities=10%  Similarity=-0.020  Sum_probs=393.4

Q ss_pred             HHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC--CCcchHHHHHHHHHhCCCHHHHHHHHHH
Q 036340           70 YAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG--RDSASLSALVSGLIQNGELDEAARVLVK  147 (579)
Q Consensus        70 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~  147 (579)
                      +...|....+...+..+..+++..|+.++..+.+.|++++|+.+|+++..  |+..++..++.++.+.|++++|..+|+.
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  142 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTK  142 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            44567777777778777778888999999999999999999999998854  6667888899999999999999999998


Q ss_pred             hccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccC-------CCCCCCccCCcchHHHHHHHHHHHhcCCHHH
Q 036340          148 CGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNC-------DRGEGNVRFKRNIVSWNSMIMCYAKAGDVVS  220 (579)
Q Consensus       148 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  220 (579)
                      +...    +++..+++.++.+|.+.|++++|.++|+++....       .......+.+++..+|+.++.+|.+.|++++
T Consensus       143 ~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          143 EDLY----NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             TCGG----GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             Hhcc----ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            8653    6677899999999999999999999999654211       0001122446679999999999999999999


Q ss_pred             HHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHH---hhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHccC
Q 036340          221 AREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNL---FVKMP----HPDTLTWNAMVSGYAQIGNLELALDFFKRM  290 (579)
Q Consensus       221 A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~---~~~~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  290 (579)
                      |.+.|+++++.   +...+..+...+...+..+.+...   +..+.    .....+|+.++..|.+.|++++|.++|+++
T Consensus       219 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  298 (597)
T 2xpi_A          219 AKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSI  298 (597)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHh
Confidence            99999999764   344555555544433332222111   11111    122345666688899999999999999999


Q ss_pred             CC--CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHH
Q 036340          291 PQ--KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINN  368 (579)
Q Consensus       291 ~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  368 (579)
                      .+  ++..+|+.++..|.+.|++++|..+|+++.+.+.. +..++..++.++...|+.+.|..+++......+.+..++.
T Consensus       299 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  377 (597)
T 2xpi_A          299 NGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWL  377 (597)
T ss_dssp             TTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHH
T ss_pred             hcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHH
Confidence            88  78999999999999999999999999999987643 7788999999999999999999999996677788899999


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCc
Q 036340          369 ALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGL  446 (579)
Q Consensus       369 ~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  446 (579)
                      .++.+|.+.|++++|.++|+++.  .+.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+.|+
T Consensus       378 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~  456 (597)
T 2xpi_A          378 AVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGN  456 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCC
Confidence            99999999999999999999874  34467799999999999999999999999999753 3466799999999999999


Q ss_pred             HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-------CCCCC--HHHHHHHHHHHhhcCCHHH
Q 036340          447 VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-------PFEPD--KAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       447 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~--~~~~~~l~~~~~~~~~~~~  517 (579)
                      +++|.++|+++.+.  .+.+..+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|++++
T Consensus       457 ~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~  534 (597)
T 2xpi_A          457 ILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDA  534 (597)
T ss_dssp             HHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHH
Confidence            99999999999864  2346788999999999999999999999987       34676  7799999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          518 AQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       518 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      |+..++++++..|+++.+|..++.+|...|++++|.++++++.+...
T Consensus       535 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          535 AIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999987654

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=4.3e-29  Score=240.02  Aligned_cols=370  Identities=14%  Similarity=0.139  Sum_probs=275.3

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHH
Q 036340          128 LVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNS  207 (579)
Q Consensus       128 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (579)
                      ++..+.+.|++++|++.++.+.+   ..|.+...+..+...+...|++++|...++.+..         ..+.+..+|..
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~---------~~p~~~~~~~~   72 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWR---QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK---------QNPLLAEAYSN   72 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---------HCTTCHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---------cCCCchHHHHH
Confidence            34556677888888888877776   3455666777777778888888888888877752         22456777888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC--CC-ChhhHHHHHHHHHhcCCHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLE--R-DTFSWNTMISGYIHVLDMEEASNLFVKMP--HP-DTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~  281 (579)
                      ++.++.+.|++++|...|+++++  | +..+|..++.++...|++++|...|+++.  .| +...+..+...+...|+++
T Consensus        73 lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  152 (388)
T 1w3b_A           73 LGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLE  152 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHH
Confidence            88888888888888888877743  2 33456666666666666666666666554  23 3345556666666667777


Q ss_pred             HHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhh
Q 036340          282 LALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTK  358 (579)
Q Consensus       282 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  358 (579)
                      +|...|+++.+   .+..+|..+...+...|++++|...|+++.+.+                                 
T Consensus       153 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---------------------------------  199 (388)
T 1w3b_A          153 EAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD---------------------------------  199 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC---------------------------------
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---------------------------------
Confidence            77777666553   234566666666666666666666666665532                                 


Q ss_pred             cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHH
Q 036340          359 TVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFI  435 (579)
Q Consensus       359 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~  435 (579)
                        +.+...+..+...+...|++++|...|++.. ..| +..++..++.++...|++++|+..|+++.+.  .|+ ..++.
T Consensus       200 --p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~  275 (388)
T 1w3b_A          200 --PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYC  275 (388)
T ss_dssp             --TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHH
T ss_pred             --CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHH
Confidence              2334455667778888888888888888764 334 5677888999999999999999999999864  454 45888


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          436 SVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       436 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      .+...+...|++++|...++++++.  .+++..++..++.++.+.|++++|...++++ ...| +..++..++.++.+.|
T Consensus       276 ~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  353 (388)
T 1w3b_A          276 NLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQG  353 (388)
T ss_dssp             HHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcC
Confidence            8899999999999999999999864  2446788889999999999999999999887 4444 6778899999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ++++|+..|+++++..|+++.++..++.++...|+
T Consensus       354 ~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          354 KLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             CCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999999999999999999999999988877664

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=9.3e-28  Score=230.68  Aligned_cols=349  Identities=14%  Similarity=0.104  Sum_probs=305.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLE--R-DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      ++..+.+.|++++|.+.+.++.+  | +...+..+...+...|++++|...++...   +.+..++..++..+.+.|+++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            46678899999999999998854  3 45667778888999999999999998876   567789999999999999999


Q ss_pred             HHHHHHccCCC--C-ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC-hhhHHHHHHhccCCCchhhHHHHHHHHh
Q 036340          282 LALDFFKRMPQ--K-NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD-RHTFSSILSMSSGIVDLHLGMQIHQMVT  357 (579)
Q Consensus       282 ~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  357 (579)
                      +|...|+++.+  | +...|..++.++...|++++|...|+++.+..  |+ ...+..+...+...|+++.|...++...
T Consensus        85 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999998864  4 45579999999999999999999999998764  44 4456667778889999999999999966


Q ss_pred             hcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhH
Q 036340          358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITF  434 (579)
Q Consensus       358 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~  434 (579)
                      ...+.+..++..+...+...|++++|...|+++.  .+.+...|..+...+...|++++|+..+++..+.  .|+ ..++
T Consensus       163 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  240 (388)
T 1w3b_A          163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVH  240 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHH
Confidence            6677788899999999999999999999999875  3345667889999999999999999999999864  565 5588


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhh
Q 036340          435 ISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRV  511 (579)
Q Consensus       435 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~  511 (579)
                      ..+..++...|++++|...++++++.   .| +..++..++.++.+.|++++|...++++ . .+++..++..++..+..
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  317 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKRE  317 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHH
Confidence            89999999999999999999999853   44 5678999999999999999999999988 2 34578899999999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          512 HNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       512 ~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .|++++|+..++++++..|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       318 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          318 QGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             TTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            9999999999999999999999999999999999999999999999998754

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.94  E-value=9.1e-26  Score=219.56  Aligned_cols=182  Identities=14%  Similarity=0.165  Sum_probs=145.2

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCc---------hhhHHHHHHH-HhhcCCCCchH
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVD---------LHLGMQIHQM-VTKTVIPDVPI  366 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---------~~~a~~~~~~-~~~~~~~~~~~  366 (579)
                      .++.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|...+.         .+.|.++++. ...++.||..+
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            5677778888888888888888888888888888888888887765443         5667777776 77788888888


Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhcc---CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc
Q 036340          367 NNALITMYARCGAIVEARIIFEEMK---LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH  443 (579)
Q Consensus       367 ~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  443 (579)
                      |+.++.+|++.|++++|.++|++|.   ..||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|++
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~  187 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMD  187 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhh
Confidence            8888888888888888888888875   5678888888888888888888888888888888888888888888888888


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc
Q 036340          444 AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR  479 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  479 (579)
                      .|++++|.+++++|.+. +..|+..||+.+...+..
T Consensus       188 ~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          188 TKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhc
Confidence            88888888888888655 888888888877776654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=8.5e-25  Score=218.70  Aligned_cols=273  Identities=8%  Similarity=-0.064  Sum_probs=189.0

Q ss_pred             hhhHHHHHHHHHh---cCCHHHHHHHHccCCC-----C------------ChhhHHHHHHHHHhCCCchHHHHHHHHHHH
Q 036340          264 TLTWNAMVSGYAQ---IGNLELALDFFKRMPQ-----K------------NLVSWNSMIAGCETNKDYEGAIKLFIQMQV  323 (579)
Q Consensus       264 ~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~-----~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  323 (579)
                      ...+......+..   .|++++|..+|+++.+     .            +...+..+...+...|++++|...|+++.+
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~  265 (514)
T 2gw1_A          186 ADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIE  265 (514)
T ss_dssp             HHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            3444444444443   7778888877776543     1            234566777788888888888888888877


Q ss_pred             cCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHH
Q 036340          324 EGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNA  401 (579)
Q Consensus       324 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~  401 (579)
                      ....  ...+..+..++...|+++.|...++......+.+..++..++..+...|++++|...|++..  .+.+...+..
T Consensus       266 ~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  343 (514)
T 2gw1_A          266 LFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQ  343 (514)
T ss_dssp             HCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHH
T ss_pred             hCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHH
Confidence            6433  66677777777788888888888777555566677777778888888888888888877763  2334556777


Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHh
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIV  477 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~  477 (579)
                      ++..+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++++.....-.++    ...+..++.++
T Consensus       344 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~  422 (514)
T 2gw1_A          344 LACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLL  422 (514)
T ss_dssp             HHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHH
Confidence            7777777888888888888777532 223446777777777888888888888777654222222    22677777777


Q ss_pred             hc---cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          478 GR---HGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       478 ~~---~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      ..   .|++++|...++++ ...| +...+..++.++...|++++|...+++++++.|+++..+..+
T Consensus       423 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          423 TRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             HTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             hhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            77   78888888777776 2223 566777777777788888888888888888887766554443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.94  E-value=5.8e-25  Score=221.18  Aligned_cols=427  Identities=12%  Similarity=0.055  Sum_probs=321.0

Q ss_pred             chhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHH
Q 036340           90 NVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLI  166 (579)
Q Consensus        90 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~  166 (579)
                      ....+..+...+.+.|++++|++.|+++..   .++..+..++.++...|++++|++.++++.+   ..|.+..++..++
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~la  100 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALE---IKPDHSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCchHHHHHHHH
Confidence            345778889999999999999999998754   4667888899999999999999999999988   4567788999999


Q ss_pred             HHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh------hHHHHHH
Q 036340          167 VGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDT------FSWNTMI  240 (579)
Q Consensus       167 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~l~  240 (579)
                      .++...|++++|...|+.+.           ..|+.  ....+..+...+....|...+++++..++      ......+
T Consensus       101 ~~~~~~g~~~~A~~~~~~~~-----------~~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~  167 (537)
T 3fp2_A          101 SANESLGNFTDAMFDLSVLS-----------LNGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSL  167 (537)
T ss_dssp             HHHHHHTCHHHHHHHHHHHC------------------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHh-----------cCCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHH
Confidence            99999999999999997442           12322  22334455666677889999998866421      1233455


Q ss_pred             HHHHhcCChHHHHHHhhcCCCCChh---hHHHHHHHHHhc--------CCHHHHHHHHccCCC--CC--------hhhHH
Q 036340          241 SGYIHVLDMEEASNLFVKMPHPDTL---TWNAMVSGYAQI--------GNLELALDFFKRMPQ--KN--------LVSWN  299 (579)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~--------g~~~~A~~~~~~~~~--~~--------~~~~~  299 (579)
                      ..+....+.+.+...+......+..   ....+...+...        |++++|..+|+++.+  |+        ..++.
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~  247 (537)
T 3fp2_A          168 ASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALC  247 (537)
T ss_dssp             HHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHH
T ss_pred             HHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHH
Confidence            6667778888888888777643332   334444333322        478899999988876  32        12466


Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCC
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGA  379 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  379 (579)
                      .+...+...|++++|...|+++.+..  |+...+..+...+...|+++.|...++......+.+..++..++..+...|+
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  325 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQD  325 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCC
Confidence            67778889999999999999998864  5577888888899999999999999998666667788889999999999999


Q ss_pred             HHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          380 IVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       380 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      +++|...|++..  .+.+...+..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|...++++
T Consensus       326 ~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          326 YKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            999999998874  33456788889999999999999999999988642 233458888888999999999999999988


Q ss_pred             HHhhCCCCCc----chhHHHHHHhhcc----------CChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHHHHH
Q 036340          458 VNEYGIEPRI----EHFASLVDIVGRH----------GRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELAQVA  521 (579)
Q Consensus       458 ~~~~~~~~~~----~~~~~l~~~~~~~----------g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~  521 (579)
                      ++.....++.    ..+..++.++.+.          |++++|...++++ ... .+...+..++.++...|++++|...
T Consensus       405 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  484 (537)
T 3fp2_A          405 KRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIEL  484 (537)
T ss_dssp             HHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            7653212211    1234445677777          9999999999887 333 3677888888999999999999999


Q ss_pred             HHHHhhcCCCCCCC
Q 036340          522 AEALMKVEPENSTP  535 (579)
Q Consensus       522 ~~~~~~~~p~~~~~  535 (579)
                      |++++++.|.++..
T Consensus       485 ~~~al~~~~~~~~~  498 (537)
T 3fp2_A          485 FEDSAILARTMDEK  498 (537)
T ss_dssp             HHHHHHHC--CHHH
T ss_pred             HHHHHHhCCCcHHH
Confidence            99999999887653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=1.4e-24  Score=217.07  Aligned_cols=392  Identities=11%  Similarity=-0.022  Sum_probs=310.9

Q ss_pred             hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhH
Q 036340          159 VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE--R-DTFS  235 (579)
Q Consensus       159 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~  235 (579)
                      ...+...+..+.+.|++++|+..|+++.          ...|+..++..++.++.+.|++++|...++++++  | +..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al----------~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~   75 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWAL----------ELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKV   75 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHH----------HHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHH----------hcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHH
Confidence            4567888999999999999999999998          2347899999999999999999999999998864  3 5678


Q ss_pred             HHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHH-------------------------
Q 036340          236 WNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFF-------------------------  287 (579)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~-------------------------  287 (579)
                      +..++.++...|++++|...|+++.   +++......++..+........+.+.+                         
T Consensus        76 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  155 (514)
T 2gw1_A           76 LLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQ  155 (514)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhc
Confidence            9999999999999999999999886   333333333333333222222221111                         


Q ss_pred             -------------ccCCC---------C-ChhhHHHHHHHHHh---CCCchHHHHHHHHHHH-----cCCCC--------
Q 036340          288 -------------KRMPQ---------K-NLVSWNSMIAGCET---NKDYEGAIKLFIQMQV-----EGEKP--------  328 (579)
Q Consensus       288 -------------~~~~~---------~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~~~--------  328 (579)
                                   .....         + +...+..+...+..   .|++++|...|+++.+     ....|        
T Consensus       156 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (514)
T 2gw1_A          156 ENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEK  235 (514)
T ss_dssp             -CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHH
T ss_pred             cCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChH
Confidence                         11110         1 13344445555554   8999999999999987     32222        


Q ss_pred             ChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHH
Q 036340          329 DRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGC  406 (579)
Q Consensus       329 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  406 (579)
                      +..++..+...+...|+++.|...++......+. ...+..++..+...|++++|...++++.  .+.+...+..++..+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  314 (514)
T 2gw1_A          236 LAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR-VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMN  314 (514)
T ss_dssp             HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc-HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHH
Confidence            2446667777889999999999999994444444 8889999999999999999999999875  234667889999999


Q ss_pred             HhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHH
Q 036340          407 ASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDA  486 (579)
Q Consensus       407 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  486 (579)
                      ...|++++|+..++++.+.. +.+..++..+...+...|++++|...++.+.+.  .+.+...+..++.++...|++++|
T Consensus       315 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          315 FILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             HHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHH
Confidence            99999999999999998753 234558888999999999999999999999864  233677888999999999999999


Q ss_pred             HHHHHhC----CCCCC----HHHHHHHHHHHhh---cCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHH
Q 036340          487 MDLIKGM----PFEPD----KAVWGALLGACRV---HNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       487 ~~~~~~~----~~~~~----~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      ...++++    +..++    ...+..++..+..   .|++++|...++++++..|+++.++..++.+|...|++++|.+.
T Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  471 (514)
T 2gw1_A          392 LKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITL  471 (514)
T ss_dssp             HHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999887    22222    4488899999999   99999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCC
Q 036340          556 RLLMKSNNI  564 (579)
Q Consensus       556 ~~~~~~~~~  564 (579)
                      ++++.+...
T Consensus       472 ~~~a~~~~~  480 (514)
T 2gw1_A          472 FEESADLAR  480 (514)
T ss_dssp             HHHHHHHCS
T ss_pred             HHHHHHhcc
Confidence            999987654

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.93  E-value=2.2e-24  Score=216.92  Aligned_cols=423  Identities=10%  Similarity=-0.011  Sum_probs=275.6

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcch
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNI  202 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  202 (579)
                      ..+..+...+.+.|++++|++.|++++.   ..|.+..++..++.++...|++++|++.++++..        .. +.+.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--------~~-p~~~   93 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIE---LDPNEPVFYSNISACYISTGDLEKVIEFTTKALE--------IK-PDHS   93 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--------HC-TTCH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHh--------cC-CchH
Confidence            4566677777888888888888888877   3456677788888888888888888888888762        11 3456


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCC------ChhhHHHHHHHHHh
Q 036340          203 VSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHP------DTLTWNAMVSGYAQ  276 (579)
Q Consensus       203 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~  276 (579)
                      .++..++.++...|++++|...|+ .+..++......+..+...+...+|...++.+...      ........+..+..
T Consensus        94 ~~~~~la~~~~~~g~~~~A~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  172 (537)
T 3fp2_A           94 KALLRRASANESLGNFTDAMFDLS-VLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFG  172 (537)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHH-HHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHH-HHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHH
Confidence            777778888888888888888886 43333333333344455555566777777766511      11112233444556


Q ss_pred             cCCHHHHHHHHccCCCCChh---hHHHHHHHHHhC--------CCchHHHHHHHHHHHcCCCCC------hhhHHHHHHh
Q 036340          277 IGNLELALDFFKRMPQKNLV---SWNSMIAGCETN--------KDYEGAIKLFIQMQVEGEKPD------RHTFSSILSM  339 (579)
Q Consensus       277 ~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~  339 (579)
                      ..+.+.+...+......+..   ....+...+...        |++++|..+|+++.+......      ..++..+...
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~  252 (537)
T 3fp2_A          173 IFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIF  252 (537)
T ss_dssp             TSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHH
T ss_pred             hcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHH
Confidence            67777777777766654433   333333333222        467778888877765432210      2234555566


Q ss_pred             ccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHH
Q 036340          340 SSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALE  417 (579)
Q Consensus       340 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~  417 (579)
                      +...|+++.|...++......+ +...+..+...+...|++++|...|+++.  .+.+..++..++..+...|++++|+.
T Consensus       253 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  331 (537)
T 3fp2_A          253 HFLKNNLLDAQVLLQESINLHP-TPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKE  331 (537)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHhcccHHHHHHHHHHHHhcCC-CchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHH
Confidence            6777888888888777333333 36777778888888888888888887764  23455667777788888888888888


Q ss_pred             HHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC---
Q 036340          418 LFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM---  493 (579)
Q Consensus       418 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---  493 (579)
                      .++++.+.  .|+ ...+..+...+...|++++|..+++++++.  .+.+...+..++.++...|++++|...++++   
T Consensus       332 ~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          332 DFQKAQSL--NPENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHH--CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            88887754  343 447777777888888888888888877654  1334567777788888888888888887775   


Q ss_pred             -CCC----CCHHHHHHHHHHHhhc----------CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          494 -PFE----PDKAVWGALLGACRVH----------NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       494 -~~~----~~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                       +..    .....+.....++...          |++++|+..++++++..|+++.++..++.+|...|++++|.+.+++
T Consensus       408 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  487 (537)
T 3fp2_A          408 EEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFED  487 (537)
T ss_dssp             HHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence             111    1222234445556666          8888888888888888888877788888888888888888888887


Q ss_pred             HHhCC
Q 036340          559 MKSNN  563 (579)
Q Consensus       559 ~~~~~  563 (579)
                      +.+..
T Consensus       488 al~~~  492 (537)
T 3fp2_A          488 SAILA  492 (537)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            76554

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=1.5e-23  Score=205.89  Aligned_cols=342  Identities=11%  Similarity=0.052  Sum_probs=198.0

Q ss_pred             CCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---
Q 036340          155 GEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---  231 (579)
Q Consensus       155 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---  231 (579)
                      .|.+...+..++..+.+.|++++|+.+|+++...         .+.+..++..++.++...|++++|...|+++++.   
T Consensus        22 ~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~   92 (450)
T 2y4t_A           22 SMADVEKHLELGKKLLAAGQLADALSQFHAAVDG---------DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMD   92 (450)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---------CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            3445555666666666666666666666665411         1334555666666666666666666666655432   


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhcCC--CC-Ch---hhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHH
Q 036340          232 DTFSWNTMISGYIHVLDMEEASNLFVKMP--HP-DT---LTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGC  305 (579)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~-~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~  305 (579)
                      +..++..++.++...|++++|...|+++.  .| +.   ..+..++..+...                   .+..+...+
T Consensus        93 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~  153 (450)
T 2y4t_A           93 FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-------------------RLRSQALNA  153 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-------------------HHHHHHHHH
Confidence            23344444444444444444444444443  12 22   3333333332211                   123334557


Q ss_pred             HhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHH
Q 036340          306 ETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARI  385 (579)
Q Consensus       306 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  385 (579)
                      ...|++++|+..|+++.+... .+..+                                  +..++.+|...|++++|..
T Consensus       154 ~~~~~~~~A~~~~~~~~~~~~-~~~~~----------------------------------~~~l~~~~~~~g~~~~A~~  198 (450)
T 2y4t_A          154 FGSGDYTAAIAFLDKILEVCV-WDAEL----------------------------------RELRAECFIKEGEPRKAIS  198 (450)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCT-TCHHH----------------------------------HHHHHHHHHHTTCGGGGHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-CChHH----------------------------------HHHHHHHHHHCCCHHHHHH
Confidence            778888888888888876432 13333                                  4445555555566666665


Q ss_pred             HHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHH------------HHHhcccCcHHHH
Q 036340          386 IFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISV------------LSACAHAGLVEEG  450 (579)
Q Consensus       386 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l------------~~~~~~~~~~~~a  450 (579)
                      .|+++.  .+.+..+|..++..|...|++++|+..|+++.+  ..|+.. .+..+            +..+...|++++|
T Consensus       199 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A  276 (450)
T 2y4t_A          199 DLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLK--LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDA  276 (450)
T ss_dssp             HHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            555543  233455566666666666666666666666653  234333 23222            5667777777777


Q ss_pred             HHHHHHhHHhhCCCCC-----cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHH
Q 036340          451 RQHFKSMVNEYGIEPR-----IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAE  523 (579)
Q Consensus       451 ~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  523 (579)
                      ..+|++++..   .|+     ...+..++.++.+.|++++|+..++++ ...| +...|..++.+|...|++++|+..++
T Consensus       277 ~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~  353 (450)
T 2y4t_A          277 TSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYE  353 (450)
T ss_dssp             HHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            7777777653   333     335666777777777777777777775 3233 56777777777777778888888888


Q ss_pred             HHhhcCCCCCCCchhhh------------hhhhhcC-----CchHHHHHHHH-HHhCCC
Q 036340          524 ALMKVEPENSTPYVLLY------------NMYADVG-----RWDDANEVRLL-MKSNNI  564 (579)
Q Consensus       524 ~~~~~~p~~~~~~~~l~------------~~~~~~g-----~~~~A~~~~~~-~~~~~~  564 (579)
                      +++++.|+++.++..++            ..|...|     +.+++.+.+++ ..+..+
T Consensus       354 ~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~p  412 (450)
T 2y4t_A          354 TAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHP  412 (450)
T ss_dssp             HHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCG
T ss_pred             HHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCC
Confidence            88777777777766666            4455455     45566766665 344433

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.92  E-value=2.2e-24  Score=209.79  Aligned_cols=198  Identities=13%  Similarity=0.140  Sum_probs=171.0

Q ss_pred             HHHHHHHHHHHcCCCCCh-hhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCC---------HH
Q 036340          313 GAIKLFIQMQVEGEKPDR-HTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGA---------IV  381 (579)
Q Consensus       313 ~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~---------~~  381 (579)
                      .+..+.+++.+.+..+.+ ..+..++.+|++.|+++.|.++|+. ...|+.||..+|+.++.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            445566777777766554 4588899999999999999999998 889999999999999999987664         68


Q ss_pred             HHHHHHHhcc---CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhH
Q 036340          382 EARIIFEEMK---LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMV  458 (579)
Q Consensus       382 ~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  458 (579)
                      .|.++|++|.   ..||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            8999999996   7899999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC---CCCCCHHHHHHHHHHHhh
Q 036340          459 NEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM---PFEPDKAVWGALLGACRV  511 (579)
Q Consensus       459 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~~l~~~~~~  511 (579)
                      +. |+.||..+|+.|+.+|.+.|+.++|.+++++|   +..|+..||+.++..+..
T Consensus       168 ~~-G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ES-EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hc-CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            76 99999999999999999999999999999999   688999999999988764

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=2.8e-22  Score=196.76  Aligned_cols=356  Identities=11%  Similarity=0.043  Sum_probs=225.8

Q ss_pred             cchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc
Q 036340          122 SASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN  201 (579)
Q Consensus       122 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  201 (579)
                      ...+..++..+.+.|++++|+..|+++..   ..|.+..++..++.++...|++++|...|+++..        .+ +.+
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--------~~-p~~   93 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVD---GDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ--------LK-MDF   93 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--------HC-TTC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--------cC-CCc
Confidence            34566777778888888888888888776   3456677888888888888888888888888862        11 345


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh------hHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHH
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLERDT------FSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYA  275 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~  275 (579)
                      ..++..++.++.+.|++++|.+.|+++++.++      ..+..++..+..                   ..+..++..+.
T Consensus        94 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------------~~~~~~a~~~~  154 (450)
T 2y4t_A           94 TAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEM-------------------QRLRSQALNAF  154 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHH-------------------HHHHHHHHHHH
Confidence            77788888888888888888888888866433      445555444322                   12344566788


Q ss_pred             hcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHH
Q 036340          276 QIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQI  352 (579)
Q Consensus       276 ~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  352 (579)
                      ..|++++|...|+++.+   .+...+..++.+|...|++++|+..|+++.+.. +.+..++..+...+...|+++.|...
T Consensus       155 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  233 (450)
T 2y4t_A          155 GSGDYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSE  233 (450)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            89999999999998764   467789999999999999999999999998653 22445555555555555555555555


Q ss_pred             HHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC--
Q 036340          353 HQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT--  430 (579)
Q Consensus       353 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--  430 (579)
                      ++......+.+...+..+....                    ....+..++..+...|++++|+..|+++.+.  .|+  
T Consensus       234 ~~~~~~~~p~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~  291 (450)
T 2y4t_A          234 VRECLKLDQDHKRCFAHYKQVK--------------------KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIA  291 (450)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSH
T ss_pred             HHHHHHhCCChHHHHHHHHHHH--------------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcch
Confidence            5553322333333322220000                    0000111255566666666666666666642  343  


Q ss_pred             ---hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHH
Q 036340          431 ---YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGAL  505 (579)
Q Consensus       431 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l  505 (579)
                         ...+..+..++.+.|++++|...+++++..  .+.+...+..++.++...|++++|...++++ ...| +...+..+
T Consensus       292 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l  369 (450)
T 2y4t_A          292 EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGL  369 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHH
Confidence               224555556666666666666666666543  1224556666666666666666666666665 3444 34444444


Q ss_pred             HH------------HHhhcC-----CHHHHHHHHHH-HhhcCCCCC
Q 036340          506 LG------------ACRVHN-----NVELAQVAAEA-LMKVEPENS  533 (579)
Q Consensus       506 ~~------------~~~~~~-----~~~~A~~~~~~-~~~~~p~~~  533 (579)
                      ..            .|...|     +.+++.+.|++ +++..|++.
T Consensus       370 ~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~~  415 (450)
T 2y4t_A          370 EKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDNF  415 (450)
T ss_dssp             HHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGGC
T ss_pred             HHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCCC
Confidence            42            222233     56777888886 677777754

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.89  E-value=1.7e-18  Score=178.54  Aligned_cols=369  Identities=14%  Similarity=0.156  Sum_probs=246.4

Q ss_pred             hhhhhcCCCHHHHHHHhccCCC-C-----chhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCC
Q 036340            2 ISGYVKRREMAKARKLFDEMPQ-R-----DVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGE   75 (579)
Q Consensus         2 ~~~~~~~~~~~~A~~~~~~~~~-~-----~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~   75 (579)
                      ++.|...|.+.+|+++++++.- |     +....+.++.+..+. +.++..+....++...      ...+...+...|.
T Consensus       992 vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d------~~eIA~Iai~lgl 1064 (1630)
T 1xi4_A          992 VKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD------APDIANIAISNEL 1064 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc------HHHHHHHHHhCCC
Confidence            5678899999999999999873 2     345677777777776 3233444444333222      3447777788888


Q ss_pred             HHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCC
Q 036340           76 MEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGG  155 (579)
Q Consensus        76 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  155 (579)
                      +++|..+|++.. ....+.+.++   ...+++++|.++.++.  .++.+|..++.++...|++++|++.|.++       
T Consensus      1065 yEEAf~IYkKa~-~~~~A~~VLi---e~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA------- 1131 (1630)
T 1xi4_A         1065 FEEAFAIFRKFD-VNTSAVQVLI---EHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------- 1131 (1630)
T ss_pred             HHHHHHHHHHcC-CHHHHHHHHH---HHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-------
Confidence            888888888875 2222222222   2677888888888766  34667788888888888888888888663       


Q ss_pred             CCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhH
Q 036340          156 EDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFS  235 (579)
Q Consensus       156 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  235 (579)
                       .+...|..++.++.+.|++++|.+.|...+.          ..+++...+.++.+|.+.++++......   ..++...
T Consensus      1132 -dD~say~eVa~~~~~lGkyEEAIeyL~mArk----------~~~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad 1197 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAANTSGNWEELVKYLQMARK----------KARESYVETELIFALAKTNRLAELEEFI---NGPNNAH 1197 (1630)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh----------hcccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHH
Confidence             3455777888888888888888888877651          1233333345777888888777544332   3445566


Q ss_pred             HHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHH
Q 036340          236 WNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAI  315 (579)
Q Consensus       236 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  315 (579)
                      |..+...|...|++++|..+|..+     ..|..++.++.+.|++++|.+.+++.  .+..+|..+..+|...|++..|.
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWkev~~acve~~Ef~LA~ 1270 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQ 1270 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHHHHHHHhhhhHHHHHH
Confidence            777788888888888888888764     47777888888888888888888776  45567777777777777777776


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhc--CCHHHHHHHHHhcc-C
Q 036340          316 KLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARC--GAIVEARIIFEEMK-L  392 (579)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~A~~~~~~~~-~  392 (579)
                      .....     +..+...+..++..|...|.++.+..+++......+-....|+.+..+|++-  ++..++.+.|..-. .
T Consensus      1271 ~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini 1345 (1630)
T 1xi4_A         1271 MCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNI 1345 (1630)
T ss_pred             HHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhccc
Confidence            65543     2334555666777777777777777777663333355555666666666553  34555555555432 1


Q ss_pred             CC------CeeeHHHHHHHHHhcCChHHHH
Q 036340          393 LK------NVVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       393 ~~------~~~~~~~l~~~~~~~~~~~~A~  416 (579)
                      ++      +...|..++..|.+.|+++.|.
T Consensus      1346 ~k~~r~~e~~~lW~elv~LY~~~~e~dnA~ 1375 (1630)
T 1xi4_A         1346 PKVLRAAEQAHLWAELVFLYDKYEEYDNAI 1375 (1630)
T ss_pred             chHhHHHHHHHHHHHHHHHHHhcccHHHHH
Confidence            11      3445777777777777777776

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.87  E-value=4.9e-18  Score=175.12  Aligned_cols=386  Identities=11%  Similarity=0.110  Sum_probs=300.7

Q ss_pred             CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC
Q 036340          120 RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK  199 (579)
Q Consensus       120 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  199 (579)
                      .++.-....+++|...|.+.+|+++++++.........+...-+.++.+..+. +..+..++.++..            .
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd------------~ 1049 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD------------N 1049 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh------------h
Confidence            35666677888999999999999999999854212224455566677666665 5566666666653            1


Q ss_pred             cchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCC
Q 036340          200 RNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGN  279 (579)
Q Consensus       200 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~  279 (579)
                      .+   ...++..+...|.+++|..+|++... .....+.+   +...+++++|.++.++.  .++.+|..++.++...|+
T Consensus      1050 ~d---~~eIA~Iai~lglyEEAf~IYkKa~~-~~~A~~VL---ie~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~ 1120 (1630)
T 1xi4_A         1050 YD---APDIANIAISNELFEEAFAIFRKFDV-NTSAVQVL---IEHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGM 1120 (1630)
T ss_pred             cc---HHHHHHHHHhCCCHHHHHHHHHHcCC-HHHHHHHH---HHHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCC
Confidence            11   34478889999999999999999742 12222222   23788999999999987  457789999999999999


Q ss_pred             HHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhc
Q 036340          280 LELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKT  359 (579)
Q Consensus       280 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  359 (579)
                      +++|++.|.+.  .|...|..++.++.+.|++++|++.|....+..  +++...+.++.+|.+.++++....+.      
T Consensus      1121 ~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI------ 1190 (1630)
T 1xi4_A         1121 VKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI------ 1190 (1630)
T ss_pred             HHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH------
Confidence            99999999775  677888999999999999999999999887754  34334445888888888887544332      


Q ss_pred             CCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH
Q 036340          360 VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLS  439 (579)
Q Consensus       360 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  439 (579)
                      ..++...+..++..+...|++++|..+|....      .|..++.++.+.|++++|++.+++..      +..+|..+..
T Consensus      1191 ~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA~------ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~ 1258 (1630)
T 1xi4_A         1191 NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS------NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCF 1258 (1630)
T ss_pred             hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhhh------HHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHH
Confidence            24455667789999999999999999999863      79999999999999999999999873      4578888889


Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhh--cCCH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRV--HNNV  515 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~--~~~~  515 (579)
                      +|...|++..|..+...      +..++..+..++..|.+.|.+++|+.+++.. +.++ ....|..+..++.+  -++.
T Consensus      1259 acve~~Ef~LA~~cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~pekl 1332 (1630)
T 1xi4_A         1259 ACVDGKEFRLAQMCGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKM 1332 (1630)
T ss_pred             HHhhhhHHHHHHHHHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHH
Confidence            99999999999887653      3346677789999999999999999999876 5555 34466666666544  4677


Q ss_pred             HHHHHHHHHHhhcCC-----CCCCCchhhhhhhhhcCCchHHHHH
Q 036340          516 ELAQVAAEALMKVEP-----ENSTPYVLLYNMYADVGRWDDANEV  555 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~A~~~  555 (579)
                      .++.+.|..-..+.|     .+...|..++..|.+.|+|+.|...
T Consensus      1333 mEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1333 REHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            888888887777766     6777899999999999999999844

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=1.1e-20  Score=179.41  Aligned_cols=314  Identities=11%  Similarity=0.063  Sum_probs=147.5

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHH
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGY  274 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~  274 (579)
                      ++..+..++..+...|++++|...|+++++.   ++.++..+...+...|++++|...++++.   +.+...+..++.++
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            3456667777777777777777777766442   34455555555555555555555555544   22334444444555


Q ss_pred             HhcCCHHHHHHHHccCCCCCh------hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhh
Q 036340          275 AQIGNLELALDFFKRMPQKNL------VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHL  348 (579)
Q Consensus       275 ~~~g~~~~A~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  348 (579)
                      ...|++++|...|+++.+.++      ..+..+...+.                       ...+......+...|+++.
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~~~  138 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADYTA  138 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCHHH
Confidence            555555555555544433111      11111100000                       0000001122233333333


Q ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC
Q 036340          349 GMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK  426 (579)
Q Consensus       349 a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  426 (579)
                      |...++......+.+..++..+...+...|++++|...+++..  .+.+...+..+...+...|++++|+..+++..+. 
T Consensus       139 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~-  217 (359)
T 3ieg_A          139 AITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKL-  217 (359)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-
Confidence            3333333222223333444445555555555555555555443  1223444555555555555555555555555532 


Q ss_pred             CCCChh-hHH------------HHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-c----chhHHHHHHhhccCChHHHHH
Q 036340          427 VLPTYI-TFI------------SVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-I----EHFASLVDIVGRHGRLEDAMD  488 (579)
Q Consensus       427 ~~p~~~-~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~g~~~~A~~  488 (579)
                       .|+.. .+.            .+...+...|++++|...++++...   .|+ .    ..+..++.++...|++++|..
T Consensus       218 -~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          218 -DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             -CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             -CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccCHHHHHH
Confidence             23221 111            1133455555555555555555543   122 1    123334555555555555555


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          489 LIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       489 ~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      .+++. ...| +...+..++.++...|++++|...|+++++++|+++.++..+..+
T Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          294 ICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKA  349 (359)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            55554 2122 445555555555555555555555555555555555544444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=2.9e-20  Score=176.44  Aligned_cols=304  Identities=11%  Similarity=0.051  Sum_probs=237.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHH
Q 036340          233 TFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCE  306 (579)
Q Consensus       233 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  306 (579)
                      +..+..+...+...|++++|+..|+++.   +.+..++..++.++...|++++|...|+++.+   .+...+..+...+.
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            4567777888888888888888888876   45567788888888888888888888887764   35567788888888


Q ss_pred             hCCCchHHHHHHHHHHHcCCCC---C-hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHH
Q 036340          307 TNKDYEGAIKLFIQMQVEGEKP---D-RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVE  382 (579)
Q Consensus       307 ~~~~~~~a~~~~~~~~~~~~~~---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  382 (579)
                      ..|++++|...|+++.+.  .|   + ...+..+....       .               ...+..++..+...|++++
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~-------~---------------~~~~~~~a~~~~~~~~~~~  138 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKAD-------E---------------MQRLRSQALDAFDGADYTA  138 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHH-------H---------------HHHHHHHHHHHHHTTCHHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHH-------H---------------HHHHHHHHHHHHHccCHHH
Confidence            888888888888888764  33   1 11111111100       0               1123345778899999999


Q ss_pred             HHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          383 ARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       383 A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      |...++++.  .+.+...+..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++.+.+.
T Consensus       139 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          139 AITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999874  34567788899999999999999999999999642 335568889999999999999999999999864


Q ss_pred             hCCCCC-cchhH------------HHHHHhhccCChHHHHHHHHhC-CCCCC-H----HHHHHHHHHHhhcCCHHHHHHH
Q 036340          461 YGIEPR-IEHFA------------SLVDIVGRHGRLEDAMDLIKGM-PFEPD-K----AVWGALLGACRVHNNVELAQVA  521 (579)
Q Consensus       461 ~~~~~~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~----~~~~~l~~~~~~~~~~~~A~~~  521 (579)
                         .|+ ...+.            .++..+.+.|++++|...++++ ...|+ .    ..+..+..++...|++++|+..
T Consensus       218 ---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  294 (359)
T 3ieg_A          218 ---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRI  294 (359)
T ss_dssp             ---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence               343 33222            3367789999999999999987 33343 3    2345577889999999999999


Q ss_pred             HHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          522 AEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       522 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ++++++..|+++.++..++.+|...|++++|.+.++++.+..+
T Consensus       295 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          295 CSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999987653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.85  E-value=9.4e-19  Score=172.99  Aligned_cols=366  Identities=11%  Similarity=0.025  Sum_probs=221.9

Q ss_pred             CcchHHHHHHHHHh----CCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhh----CCCHHHHHHHHccccccCCCC
Q 036340          121 DSASLSALVSGLIQ----NGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQ----RGRVEEARKLFDKIPVNCDRG  192 (579)
Q Consensus       121 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~  192 (579)
                      ++.+...+...|..    .+++++|+..|+++.+.     .+..++..+...|..    .+++++|.+.|++..      
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~-----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~------  106 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ-----GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAA------  106 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH------
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH------
Confidence            34444444444444    55566666666655542     123455555555555    556666666666554      


Q ss_pred             CCCccCCcchHHHHHHHHHHHh----cCCHHHHHHHHHhcCCC-ChhHHHHHHHHHHh----cCChHHHHHHhhcCC-CC
Q 036340          193 EGNVRFKRNIVSWNSMIMCYAK----AGDVVSAREIFEQMLER-DTFSWNTMISGYIH----VLDMEEASNLFVKMP-HP  262 (579)
Q Consensus       193 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~-~~  262 (579)
                        ..   .++..+..+...|..    .+++++|...|++..+. ++..+..+...|..    .+++++|+..|++.. ..
T Consensus       107 --~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~  181 (490)
T 2xm6_A          107 --LK---GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG  181 (490)
T ss_dssp             --HT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             --HC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence              11   134445555555555    55666666666555433 33344444444443    344444444444333 23


Q ss_pred             ChhhHHHHHHHHHh----cCCHHHHHHHHccCCC-CChhhHHHHHHHHHh----CCCchHHHHHHHHHHHcCCCCChhhH
Q 036340          263 DTLTWNAMVSGYAQ----IGNLELALDFFKRMPQ-KNLVSWNSMIAGCET----NKDYEGAIKLFIQMQVEGEKPDRHTF  333 (579)
Q Consensus       263 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~  333 (579)
                      +...+..+...|..    .+++++|..+|++..+ .++..+..+...|..    .+++++|..+|++..+.|        
T Consensus       182 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~--------  253 (490)
T 2xm6_A          182 NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG--------  253 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT--------
T ss_pred             CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC--------
Confidence            33444444444444    4555555555544332 233344444444443    445555555555544332        


Q ss_pred             HHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhh----cCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhc
Q 036340          334 SSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYAR----CGAIVEARIIFEEMKLLKNVVSWNAMIGGCASH  409 (579)
Q Consensus       334 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  409 (579)
                                                   ++..+..+..+|..    .+++++|...|+......++..+..+...|...
T Consensus       254 -----------------------------~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~  304 (490)
T 2xm6_A          254 -----------------------------NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKG  304 (490)
T ss_dssp             -----------------------------CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHC
T ss_pred             -----------------------------CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcC
Confidence                                         22333445555555    678888888888765445566677777777776


Q ss_pred             -----CChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccC---cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc--
Q 036340          410 -----GFATEALELFKSMRSFKVLPTYITFISVLSACAHAG---LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR--  479 (579)
Q Consensus       410 -----~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  479 (579)
                           +++++|+.+|++..+.|   +...+..+...|...|   ++++|.++|++..+.    .++..+..++.+|..  
T Consensus       305 ~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~  377 (490)
T 2xm6_A          305 AEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGK  377 (490)
T ss_dssp             BTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTS
T ss_pred             CCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCC
Confidence                 88999999999888764   3456666666666545   788999999888753    356777788888887  


Q ss_pred             --cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhhcCCC---CCCCchhhhhhhhhc
Q 036340          480 --HGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMKVEPE---NSTPYVLLYNMYADV  546 (579)
Q Consensus       480 --~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~  546 (579)
                        .+++++|...+++.-...++..+..+...+..    .++.++|...|+++.+..|+   ++.+...++.++...
T Consensus       378 g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~  453 (490)
T 2xm6_A          378 GVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQ  453 (490)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHH
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhH
Confidence              78999999999887333467788888888877    78999999999999988844   677777777766643

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.85  E-value=2.2e-19  Score=168.11  Aligned_cols=286  Identities=8%  Similarity=-0.032  Sum_probs=203.9

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036340          262 PDTLTWNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILS  338 (579)
Q Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  338 (579)
                      .+...+..++..+...|++++|..+|+++.+   .+...+..++.++...|++++|..+++++.+... .+...+..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHH
Confidence            3444455555555566666666666665543   2333455555566666666666666666655422 23444555555


Q ss_pred             hccCCC-chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHH
Q 036340          339 MSSGIV-DLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEA  415 (579)
Q Consensus       339 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A  415 (579)
                      .+...| +++.|...++......+.+...+..++..+...|++++|...|++..  .+.+...+..+...+...|++++|
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            555666 66666666666444445566777888888889999999999988874  234456777788889999999999


Q ss_pred             HHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC-------CCCcchhHHHHHHhhccCChHHHH
Q 036340          416 LELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGI-------EPRIEHFASLVDIVGRHGRLEDAM  487 (579)
Q Consensus       416 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~~~~~~~~l~~~~~~~g~~~~A~  487 (579)
                      +..++++.+.  .| +...+..+...+...|++++|...++++++...-       +.....+..++.++...|++++|.
T Consensus       179 ~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          179 ERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            9999998854  44 4458888888899999999999999888764311       234567888899999999999999


Q ss_pred             HHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh-hhcCCch
Q 036340          488 DLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY-ADVGRWD  550 (579)
Q Consensus       488 ~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  550 (579)
                      ..++++ .. +.+...+..++.++...|++++|...++++++..|+++.++..++.++ ...|+.+
T Consensus       257 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          257 DYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            998887 22 336778888889999999999999999999999999988888888888 5556543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.84  E-value=1.2e-18  Score=161.22  Aligned_cols=276  Identities=13%  Similarity=0.167  Sum_probs=138.8

Q ss_pred             cCCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcC
Q 036340            7 KRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSM   86 (579)
Q Consensus         7 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   86 (579)
                      +.|++++|.+.++++..|  ..|..++.++...++   +++|++.|.+.  +|+.+|..++..+...|++++|+..++..
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~---~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~a   87 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGM---VKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMA   87 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCC---HHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            567899999999999554  589999999999988   99999999764  67779999999999999999999988877


Q ss_pred             C--CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHH
Q 036340           87 P--ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT  164 (579)
Q Consensus        87 ~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  164 (579)
                      .  .+++.+.+.++.+|.+.|++.++.++++.   |+..+|..++..|...|++++|...|..+           ..|..
T Consensus        88 rk~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----------~n~~~  153 (449)
T 1b89_A           88 RKKARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----------SNFGR  153 (449)
T ss_dssp             ---------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT-----------TCHHH
T ss_pred             HHhCccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----------hhHHH
Confidence            6  35567888999999999999999988864   67779999999999999999999999985           26999


Q ss_pred             HHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHH
Q 036340          165 LIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYI  244 (579)
Q Consensus       165 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~  244 (579)
                      ++.++.+.|++++|.+.++++.              ++.+|..++.+|...|+++.|......+. ..+.....++..|.
T Consensus       154 LA~~L~~Lg~yq~AVea~~KA~--------------~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Ye  218 (449)
T 1b89_A          154 LASTLVHLGEYQAAVDGARKAN--------------STRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQ  218 (449)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHT--------------CHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHcC--------------CchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHH
Confidence            9999999999999999999873              67899999999999999999987777654 56666667889999


Q ss_pred             hcCChHHHHHHhhcCCC---CChhhHHHHHHHHHh--cCCHHHHHHHHccCCC--------CChhhHHHHHHHHHhCCCc
Q 036340          245 HVLDMEEASNLFVKMPH---PDTLTWNAMVSGYAQ--IGNLELALDFFKRMPQ--------KNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       245 ~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~  311 (579)
                      +.|.+++|+.+++....   .....|+-|.-+|++  .+++.+.++.|..-..        .+...|..+...|...+++
T Consensus       219 k~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~  298 (449)
T 1b89_A          219 DRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEY  298 (449)
T ss_dssp             HTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCH
T ss_pred             HCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchH
Confidence            99999999999999883   334566666666654  5677788888876654        3567899999999999999


Q ss_pred             hHHHHHH
Q 036340          312 EGAIKLF  318 (579)
Q Consensus       312 ~~a~~~~  318 (579)
                      +.|....
T Consensus       299 d~A~~tm  305 (449)
T 1b89_A          299 DNAIITM  305 (449)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988743

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.84  E-value=5.1e-18  Score=167.72  Aligned_cols=356  Identities=11%  Similarity=0.070  Sum_probs=209.4

Q ss_pred             HHHHhhCC-CCCcchHHHHHHHHHc----cCCHHHHHHHhhcCC-CCchhhHHHHHHHHHh----cCChhhHHHHHccCC
Q 036340           49 RYLFDIMP-ERDCVTWNTVISGYAK----TGEMEEALRLFNSMP-ARNVVSWNAMISGFLQ----NGDVANAIEFFDRMP  118 (579)
Q Consensus        49 ~~~~~~~~-~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~  118 (579)
                      ...+++.. ..++..+..+...|..    .+++++|+..|++.. ..++.++..|...|..    .+++++|.+.|++..
T Consensus        27 ~~~~~~~a~~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~  106 (490)
T 2xm6_A           27 LEQLKQKAESGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAA  106 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            33444333 4566677777777766    677777777777665 3455666777777777    777777777777654


Q ss_pred             C-CCcchHHHHHHHHHh----CCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhh----CCCHHHHHHHHccccccC
Q 036340          119 G-RDSASLSALVSGLIQ----NGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQ----RGRVEEARKLFDKIPVNC  189 (579)
Q Consensus       119 ~-~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  189 (579)
                      + .++..+..+...|..    .+++++|+..|+++...     .+..++..+...|..    .+++++|.+.|++..   
T Consensus       107 ~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-----~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~---  178 (490)
T 2xm6_A          107 LKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQ-----GRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAA---  178 (490)
T ss_dssp             HTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH---
T ss_pred             HCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH---
Confidence            3 345566666666666    66777777777777653     234566667776665    667777777777765   


Q ss_pred             CCCCCCccCCcchHHHHHHHHHHHh----cCCHHHHHHHHHhcCCC-ChhHHHHHHHHHHh----cCChHHHHHHhhcCC
Q 036340          190 DRGEGNVRFKRNIVSWNSMIMCYAK----AGDVVSAREIFEQMLER-DTFSWNTMISGYIH----VLDMEEASNLFVKMP  260 (579)
Q Consensus       190 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~  260 (579)
                           +.   .+...+..+...|..    .+++++|.+.|++..+. ++.++..+...|..    .+++++|...|++..
T Consensus       179 -----~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~  250 (490)
T 2xm6_A          179 -----EQ---GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSA  250 (490)
T ss_dssp             -----HT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH
T ss_pred             -----HC---CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence                 22   245666667777766    67777777777766543 45555556666554    566666666666654


Q ss_pred             -CCChhhHHHHHHHHHh----cCCHHHHHHHHccCCC-CChhhHHHHHHHHHhC-----CCchHHHHHHHHHHHcCCCCC
Q 036340          261 -HPDTLTWNAMVSGYAQ----IGNLELALDFFKRMPQ-KNLVSWNSMIAGCETN-----KDYEGAIKLFIQMQVEGEKPD  329 (579)
Q Consensus       261 -~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~  329 (579)
                       ..+...+..+...|..    .++.++|..+|++..+ .++..+..+...|...     +++++|+..|++..+.|   +
T Consensus       251 ~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~  327 (490)
T 2xm6_A          251 EQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---D  327 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---C
T ss_pred             HCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---C
Confidence             3344555555555555    5666666666666543 3444555566666555     66666666666665543   2


Q ss_pred             hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC---CHHHHHHHHHhccCCCCeeeHHHHHHHH
Q 036340          330 RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCG---AIVEARIIFEEMKLLKNVVSWNAMIGGC  406 (579)
Q Consensus       330 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~l~~~~  406 (579)
                      ...+                                  ..+...|...|   ++++|.++|++.....++..+..+...|
T Consensus       328 ~~a~----------------------------------~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y  373 (490)
T 2xm6_A          328 ATAQ----------------------------------ANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNAL  373 (490)
T ss_dssp             HHHH----------------------------------HHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHH----------------------------------HHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            2233                                  33333343323   4455555555443233444555555555


Q ss_pred             Hh----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc----cCcHHHHHHHHHHhHHh
Q 036340          407 AS----HGFATEALELFKSMRSFKVLPTYITFISVLSACAH----AGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       407 ~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~  460 (579)
                      ..    .+++++|+.+|++..+.+   +...+..+...|..    .+++++|...|++....
T Consensus       374 ~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  432 (490)
T 2xm6_A          374 LQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTN  432 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHH
T ss_pred             HcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            55    455555555555555433   23344444444444    45555555555555443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.83  E-value=9.4e-19  Score=172.70  Aligned_cols=391  Identities=12%  Similarity=-0.005  Sum_probs=208.0

Q ss_pred             HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCC
Q 036340          138 LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGD  217 (579)
Q Consensus       138 ~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  217 (579)
                      +....+.+....+.. ..+.....|+.++..+...|++++|++.|++.....+.......-+....+|+.+..+|...|+
T Consensus        31 l~~~e~~~~~~~~~~-~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~  109 (472)
T 4g1t_A           31 LDDFEDKVFYRTEFQ-NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGR  109 (472)
T ss_dssp             HHHHHHHHHHHTTSC-C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCC
Confidence            344444443333321 3334456799999999999999999999988752211100111123346788999999999999


Q ss_pred             HHHHHHHHHhcCCC-----------ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 036340          218 VVSAREIFEQMLER-----------DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDF  286 (579)
Q Consensus       218 ~~~A~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  286 (579)
                      +++|...+++.++-           ...++.....++...|                             .+++++|+..
T Consensus       110 ~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~-----------------------------~~~y~~A~~~  160 (472)
T 4g1t_A          110 LSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCG-----------------------------GNQNERAKVC  160 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHC-----------------------------TTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHc-----------------------------cccHHHHHHH
Confidence            99999988876321           1223333333332221                             2234444444


Q ss_pred             HccCCC--C-ChhhHHHHHHH---HHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHH----hccCCCchhhHHHHHHHH
Q 036340          287 FKRMPQ--K-NLVSWNSMIAG---CETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILS----MSSGIVDLHLGMQIHQMV  356 (579)
Q Consensus       287 ~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~  356 (579)
                      |++..+  | ++..+..+..+   +...++.++|++.+++..+.... +..++..+..    .....++.+.|...++..
T Consensus       161 ~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~a  239 (472)
T 4g1t_A          161 FEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEA  239 (472)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            444432  2 22222222222   22334455555555555443211 2222222221    122334455555555554


Q ss_pred             hhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHh-------------------cCChHHH
Q 036340          357 TKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCAS-------------------HGFATEA  415 (579)
Q Consensus       357 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~-------------------~~~~~~A  415 (579)
                      ....+.+..++..++..|...|++++|...+++.. ..| +..++..+..+|..                   .+..+.|
T Consensus       240 l~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A  319 (472)
T 4g1t_A          240 LEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHA  319 (472)
T ss_dssp             HHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHH
T ss_pred             HHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHH
Confidence            44444555555556666666666666666665543 222 23334444443321                   2235678


Q ss_pred             HHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcc----hhHHHHHH-hhccCChHHHHHH
Q 036340          416 LELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIE----HFASLVDI-VGRHGRLEDAMDL  489 (579)
Q Consensus       416 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~-~~~~g~~~~A~~~  489 (579)
                      +..+++..+.  .|+ ..++..+...+...|++++|+..|++++..   .|+..    .+..++.. +...|++++|+..
T Consensus       320 ~~~~~~a~~~--~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~  394 (472)
T 4g1t_A          320 VAHLKKADEA--NDNLFRVCSILASLHALADQYEEAEYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHH  394 (472)
T ss_dssp             HHHHHHHHHH--CTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHH
T ss_pred             HHHHHHHhhc--CCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            8888887753  444 347888888899999999999999988753   33321    23333332 3467899999998


Q ss_pred             HHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCC
Q 036340          490 IKGM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPT  568 (579)
Q Consensus       490 ~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  568 (579)
                      +++. ...|+......         ....+..++++.++.+|+++.+|..|+.+|...|++++|.+.+++..+.+...+.
T Consensus       395 y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~  465 (472)
T 4g1t_A          395 FIEGVKINQKSREKEK---------MKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPS  465 (472)
T ss_dssp             HHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------
T ss_pred             HHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Confidence            8876 45565433222         2345567788888999999999999999999999999999999999988876666


Q ss_pred             cceee
Q 036340          569 GYSWV  573 (579)
Q Consensus       569 ~~~~~  573 (579)
                      ..+|+
T Consensus       466 a~~~~  470 (472)
T 4g1t_A          466 ASSWN  470 (472)
T ss_dssp             -----
T ss_pred             HhhcC
Confidence            66664

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.83  E-value=6.7e-18  Score=168.65  Aligned_cols=406  Identities=14%  Similarity=0.100  Sum_probs=265.5

Q ss_pred             CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc
Q 036340          121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       121 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  200 (579)
                      +...|..++. +.+.|++++|..+|+++++   ..|.+...|...+..+.+.|++++|..+|+++.          ...|
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~---~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral----------~~~p   77 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVA---QFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCL----------MKVL   77 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT----------TTCC
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH----------hcCC
Confidence            5567777777 4778889999999998888   567777888888888888889999999998887          2246


Q ss_pred             chHHHHHHHHHH-HhcCCHHHHHH----HHHhcCC------CChhHHHHHHHHHHh---------cCChHHHHHHhhcCC
Q 036340          201 NIVSWNSMIMCY-AKAGDVVSARE----IFEQMLE------RDTFSWNTMISGYIH---------VLDMEEASNLFVKMP  260 (579)
Q Consensus       201 ~~~~~~~l~~~~-~~~~~~~~A~~----~~~~~~~------~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~  260 (579)
                      +...|..++... ...|+.+.|.+    +|+..++      .+...|...+.....         .|+++.|..+|++..
T Consensus        78 ~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al  157 (530)
T 2ooe_A           78 HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGC  157 (530)
T ss_dssp             CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHH
Confidence            777777777533 34566665544    5555422      234556665555443         466666777766665


Q ss_pred             -CCCh---hhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHH------HHcC---CC
Q 036340          261 -HPDT---LTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQM------QVEG---EK  327 (579)
Q Consensus       261 -~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~------~~~~---~~  327 (579)
                       .|..   ..|..........|. ..+..++.                 ...+++..|..++.+.      .+..   +.
T Consensus       158 ~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~  219 (530)
T 2ooe_A          158 VNPMINIEQLWRDYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVP  219 (530)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCC
T ss_pred             hchhhhHHHHHHHHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCC
Confidence             2221   122221111100010 00111110                 1223455565555542      1111   12


Q ss_pred             CCh--------hhHHHHHHhcc----CCCch----hhHHHHHHHHhhcCCCCchHHHHHHHHhhh-------cCCHH---
Q 036340          328 PDR--------HTFSSILSMSS----GIVDL----HLGMQIHQMVTKTVIPDVPINNALITMYAR-------CGAIV---  381 (579)
Q Consensus       328 ~~~--------~~~~~l~~~~~----~~~~~----~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~---  381 (579)
                      |+.        ..|...+....    ..++.    ..+...++......|.++.+|..++..+.+       .|+++   
T Consensus       220 p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~  299 (530)
T 2ooe_A          220 PQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAK  299 (530)
T ss_dssp             CC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhh
Confidence            321        22333222111    11222    255567777555567778888888888775       68876   


Q ss_pred             ----HHHHHHHhcc--CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh--hhHHHHHHHhcccCcHHHHHH
Q 036340          382 ----EARIIFEEMK--LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY--ITFISVLSACAHAGLVEEGRQ  452 (579)
Q Consensus       382 ----~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~  452 (579)
                          +|..+|++..  ..| +...|..++..+.+.|++++|..+|+++.+  +.|+.  ..|..++..+.+.|++++|..
T Consensus       300 ~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~  377 (530)
T 2ooe_A          300 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRM  377 (530)
T ss_dssp             HHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHH
Confidence                8899998865  234 466788888888999999999999999986  45653  378888888888999999999


Q ss_pred             HHHHhHHhhCCCCC-cchhHHHHHH-hhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhc
Q 036340          453 HFKSMVNEYGIEPR-IEHFASLVDI-VGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKV  528 (579)
Q Consensus       453 ~~~~~~~~~~~~~~-~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  528 (579)
                      +|++.++.   .|. ...+...+.. +...|+.++|..+|++. ...| ++..|..++..+.+.|+.++|..+|++++..
T Consensus       378 ~~~~Al~~---~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          378 IFKKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHHHTC---TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHhc---cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            99988743   342 3333332222 33689999999999876 3334 6788888888888999999999999999988


Q ss_pred             CCCCCC----CchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          529 EPENST----PYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       529 ~p~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      .|.++.    .|...+......|+.+.+..+.+++.+.-
T Consensus       455 ~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          455 GSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             CCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             cCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            877665    56677777888899999999988876544

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.83  E-value=1e-18  Score=163.60  Aligned_cols=267  Identities=11%  Similarity=0.029  Sum_probs=229.7

Q ss_pred             CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          293 KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       293 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      .++..+..++..+...|++++|..+|+++.+... .+...+..++.++...|+++.|..+++......+.+...+..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            5667788889999999999999999999987643 345566667788889999999999999966677788899999999


Q ss_pred             HhhhcC-CHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHH
Q 036340          373 MYARCG-AIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEE  449 (579)
Q Consensus       373 ~~~~~~-~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  449 (579)
                      .+...| ++++|...|++.. . +.+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHH
Confidence            999999 9999999999875 2 3356779999999999999999999999998653 2234577778889999999999


Q ss_pred             HHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCC-----------CCCCHHHHHHHHHHHhhcCCHHHH
Q 036340          450 GRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMP-----------FEPDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       450 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------~~~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      |...++++++.  .+.+...+..++.++...|++++|...++++-           .+.....+..++.++...|++++|
T Consensus       178 A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          178 AERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            99999999753  23357888999999999999999999998761           133467899999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +..++++++..|+++.++..++.++...|++++|.+.++++.+..
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999977554

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=2.9e-19  Score=170.21  Aligned_cols=257  Identities=11%  Similarity=0.010  Sum_probs=185.0

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhh
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYAR  376 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  376 (579)
                      .+..+...+...|++++|+..|+++.+.. +.+..++..+..++...|+++.|...++......+.+..++..++.++..
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~  144 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTN  144 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence            34455555555555555555555555432 12334444455555555555555555555333344455666667777777


Q ss_pred             cCCHHHHHHHHHhcc-CCCC-eeeHHH---------------HHHHHHhcCChHHHHHHHHHhHhCCCCCC---hhhHHH
Q 036340          377 CGAIVEARIIFEEMK-LLKN-VVSWNA---------------MIGGCASHGFATEALELFKSMRSFKVLPT---YITFIS  436 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~~-~~~~~~---------------l~~~~~~~~~~~~A~~~~~~~~~~~~~p~---~~~~~~  436 (579)
                      .|++++|...++++. ..|+ ...+..               .+..+...|++++|+..++++.+.  .|+   ..++..
T Consensus       145 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~  222 (368)
T 1fch_A          145 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL--DPTSIDPDVQCG  222 (368)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHH--STTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHh--CcCcccHHHHHH
Confidence            777777777777653 2221 111110               233334889999999999999864  444   568888


Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNN  514 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~  514 (579)
                      +...+...|++++|...+++++..  .+.+...+..++.++...|++++|...++++ ...| +...+..++.++...|+
T Consensus       223 l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~  300 (368)
T 1fch_A          223 LGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGA  300 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCC
Confidence            999999999999999999999864  2335778899999999999999999999987 3334 67889999999999999


Q ss_pred             HHHHHHHHHHHhhcCCCC-----------CCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          515 VELAQVAAEALMKVEPEN-----------STPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      +++|...++++++..|++           ..+|..++.+|...|++++|..++++
T Consensus       301 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          301 HREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            999999999999998887           67799999999999999999998764

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=3.3e-18  Score=158.24  Aligned_cols=222  Identities=15%  Similarity=0.173  Sum_probs=82.8

Q ss_pred             ccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccC
Q 036340           72 KTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSR  151 (579)
Q Consensus        72 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  151 (579)
                      +.|++++|.++++++..  +.+|..|+.++.+.|++++|++.|.+.  +|...|..++..+...|++++|+..++.+++.
T Consensus        15 ~~~~ld~A~~fae~~~~--~~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNE--PAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCC--hHHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            55777888888887743  347778888888888888888887653  56667777777777888888888877766653


Q ss_pred             CCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC
Q 036340          152 CDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER  231 (579)
Q Consensus       152 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  231 (579)
                          .+++.+.+.++.+|.+.|+++++.++++               .|+..+|..++..|...|.+++|...|..+   
T Consensus        91 ----~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---------------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---  148 (449)
T 1b89_A           91 ----ARESYVETELIFALAKTNRLAELEEFIN---------------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---  148 (449)
T ss_dssp             ----------------------CHHHHTTTTT---------------CC----------------CTTTHHHHHHHT---
T ss_pred             ----CccchhHHHHHHHHHHhCCHHHHHHHHc---------------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---
Confidence                2335567778888888888888776653               245557888888888888888888888876   


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCc
Q 036340          232 DTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDY  311 (579)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  311 (579)
                        ..|..++.++.+.|++++|.+.++++  .++.+|..++.+|...|+++.|......+. ..+.....++..|.+.|++
T Consensus       149 --~n~~~LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~  223 (449)
T 1b89_A          149 --SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYF  223 (449)
T ss_dssp             --TCHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCH
T ss_pred             --hhHHHHHHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCH
Confidence              46777888888888888888888877  377788888888888888888877766654 4444455677778888888


Q ss_pred             hHHHHHHHHHHHc
Q 036340          312 EGAIKLFIQMQVE  324 (579)
Q Consensus       312 ~~a~~~~~~~~~~  324 (579)
                      ++|+.+++.....
T Consensus       224 eEai~lLe~aL~l  236 (449)
T 1b89_A          224 EELITMLEAALGL  236 (449)
T ss_dssp             HHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhCC
Confidence            8888888777643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.80  E-value=1.7e-16  Score=158.46  Aligned_cols=410  Identities=10%  Similarity=0.104  Sum_probs=285.1

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHccCCCC---CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHH
Q 036340           88 ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGR---DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT  164 (579)
Q Consensus        88 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  164 (579)
                      +.+..+|..++.. .+.|++++|..+|+++...   +...|..++..+.+.|++++|..+|++++..   .| +...|..
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~---~p-~~~lw~~   84 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK---VL-HIDLWKC   84 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT---CC-CHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CC-ChHHHHH
Confidence            3467789999984 7899999999999998763   4557888999999999999999999999985   33 5667777


Q ss_pred             HHHHH-hhCCCHHHHHH----HHccccccCCCCCCCccCCc-chHHHHHHHHHHHh---------cCCHHHHHHHHHhcC
Q 036340          165 LIVGY-GQRGRVEEARK----LFDKIPVNCDRGEGNVRFKR-NIVSWNSMIMCYAK---------AGDVVSAREIFEQML  229 (579)
Q Consensus       165 l~~~~-~~~g~~~~A~~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~  229 (579)
                      .+... ...|+.++|.+    +|+.+..       ..|..| +...|...+....+         .|+++.|..+|++.+
T Consensus        85 ~~~~~~~~~~~~~~a~~~~~~~~~~al~-------~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al  157 (530)
T 2ooe_A           85 YLSYVRETKGKLPSYKEKMAQAYDFALD-------KIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGC  157 (530)
T ss_dssp             HHHHHHHHTTTSTTHHHHHHHHHHHHHH-------HTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccchhhHHHHHHHHHHHHHH-------HCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHH
Confidence            76533 45677776665    7777751       234443 56778888877665         789999999999987


Q ss_pred             CC-Ch---hHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHc----------cCC---C
Q 036340          230 ER-DT---FSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFK----------RMP---Q  292 (579)
Q Consensus       230 ~~-~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~----------~~~---~  292 (579)
                      +. ..   ..|..........|. ..+..++.                 .+.++++.|..++.          ...   .
T Consensus       158 ~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~  219 (530)
T 2ooe_A          158 VNPMINIEQLWRDYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVP  219 (530)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCC
T ss_pred             hchhhhHHHHHHHHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCC
Confidence            62 21   223222221111111 11111111                 11233444443333          211   1


Q ss_pred             CC--------hhhHHHHHHHHHhC----CCc----hHHHHHHHHHHHcCCCCChhhHHHHHHhccC-------CCchh--
Q 036340          293 KN--------LVSWNSMIAGCETN----KDY----EGAIKLFIQMQVEGEKPDRHTFSSILSMSSG-------IVDLH--  347 (579)
Q Consensus       293 ~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~--  347 (579)
                      |+        ...|...+......    ++.    .++..+|++.+... +.+...|......+..       .|+.+  
T Consensus       220 p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a  298 (530)
T 2ooe_A          220 PQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNA  298 (530)
T ss_dssp             CC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHH
T ss_pred             CCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhh
Confidence            11        13444444333222    233    36778888887753 2355666666666553       68876  


Q ss_pred             -----hHHHHHHHHhh-cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCe--eeHHHHHHHHHhcCChHHHHHH
Q 036340          348 -----LGMQIHQMVTK-TVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLKNV--VSWNAMIGGCASHGFATEALEL  418 (579)
Q Consensus       348 -----~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~--~~~~~l~~~~~~~~~~~~A~~~  418 (579)
                           .|..+++.... ..|.+..++..++..+.+.|++++|..+|+++. ..|+.  ..|..++..+.+.|+.++|..+
T Consensus       299 ~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~  378 (530)
T 2ooe_A          299 KLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMI  378 (530)
T ss_dssp             HHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHH
Confidence                 88888888554 456678899999999999999999999999875 45543  4788889989999999999999


Q ss_pred             HHHhHhCCCCCC-hhhHHHHHHH-hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC---
Q 036340          419 FKSMRSFKVLPT-YITFISVLSA-CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM---  493 (579)
Q Consensus       419 ~~~~~~~~~~p~-~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---  493 (579)
                      |++..+.  .|+ ...+...+.. +...|++++|..+|+..++..  +.++..+..++..+.+.|+.++|..+|++.   
T Consensus       379 ~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          379 FKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            9999864  443 2333332222 336899999999999998753  235788899999999999999999999987   


Q ss_pred             -CCCCC--HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          494 -PFEPD--KAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       494 -~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                       +..|+  ...|...+......|+.+.+..+++++.+..|++
T Consensus       455 ~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          455 GSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  496 (530)
T ss_dssp             CCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCchh
Confidence             22332  3478888888888999999999999999988853

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=3.2e-17  Score=149.07  Aligned_cols=271  Identities=10%  Similarity=-0.012  Sum_probs=201.5

Q ss_pred             HHHhcCChHHHHHHhhcCCC--CCh--hhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHH
Q 036340          242 GYIHVLDMEEASNLFVKMPH--PDT--LTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKL  317 (579)
Q Consensus       242 ~~~~~~~~~~a~~~~~~~~~--~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  317 (579)
                      -....|++..|+..++....  |+.  .....+.++|...|+++.|+..++....++..++..+...+...++.++|++.
T Consensus         8 ~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~   87 (291)
T 3mkr_A            8 NAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAE   87 (291)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHH
Confidence            34455666666666655542  221  24455677888888888888877765445556777777788888888888888


Q ss_pred             HHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCee
Q 036340          318 FIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVV  397 (579)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  397 (579)
                      ++++...+..|+...                                 .+..+...+...|++++|.+.+++   +.+..
T Consensus        88 l~~ll~~~~~P~~~~---------------------------------~~~~la~~~~~~g~~~~Al~~l~~---~~~~~  131 (291)
T 3mkr_A           88 LDREMSRSVDVTNTT---------------------------------FLLMAASIYFYDQNPDAALRTLHQ---GDSLE  131 (291)
T ss_dssp             HHHHHHSCCCCSCHH---------------------------------HHHHHHHHHHHTTCHHHHHHHHTT---CCSHH
T ss_pred             HHHHHhcccCCCCHH---------------------------------HHHHHHHHHHHCCCHHHHHHHHhC---CCCHH
Confidence            888877655555433                                 335567788899999999999988   46677


Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhH---HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHH
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITF---ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLV  474 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  474 (579)
                      .+..++..+.+.|++++|++.++++.+.  .|+....   ..++..+...|++++|..+|+++++.  .+.++..++.++
T Consensus       132 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la  207 (291)
T 3mkr_A          132 CMAMTVQILLKLDRLDLARKELKKMQDQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQA  207 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHH
Confidence            8888999999999999999999999865  4654321   12233444569999999999999875  345778889999


Q ss_pred             HHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHH-HHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          475 DIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVEL-AQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       475 ~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      .++.+.|++++|...++++ ...| ++.++..++..+...|+.++ +..+++++++.+|+++.+    .....+.+.+++
T Consensus       208 ~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~----~d~~~~~~~fd~  283 (291)
T 3mkr_A          208 ACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFI----KEYRAKENDFDR  283 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHH----HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHH----HHHHHHHHHHHH
Confidence            9999999999999999987 4445 77889999989888998865 678999999999998753    344556666666


Q ss_pred             HHHHH
Q 036340          552 ANEVR  556 (579)
Q Consensus       552 A~~~~  556 (579)
                      +..-|
T Consensus       284 ~~~~~  288 (291)
T 3mkr_A          284 LVLQY  288 (291)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            65543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=8.9e-18  Score=165.68  Aligned_cols=389  Identities=11%  Similarity=-0.039  Sum_probs=228.1

Q ss_pred             chHHHHHHHHHhCCCHHHHHHHHHHhccC------CCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCc
Q 036340          123 ASLSALVSGLIQNGELDEAARVLVKCGSR------CDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNV  196 (579)
Q Consensus       123 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  196 (579)
                      ..|+.+...+...|++++|++.|+++++.      ....+....+|..++.+|...|++++|...++++....+...+. 
T Consensus        52 ~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~-  130 (472)
T 4g1t_A           52 TMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP-  130 (472)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc-
Confidence            34555666666666666666666655431      01234456678999999999999999999988775321111000 


Q ss_pred             cCCcchHHHHHHHHHHHhc--CCHHHHHHHHHhcCC--C-ChhHHHHHHHH---HHhcCChHHHHHHhhcCC---CCChh
Q 036340          197 RFKRNIVSWNSMIMCYAKA--GDVVSAREIFEQMLE--R-DTFSWNTMISG---YIHVLDMEEASNLFVKMP---HPDTL  265 (579)
Q Consensus       197 ~~~~~~~~~~~l~~~~~~~--~~~~~A~~~~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~---~~~~~  265 (579)
                      .-.....++..+..++...  +++++|...|++.++  | ++..+..+..+   +...++.++|+..+++..   +.+..
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~  210 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQY  210 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchH
Confidence            1112355666666666554  579999999999865  3 44555555544   345677888888888776   44556


Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHH
Q 036340          266 TWNAMVSGYAQ----IGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILS  338 (579)
Q Consensus       266 ~~~~l~~~~~~----~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  338 (579)
                      ++..+...+..    .|++++|.+.+++...   .+...+..+...|...|++++|+..+++..+.... +..++..+..
T Consensus       211 ~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~  289 (472)
T 4g1t_A          211 LKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQIGC  289 (472)
T ss_dssp             HHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHHHHH
Confidence            66666555544    4678889999887653   45667888999999999999999999998875322 3344444433


Q ss_pred             hccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHH
Q 036340          339 MSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       339 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~  416 (579)
                      ++...+....+.         ..      ..........+.++.|...++...  .+.+...+..+...+...|++++|+
T Consensus       290 ~y~~~~~~~~~~---------~~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~  354 (472)
T 4g1t_A          290 CYRAKVFQVMNL---------RE------NGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAE  354 (472)
T ss_dssp             HHHHHHHHHHHC---------------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhhhH---------HH------HHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHH
Confidence            332111100000         00      000111111234567777777654  3556778999999999999999999


Q ss_pred             HHHHHhHhCCCCCChh--hHHHHHH-HhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          417 ELFKSMRSFKVLPTYI--TFISVLS-ACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       417 ~~~~~~~~~~~~p~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      ..|++..+....|...  .+..+.. .....|++++|+..|++.++   +.|+.......         ...+..++++.
T Consensus       355 ~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~~~~~~  422 (472)
T 4g1t_A          355 YYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQKIAKMR  422 (472)
T ss_dssp             HHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHHHHHHH
Confidence            9999998754333222  2333332 34578999999999998874   45654322222         22233344333


Q ss_pred             -C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          494 -P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       494 -~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                       . .+.++.+|..++.++...|++++|++.|+++++..|.+|.+...+|
T Consensus       423 l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          423 LSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence             2 2347789999999999999999999999999999999988777665

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=4.9e-18  Score=161.34  Aligned_cols=258  Identities=9%  Similarity=-0.063  Sum_probs=175.2

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhc
Q 036340          298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARC  377 (579)
Q Consensus       298 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  377 (579)
                      +..+...+.+.|++++|+..|+++.+... .+..++..+..++...|+++.|...++......+.+..++..++.+|...
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  146 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNT  146 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHcc
Confidence            33344444444444444444444433221 12333334444444444444444444442223344455667778888888


Q ss_pred             CCHHHHHHHHHhcc-CCCC-----------eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCC-CChhhHHHHHHHhccc
Q 036340          378 GAIVEARIIFEEMK-LLKN-----------VVSWNAMIGGCASHGFATEALELFKSMRSFKVL-PTYITFISVLSACAHA  444 (579)
Q Consensus       378 ~~~~~A~~~~~~~~-~~~~-----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~  444 (579)
                      |++++|...|+++. ..|+           ...+..+...+...|++++|+..++++.+.... ++..++..+...+...
T Consensus       147 g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~  226 (365)
T 4eqf_A          147 SHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLS  226 (365)
T ss_dssp             TCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHC
Confidence            88888888887764 1221           223345578889999999999999999875321 1466888999999999


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHH
Q 036340          445 GLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       445 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      |++++|...++++++.  .+.+..++..++.++...|++++|+..++++ ...| +...+..++.++...|++++|+..|
T Consensus       227 g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  304 (365)
T 4eqf_A          227 GEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAVSNF  304 (365)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999999864  2336788999999999999999999999987 3344 5888999999999999999999999


Q ss_pred             HHHhhcCCC------------CCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          523 EALMKVEPE------------NSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       523 ~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                      ++++++.|+            +..+|..++.++...|+.+.|....++
T Consensus       305 ~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          305 LTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999998877            356688999999999999998887765

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.77  E-value=6.2e-18  Score=160.92  Aligned_cols=277  Identities=15%  Similarity=0.081  Sum_probs=204.4

Q ss_pred             CCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHH-HHHHHHHcCC-CC--ChhhHHHHHHhccCCCchhhHHHHH
Q 036340          278 GNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIK-LFIQMQVEGE-KP--DRHTFSSILSMSSGIVDLHLGMQIH  353 (579)
Q Consensus       278 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~  353 (579)
                      +.++.+...|+.+...+..       ++...|++++|+. .|++...... .|  +...+..+...+...|+++.|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444555555555443322       2344578888888 8776554321 12  3566778888999999999999999


Q ss_pred             HHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh
Q 036340          354 QMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY  431 (579)
Q Consensus       354 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  431 (579)
                      +......+.+..++..++.++...|++++|...|+++.  .+.+..++..++..+...|++++|+..++++....  |+.
T Consensus        88 ~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~  165 (368)
T 1fch_A           88 EAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAY  165 (368)
T ss_dssp             HHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTT
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCc
Confidence            99767778888999999999999999999999999874  34467789999999999999999999999999753  433


Q ss_pred             h-hHHH---------------HHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C
Q 036340          432 I-TFIS---------------VLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P  494 (579)
Q Consensus       432 ~-~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  494 (579)
                      . .+..               .+..+...|++++|...++++++.....++..++..++.++...|++++|...++++ .
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  245 (368)
T 1fch_A          166 AHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS  245 (368)
T ss_dssp             GGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3 2221               133333899999999999999875322224778899999999999999999999987 3


Q ss_pred             CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          495 FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       495 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ..| +...+..++..+...|++++|+..++++++..|+++.++..++.+|...|++++|...++++.+..
T Consensus       246 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          246 VRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             hCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            334 678999999999999999999999999999999999999999999999999999999999987644

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.76  E-value=7.9e-18  Score=157.29  Aligned_cols=258  Identities=9%  Similarity=-0.072  Sum_probs=179.7

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhc
Q 036340          298 WNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARC  377 (579)
Q Consensus       298 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~  377 (579)
                      +..+...+...|++++|..+|+++.+... .+...+..+..++...|+++.|...++......+.+...+..++..+...
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~  102 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAAP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE  102 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHc
Confidence            33444444444444444444444444321 13333444444444445555555444443333344555566677777777


Q ss_pred             CCHHHHHHHHHhcc-CCC-CeeeHHHH--------------HH-HHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          378 GAIVEARIIFEEMK-LLK-NVVSWNAM--------------IG-GCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       378 ~~~~~A~~~~~~~~-~~~-~~~~~~~l--------------~~-~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      |++++|...++++. ..| +...+..+              .. .+...|++++|+..++++.+.. +.+...+..+...
T Consensus       103 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  181 (327)
T 3cv0_A          103 HNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVL  181 (327)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            77777777777653 222 22223222              22 3677888999999999998643 3355688888899


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|...++++++.  .+.+...+..++.++...|++++|...++++ ... .+...+..++.++...|++++|
T Consensus       182 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A  259 (327)
T 3cv0_A          182 YNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYDLA  259 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHHHH
Confidence            99999999999999998764  2335678889999999999999999999887 333 4678899999999999999999


Q ss_pred             HHHHHHHhhcCCC------------CCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          519 QVAAEALMKVEPE------------NSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       519 ~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ...++++++..|+            ++.++..++.++...|++++|..++++.
T Consensus       260 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          260 AKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999999998            6778999999999999999999998754

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=1.8e-17  Score=157.48  Aligned_cols=233  Identities=14%  Similarity=0.043  Sum_probs=196.3

Q ss_pred             ChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHH
Q 036340          329 DRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGC  406 (579)
Q Consensus       329 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  406 (579)
                      +...+......+...|+++.|..+++......+.+..++..++.+|...|++++|...|+++.  .+.+..+|..++.+|
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            445688888899999999999999999666678889999999999999999999999999875  344577899999999


Q ss_pred             HhcCChHHHHHHHHHhHhCCCCCChh-hH----------HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHH
Q 036340          407 ASHGFATEALELFKSMRSFKVLPTYI-TF----------ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVD  475 (579)
Q Consensus       407 ~~~~~~~~A~~~~~~~~~~~~~p~~~-~~----------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  475 (579)
                      ...|++++|+..++++.+.  .|+.. .+          ..+...+...|++++|..+++++++.....++..++..++.
T Consensus       144 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            9999999999999999864  45432 22          33477889999999999999999876322225788999999


Q ss_pred             HhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHH
Q 036340          476 IVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDAN  553 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  553 (579)
                      ++...|++++|+..++++ .. +.+..+|..++.++...|++++|+..|+++++..|+++.++..++.+|...|++++|.
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            999999999999999987 33 3478899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCC
Q 036340          554 EVRLLMKSNN  563 (579)
Q Consensus       554 ~~~~~~~~~~  563 (579)
                      ..++++.+..
T Consensus       302 ~~~~~al~~~  311 (365)
T 4eqf_A          302 SNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            9999987544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=7.5e-16  Score=139.99  Aligned_cols=249  Identities=12%  Similarity=0.024  Sum_probs=148.7

Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCCCCCCc-hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHH
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCDGGEDL-VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSM  208 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  208 (579)
                      +.....|+++.|+..++.+...   .|.+ ......+..+|...|+++.|+..++...            +|+..++..+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~---~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~------------~~~~~a~~~l   71 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS---SPERDVERDVFLYRAYLAQRKYGVVLDEIKPSS------------APELQAVRMF   71 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC---SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTS------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccC---CchhhHHHHHHHHHHHHHCCCHHHHHHHhcccC------------ChhHHHHHHH
Confidence            3455678888888887776542   2222 3355667778888888888887665532            5667777778


Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHc
Q 036340          209 IMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFK  288 (579)
Q Consensus       209 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  288 (579)
                      +..+...++.++|.+.+++++..+..                          +.+...+..+...+...|++++|++.++
T Consensus        72 a~~~~~~~~~~~A~~~l~~ll~~~~~--------------------------P~~~~~~~~la~~~~~~g~~~~Al~~l~  125 (291)
T 3mkr_A           72 AEYLASHSRRDAIVAELDREMSRSVD--------------------------VTNTTFLLMAASIYFYDQNPDAALRTLH  125 (291)
T ss_dssp             HHHHHCSTTHHHHHHHHHHHHHSCCC--------------------------CSCHHHHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             HHHHcCCCcHHHHHHHHHHHHhcccC--------------------------CCCHHHHHHHHHHHHHCCCHHHHHHHHh
Confidence            88888888888888888776432100                          1234445556666777777777777777


Q ss_pred             cCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHH---HHHHhccCCCchhhHHHHHHHHhhcCCCCch
Q 036340          289 RMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFS---SILSMSSGIVDLHLGMQIHQMVTKTVIPDVP  365 (579)
Q Consensus       289 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  365 (579)
                      +  ..+...+..++..+.+.|++++|...|+++.+..  |+.....   ..+..+...|+++.|..+++......|.++.
T Consensus       126 ~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~  201 (291)
T 3mkr_A          126 Q--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLL  201 (291)
T ss_dssp             T--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHH
T ss_pred             C--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHH
Confidence            6  4556677777777888888888888888877653  4432111   1112222334455555555443333444555


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHH-HHHHHHHhH
Q 036340          366 INNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATE-ALELFKSMR  423 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~-A~~~~~~~~  423 (579)
                      +++.++.++...|++++|+..|++..  .+.++.++..++..+...|+.++ +.++++++.
T Consensus       202 ~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~  262 (291)
T 3mkr_A          202 LLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLK  262 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            55555556666666666666665542  22244455555555555555543 345555555

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.71  E-value=5.6e-16  Score=144.67  Aligned_cols=278  Identities=9%  Similarity=0.026  Sum_probs=151.8

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCH
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNL  280 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  280 (579)
                      +...+..++..+...|++++|...|+++++.++                            .+..++..++.++...|++
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~----------------------------~~~~~~~~l~~~~~~~~~~   71 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAP----------------------------EREEAWRSLGLTQAENEKD   71 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCT----------------------------TCHHHHHHHHHHHHHTTCH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC----------------------------CCHHHHHHHHHHHHHcCCH
Confidence            444566777788888888888888877654221                            2334444555555555666


Q ss_pred             HHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHh
Q 036340          281 ELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVT  357 (579)
Q Consensus       281 ~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  357 (579)
                      ++|...++++.+   .+...+..+...+...|++++|...++++.+.... +...+..+...+                 
T Consensus        72 ~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~-----------------  133 (327)
T 3cv0_A           72 GLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD-----------------  133 (327)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC-------------------------
T ss_pred             HHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH-----------------
Confidence            666555555442   34456666677777777777777777777654321 111111110000                 


Q ss_pred             hcCCCCchHHHHH-HH-HhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhh
Q 036340          358 KTVIPDVPINNAL-IT-MYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYIT  433 (579)
Q Consensus       358 ~~~~~~~~~~~~l-~~-~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  433 (579)
                          ++......+ .. .+...|++++|...++++.  .+.+...+..++..+...|++++|+..++++.+.. +.+..+
T Consensus       134 ----~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  208 (327)
T 3cv0_A          134 ----VDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQL  208 (327)
T ss_dssp             ----------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             ----HHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHH
Confidence                000000111 11 2444555566655555543  22244455556666666666666666666665431 223345


Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-------------CH
Q 036340          434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-------------DK  499 (579)
Q Consensus       434 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-------------~~  499 (579)
                      +..+...+...|++++|...++++++.  .+.+...+..++.++...|++++|...++++ ...|             +.
T Consensus       209 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~  286 (327)
T 3cv0_A          209 WNKLGATLANGNRPQEALDAYNRALDI--NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATR  286 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCH
Confidence            566666666666666666666666543  1224455666666666666666666666655 1112             24


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ..|..+..++...|++++|...++++++..|+
T Consensus       287 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~  318 (327)
T 3cv0_A          287 SMWDFFRMLLNVMNRPDLVELTYAQNVEPFAK  318 (327)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHTTCCSHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhcch
Confidence            56666777777777777777777766655444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.71  E-value=1e-16  Score=139.24  Aligned_cols=195  Identities=15%  Similarity=0.071  Sum_probs=157.9

Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISV  437 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l  437 (579)
                      |+++..+..+...+...|++++|...|++..  .+.+...+..+..++.+.|++++|+..+++..+.  .|+. ..+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            5677788889999999999999999999874  3446678889999999999999999999999964  5654 488888


Q ss_pred             HHHhccc-----------CcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHH
Q 036340          438 LSACAHA-----------GLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGA  504 (579)
Q Consensus       438 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~  504 (579)
                      ..++...           |++++|+..+++.++.   .| +...+..++.++...|++++|+..++++ ....++..+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHH
Confidence            8899999           9999999999999864   45 5778889999999999999999999987 21278889999


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +..++...|++++|+..|+++++.+|+++.++..++.++...|++++|.+.+++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999998753

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.70  E-value=4.3e-16  Score=151.31  Aligned_cols=371  Identities=12%  Similarity=0.028  Sum_probs=208.7

Q ss_pred             HHHHHHccCCHHHHHHHhhcCCC-CchhhHHHHHHHHHhcCCh---hhHHHHHccCCCCCcchHHHHHHHHHhCC-----
Q 036340           66 VISGYAKTGEMEEALRLFNSMPA-RNVVSWNAMISGFLQNGDV---ANAIEFFDRMPGRDSASLSALVSGLIQNG-----  136 (579)
Q Consensus        66 l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~l~~~~~~~g-----  136 (579)
                      +...+.+.|++++|+++|++..+ .++.++..|...|...|+.   ++|++.|++..+.++..+..+...+...+     
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~   88 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEA   88 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC----------------------------CHHHHHHHHHTC--CCHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCc
Confidence            45556667777777777776652 3445555666666666666   77777777776666666667776555544     


Q ss_pred             CHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHH---HHHHHccccccCCCCCCCccCCcchHHHHHHHHHHH
Q 036340          137 ELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEE---ARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYA  213 (579)
Q Consensus       137 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  213 (579)
                      ++++|+..|+++...  +.+   .++..++..|...+..++   +.+.+....        .   ..++..+..+...|.
T Consensus        89 ~~~~A~~~~~~Aa~~--g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~--------~---~g~~~a~~~Lg~~y~  152 (452)
T 3e4b_A           89 EHHEAESLLKKAFAN--GEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQ--------A---AGYPEAGLAQVLLYR  152 (452)
T ss_dssp             HHHHHHHHHHHHHHT--TCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHH--------H---HTCTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHC--CCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHH--------H---CCCHHHHHHHHHHHH
Confidence            677888888887773  222   267777777776554433   333333332        1   123456667777777


Q ss_pred             hcC----CHHHHHHHHHhcCCCChhHHHHHHHHHHhcC---ChHHHHHHhhcCC---CCChhhHHHHHHHHHhc----CC
Q 036340          214 KAG----DVVSAREIFEQMLERDTFSWNTMISGYIHVL---DMEEASNLFVKMP---HPDTLTWNAMVSGYAQI----GN  279 (579)
Q Consensus       214 ~~~----~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~----g~  279 (579)
                      ..+    +.+.+..+++.....++..+..+...|...|   +.++|+..|++..   +++...+..|...|...    ++
T Consensus       153 ~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d  232 (452)
T 3e4b_A          153 TQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPD  232 (452)
T ss_dssp             HHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCC
T ss_pred             cCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCC
Confidence            776    4455566666666667778888888888888   7788888887765   34444446677777554    67


Q ss_pred             HHHHHHHHccCCCCChhhHHHHHHH-H--HhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccC----CCchhhHHHH
Q 036340          280 LELALDFFKRMPQKNLVSWNSMIAG-C--ETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSG----IVDLHLGMQI  352 (579)
Q Consensus       280 ~~~A~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  352 (579)
                      +++|..+|++....++..+..|... +  ...+++++|+..|++..+.|   +...+..+...+..    ..+.+.|..+
T Consensus       233 ~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          233 EKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYYEGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            8888888887774455667777766 4  45788888888888887765   34444444444431    1266666666


Q ss_pred             HHHHhhcCCCCchHHHHHHHHhhh----cCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHh
Q 036340          353 HQMVTKTVIPDVPINNALITMYAR----CGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRS  424 (579)
Q Consensus       353 ~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~  424 (579)
                      ++...   +.++.....+..+|..    ..++++|..+|+......++.....|...|..    ..+..+|..+|+...+
T Consensus       310 ~~~Aa---~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          310 FEKAV---GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHTTT---TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHh---CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            66622   4455555556655554    23666666666665434445555556665553    3456666666666666


Q ss_pred             CCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          425 FKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       425 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      .|. ++.......+......++..+|..+.++..+
T Consensus       387 ~g~-~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          387 QDT-PEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             TCC-HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCC-HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            552 2222222223333344455556555555443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.68  E-value=3.4e-16  Score=152.03  Aligned_cols=376  Identities=9%  Similarity=-0.008  Sum_probs=209.9

Q ss_pred             HHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCH---HHHHHHHHhcCCCChhHHHHHH
Q 036340          164 TLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDV---VSAREIFEQMLERDTFSWNTMI  240 (579)
Q Consensus       164 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~l~  240 (579)
                      .+...+.+.|++++|.++|+++.        +.|   +...+..+...|...|+.   ++|...|++..+.++..+..+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa--------~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg   76 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLA--------ELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLG   76 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH--------HHT---CCTGGGTCC----------------------------CHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHH--------HCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHH
Confidence            35666777788888888888875        222   334455566666677777   7888888887766666677777


Q ss_pred             HHHHhcC-----ChHHHHHHhhcCC-CCChhhHHHHHHHHHhcCCHHH---HHHHHccCCC-CChhhHHHHHHHHHhCCC
Q 036340          241 SGYIHVL-----DMEEASNLFVKMP-HPDTLTWNAMVSGYAQIGNLEL---ALDFFKRMPQ-KNLVSWNSMIAGCETNKD  310 (579)
Q Consensus       241 ~~~~~~~-----~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~-~~~~~~~~l~~~~~~~~~  310 (579)
                      ..+...+     ++++|+..|++.. ..+...+..|...|...+..++   +.+.+..... .++..+..|...|...+.
T Consensus        77 ~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           77 RLLAAKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             HHHHTC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTC
T ss_pred             HHHHhCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCC
Confidence            6555544     6677887777766 3344466667777666554333   3333332222 355666677777777776


Q ss_pred             chHHHHHHHHHHHcCCCCChhhHHHHHHhccCCC---chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhc----CCHHHH
Q 036340          311 YEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIV---DLHLGMQIHQMVTKTVIPDVPINNALITMYARC----GAIVEA  383 (579)
Q Consensus       311 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~A  383 (579)
                      ++++......+.+.-...+...+..+...+...|   +.+.|..+++.....-+++...+..+..+|...    +++++|
T Consensus       157 ~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A  236 (452)
T 3e4b_A          157 YDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTA  236 (452)
T ss_dssp             GGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHH
T ss_pred             cccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHH
Confidence            6555555433333222223335666666666677   777777777774444455555555566666554    677778


Q ss_pred             HHHHHhccCCCCeeeHHHHHHH-H--HhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccC-----cHHHHHHHHH
Q 036340          384 RIIFEEMKLLKNVVSWNAMIGG-C--ASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAG-----LVEEGRQHFK  455 (579)
Q Consensus       384 ~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-----~~~~a~~~~~  455 (579)
                      ..+|+... +.++..+..+... +  ...+++++|+++|++..+.|   +...+..|...|. .|     ++++|...|+
T Consensus       237 ~~~~~~aa-~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~  311 (452)
T 3e4b_A          237 QALLEKIA-PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFE  311 (452)
T ss_dssp             HHHHHHHG-GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHH
T ss_pred             HHHHHHHc-CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHH
Confidence            88777776 5566667777666 3  35677778888888777655   4445555555554 34     7777877777


Q ss_pred             HhHHhhCCCCCcchhHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhh
Q 036340          456 SMVNEYGIEPRIEHFASLVDIVGR----HGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMK  527 (579)
Q Consensus       456 ~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~  527 (579)
                      +..     +-++.....|+.+|..    ..++++|...|++.-..-++.....+...|..    ..+.++|...|+++.+
T Consensus       312 ~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          312 KAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             TTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            664     2345566666666655    33777788777776323344555556655543    3477778888877777


Q ss_pred             cCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          528 VEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       528 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ..+.+.......+......++..+|..+.++.+
T Consensus       387 ~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          387 QDTPEANDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             TCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            665433222222222233445666666666554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.66  E-value=1.8e-15  Score=135.83  Aligned_cols=218  Identities=10%  Similarity=0.005  Sum_probs=124.5

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhh
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYAR  376 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  376 (579)
                      .+..+...+...|++++|+..|+++.+..  .+...+..                                  ++.++..
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~----------------------------------~~~~~~~   50 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNN----------------------------------RAAAEYE   50 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHH----------------------------------HHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHH----------------------------------HHHHHHH
Confidence            45566666667777777777777666554  34444433                                  3444444


Q ss_pred             cCCHHHHHHHHHhcc-CCC----C----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcH
Q 036340          377 CGAIVEARIIFEEMK-LLK----N----VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLV  447 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~----~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  447 (579)
                      .|++++|...+++.. ..|    +    ...+..+...+...|++++|+..++++.+.  .|+.       ..+...|++
T Consensus        51 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~  121 (258)
T 3uq3_A           51 KGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNA  121 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHH
Confidence            444444444444332 011    1    234555555555666666666666665542  3332       223344556


Q ss_pred             HHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHH
Q 036340          448 EEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEA  524 (579)
Q Consensus       448 ~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  524 (579)
                      ++|...++.+...   .| +...+..++.++...|++++|...++++ . .+.+...+..++..+...|++++|+..+++
T Consensus       122 ~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  198 (258)
T 3uq3_A          122 EKELKKAEAEAYV---NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNK  198 (258)
T ss_dssp             HHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            6666666655431   23 3455556666666666666666666655 2 223455666666666667777777777777


Q ss_pred             HhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          525 LMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       525 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      +++..|+++.++..++.++...|++++|.+.++++.+.
T Consensus       199 al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          199 AIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            77777776666677777777777777777776666543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=5.7e-15  Score=133.76  Aligned_cols=244  Identities=9%  Similarity=-0.047  Sum_probs=155.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCC
Q 036340          267 WNAMVSGYAQIGNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGI  343 (579)
Q Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  343 (579)
                      +...+..+...|++++|+..|+++.+   .+...+..+..++...|++++|+..+++..+.+..|+  .           
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~--~-----------   72 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATK--A-----------   72 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTT--C-----------
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchh--H-----------
Confidence            34445555555666666666555442   2233555555555556666666666555554221111  1           


Q ss_pred             CchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHH
Q 036340          344 VDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKS  421 (579)
Q Consensus       344 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  421 (579)
                                         ....+..++..+...|++++|...|++..  .+.+...|..+...+...|++++|+..+++
T Consensus        73 -------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  133 (272)
T 3u4t_A           73 -------------------KSADFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEK  133 (272)
T ss_dssp             -------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGG
T ss_pred             -------------------HHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence                               11235667777777788888888777764  234556777788888888888888888888


Q ss_pred             hHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCC---hHHHHHHHHhC---
Q 036340          422 MRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGR---LEDAMDLIKGM---  493 (579)
Q Consensus       422 ~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~---  493 (579)
                      ..+.  .|+. ..+..+...+...+++++|...++++++.   .| +...+..++.++...|+   +++|...++++   
T Consensus       134 al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          134 QIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             GCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             Hhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            7753  4543 36666662344445888888888888754   34 35666677777777777   66677777665   


Q ss_pred             -CCCCC------HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC
Q 036340          494 -PFEPD------KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG  547 (579)
Q Consensus       494 -~~~~~------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  547 (579)
                       ...|+      ...+..+...+...|++++|...++++++++|+++.++..+..+....+
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence             12233      2467778888999999999999999999999999988888777665544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.64  E-value=3e-15  Score=134.39  Aligned_cols=189  Identities=12%  Similarity=0.039  Sum_probs=161.2

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC--CCC----hhhHHH
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKV--LPT----YITFIS  436 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~p~----~~~~~~  436 (579)
                      ..+..++..+...|++++|...|++..  . .+...+..+..++...|++++|+..+++..+...  .|+    ..++..
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH-KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            456778889999999999999999874  4 7778899999999999999999999999886421  112    468888


Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNN  514 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~  514 (579)
                      +...+...|++++|...+++++..   .|+       ...+...|++++|...++++ ...| +...+..++..+...|+
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~---~~~-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTE---HRT-------ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CCC-------HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc---Cch-------hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcC
Confidence            999999999999999999999864   444       34567788899999999987 3344 56688888999999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          515 VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +++|+..++++++..|.++.++..++.++...|++++|...++++.+...
T Consensus       155 ~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            99999999999999999999999999999999999999999999987653

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.64  E-value=6.7e-15  Score=133.56  Aligned_cols=241  Identities=8%  Similarity=-0.121  Sum_probs=172.9

Q ss_pred             CCCchHHHHHHHHHHHcCCC---CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHH
Q 036340          308 NKDYEGAIKLFIQMQVEGEK---PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEAR  384 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  384 (579)
                      .|++++|+..|+++.+....   .+..++..+...+...|+++.|...++......+.+..++..++..+...|++++|.
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHH
Confidence            34555555555555543211   123344444555555666666666655544444556677788888999999999999


Q ss_pred             HHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhC
Q 036340          385 IIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYG  462 (579)
Q Consensus       385 ~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  462 (579)
                      ..|++..  .+.+...+..++.++...|++++|+..++++.+.  .|+.......+..+...|++++|...++.....  
T Consensus        98 ~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--  173 (275)
T 1xnf_A           98 EAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK--  173 (275)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc--
Confidence            9998875  3446778899999999999999999999999864  566555555555567779999999999888764  


Q ss_pred             CCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCc
Q 036340          463 IEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPY  536 (579)
Q Consensus       463 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  536 (579)
                       .|+......++..+...++.++|...+++. ...|+     ...+..++..+...|++++|...++++++.+|++.   
T Consensus       174 -~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~---  249 (275)
T 1xnf_A          174 -SDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF---  249 (275)
T ss_dssp             -SCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC---
T ss_pred             -CCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH---
Confidence             233333345777788888899999998876 33332     56788889999999999999999999999999874   


Q ss_pred             hhhhhhhhhcCCchHHHHHH
Q 036340          537 VLLYNMYADVGRWDDANEVR  556 (579)
Q Consensus       537 ~~l~~~~~~~g~~~~A~~~~  556 (579)
                      ...+.++...|++++|.+.+
T Consensus       250 ~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 VEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHhhHHHH
Confidence            45577888999999998876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=3.3e-15  Score=135.62  Aligned_cols=240  Identities=10%  Similarity=-0.034  Sum_probs=157.6

Q ss_pred             hhhcCCCHHHHHHHhccCCCC-------chhHHHHHHHHHHHcCCCCChHHHHHHHhhCC---CCCcchHHHHHHHHHcc
Q 036340            4 GYVKRREMAKARKLFDEMPQR-------DVVSWNVMISGYISSRGSGFLEEARYLFDIMP---ERDCVTWNTVISGYAKT   73 (579)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~   73 (579)
                      .+...|++++|+..|+++.+.       ++..+..+..++...|+   +++|...|+++.   +.++.++..+...|...
T Consensus        14 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~   90 (275)
T 1xnf_A           14 PLQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGL---RALARNDFSQALAIRPDMPEVFNYLGIYLTQA   90 (275)
T ss_dssp             CCCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHT
T ss_pred             ccCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHccc---HHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHc
Confidence            445678888888888887652       35567777777877777   888888888876   34567788888888888


Q ss_pred             CCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCC--CCcchHHHHHHHHHhCCCHHHHHHHHHHh
Q 036340           74 GEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG--RDSASLSALVSGLIQNGELDEAARVLVKC  148 (579)
Q Consensus        74 g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  148 (579)
                      |++++|+..|+++.   +.+..++..++.++...|++++|...|+++..  |+.......+..+...|++++|...++++
T Consensus        91 ~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           91 GNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            88888888888776   34566777788888888888888888877653  33333333444445667888888888776


Q ss_pred             ccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC-cchHHHHHHHHHHHhcCCHHHHHHHHHh
Q 036340          149 GSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK-RNIVSWNSMIMCYAKAGDVVSAREIFEQ  227 (579)
Q Consensus       149 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  227 (579)
                      ...   .+++...+ .++..+...++.++|...++.+....      .... .+..++..++.++.+.|++++|...|++
T Consensus       171 ~~~---~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  240 (275)
T 1xnf_A          171 FEK---SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDN------TSLAEHLSETNFYLGKYYLSLGDLDSATALFKL  240 (275)
T ss_dssp             HHH---SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSH------HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             Hhc---CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhccc------ccccccccHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            663   23333333 36666677777777887777776110      0000 1146677777777777888888777777


Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHh
Q 036340          228 MLERDTFSWNTMISGYIHVLDMEEASNLF  256 (579)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  256 (579)
                      +++.++..+.....++...|++++|+..+
T Consensus       241 al~~~p~~~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          241 AVANNVHNFVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHTTCCTTCHHHHHHHHHHHHHHHC----
T ss_pred             HHhCCchhHHHHHHHHHHHHHHHhhHHHH
Confidence            76655544444445555555555555443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.60  E-value=6.5e-15  Score=127.84  Aligned_cols=186  Identities=16%  Similarity=0.070  Sum_probs=88.9

Q ss_pred             CcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHH
Q 036340           59 DCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGL  132 (579)
Q Consensus        59 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~  132 (579)
                      ++..+..+...+.+.|++++|+..|++..   +.++.++..+..++.+.|++++|+..|++..+   .+...+..+...+
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLSEAY   83 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            33444444455555555555555555443   22334444455555555555555555544332   1233444444444


Q ss_pred             HhC-----------CCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcc
Q 036340          133 IQN-----------GELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRN  201 (579)
Q Consensus       133 ~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  201 (579)
                      ...           |++++|+..++++++   ..|.+..++..++.++...|++++|+..|+++.        ...  .+
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al--------~~~--~~  150 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQAL--------ALE--DT  150 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH--------HHC--CC
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHH--------hcc--cc
Confidence            444           666666666666555   334445556666666666666666666666655        222  44


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCChHHHHHHhh
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLE--R-DTFSWNTMISGYIHVLDMEEASNLFV  257 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~  257 (579)
                      ...+..+..++...|++++|...|++.++  | +...+..+...+...|++++|+..|+
T Consensus       151 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          151 PEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC------------
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            55555666666666666666666665533  1 23344444444444444444444444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.59  E-value=8.3e-16  Score=153.98  Aligned_cols=126  Identities=13%  Similarity=0.150  Sum_probs=108.8

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc------CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK------LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFIS  436 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  436 (579)
                      -..+|++++++|++.|++++|.++|.+|.      ..||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34578999999999999999999997753      579999999999999999999999999999999999999999999


Q ss_pred             HHHHhcccCc-HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          437 VLSACAHAGL-VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       437 l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      +|.++++.|+ .++|.++|++|..+ |+.||..+|+.++....+.    ..++.++++
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~----~vL~~Vrkv  258 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRA----TVLKAVHKV  258 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHH----HHHHHHGGG
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHH----HHHHHHHHh
Confidence            9999999997 47899999999877 9999999999887655544    444444444

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.59  E-value=4.1e-14  Score=132.84  Aligned_cols=244  Identities=9%  Similarity=0.030  Sum_probs=166.2

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCc-hhhHHHHHHHHhhcCCCCchHHHHHHHHhh
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVD-LHLGMQIHQMVTKTVIPDVPINNALITMYA  375 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~  375 (579)
                      .|..+...+...|++++|+..|+++++.... +...|..+..++...|+ ++.|...++......+.+..+|..+..++.
T Consensus        99 a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~-~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A           99 VYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            3444444444555555555555555443211 23333444444444443 455554444444444556666777888888


Q ss_pred             hcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcc-cCcHHHH-
Q 036340          376 RCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAH-AGLVEEG-  450 (579)
Q Consensus       376 ~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~-~~~~~~a-  450 (579)
                      ..|++++|+..|+++.  .+.+...|..+..++...|++++|+..++++++.  .|+ ...|..+..++.. .|..++| 
T Consensus       178 ~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHH
Confidence            8888888888888764  3446678888888888899999999999998864  554 4578888888877 5554666 


Q ss_pred             ----HHHHHHhHHhhCCCC-CcchhHHHHHHhhccC--ChHHHHHHHHhCCCCC-CHHHHHHHHHHHhhcC--------C
Q 036340          451 ----RQHFKSMVNEYGIEP-RIEHFASLVDIVGRHG--RLEDAMDLIKGMPFEP-DKAVWGALLGACRVHN--------N  514 (579)
Q Consensus       451 ----~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~--------~  514 (579)
                          +..+++++..   .| +...|..+..++...|  ++++|++.+.++...| +...+..++.++.+.|        +
T Consensus       256 ~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          256 LEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence                4778877753   45 5677888888888877  6888888888775445 5667788888887763        2


Q ss_pred             -HHHHHHHHHHH-hhcCCCCCCCchhhhhhhhhc
Q 036340          515 -VELAQVAAEAL-MKVEPENSTPYVLLYNMYADV  546 (579)
Q Consensus       515 -~~~A~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  546 (579)
                       .++|+.+|+++ .+++|.....|..++..+..+
T Consensus       333 ~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          333 ILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence             58899999999 899999888888777766543

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.59  E-value=3.3e-14  Score=127.08  Aligned_cols=198  Identities=12%  Similarity=-0.026  Sum_probs=138.5

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHh
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC  441 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  441 (579)
                      ...+..++..+...|++++|...|+++.  .+.+...+..+...+...|++++|++.++++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            3455666777777777777777777653  23345567777777777777777777777776542 22444666777777


Q ss_pred             cccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH
Q 036340          442 AHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       442 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      ...|++++|.++++++.. .+..| +...+..++.++...|++++|...++++ ...| +...+..++..+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            777777887777777764 12344 3556667777777778888877777766 2223 566777777777778888888


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ...++++++..|.++..+..++.++...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888888887777777777777777888888888888887776654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=1.7e-14  Score=128.08  Aligned_cols=177  Identities=9%  Similarity=0.015  Sum_probs=93.5

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      +...+..++..+...|++++|...++++.  .+.+...+..+...+...|++++|++.++++.+.. +.+...+..+...
T Consensus        56 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~  134 (243)
T 2q7f_A           56 DAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTV  134 (243)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            33444455555555566666655555543  12234445555555666666666666666655432 2233355555555


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|...++++++.  .+.+...+..++.++...|++++|...++++ . .+.+...+..++.++...|++++|
T Consensus       135 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  212 (243)
T 2q7f_A          135 LVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKA  212 (243)
T ss_dssp             HHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHH
Confidence            56666666666666655542  1223445555555555666666665555554 1 122344555555555566666666


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhh
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      ...++++++..|+++.++..++.+
T Consensus       213 ~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          213 LEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHHHHccCcchHHHHHHHHHH
Confidence            666666666666555544444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.58  E-value=3.8e-14  Score=124.18  Aligned_cols=199  Identities=14%  Similarity=0.025  Sum_probs=152.9

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      ++..+..++..+...|++++|...|+++.  .+.+...+..++..+...|++++|++.++++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            45566777888888888888888888764  23456677788888888888888888888887642 2345577778888


Q ss_pred             hccc-CcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHH
Q 036340          441 CAHA-GLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       441 ~~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~  516 (579)
                      +... |++++|...++++++ .+..| +...+..++.++...|++++|...++++ ...| +...+..++..+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            8888 888888888888875 22334 3566778888888888888888888876 2233 5777888888888888888


Q ss_pred             HHHHHHHHHhhcCC-CCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          517 LAQVAAEALMKVEP-ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       517 ~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +|...++++++..| .++..+..++..+...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            89888888888888 777778888888888888888888888876544

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.58  E-value=1.4e-13  Score=124.48  Aligned_cols=224  Identities=12%  Similarity=-0.045  Sum_probs=136.2

Q ss_pred             ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHH
Q 036340          294 NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITM  373 (579)
Q Consensus       294 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  373 (579)
                      ++.++..+...+...|++++|+..|++..+.+   +...+                                  ..+...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~----------------------------------~~lg~~   47 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGC----------------------------------FNLGVL   47 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHH----------------------------------HHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHH----------------------------------HHHHHH
Confidence            55667777888888888888888888877622   22333                                  334444


Q ss_pred             hhh----cCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc--
Q 036340          374 YAR----CGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRSFKVLPTYITFISVLSACAH--  443 (579)
Q Consensus       374 ~~~----~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~--  443 (579)
                      |..    .+++++|...|++.....++..+..+...|..    .+++++|+..|++..+.+   +..++..+...|..  
T Consensus        48 ~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~  124 (273)
T 1ouv_A           48 YYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGK  124 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             HHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCC
Confidence            444    55666666666554322344555556666666    666666666666666543   44455555555555  


Q ss_pred             --cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cC
Q 036340          444 --AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR----HGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HN  513 (579)
Q Consensus       444 --~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~  513 (579)
                        .+++++|...|++..+. +   +...+..++.+|..    .+++++|...+++.-...++..+..+...+..    .+
T Consensus       125 ~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          125 VVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCC
T ss_pred             CcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCc
Confidence              66666666666666542 2   34445555666655    66666666666655212345556666666666    66


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh----cCCchHHHHHHHHHHhCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYAD----VGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  563 (579)
                      ++++|+..++++.+..|  +.++..++.+|..    .+++++|.+.+++..+.+
T Consensus       201 ~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          201 NFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             cHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            77777777777666655  3456666666666    677777777776666555

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.58  E-value=1.5e-13  Score=122.84  Aligned_cols=205  Identities=10%  Similarity=-0.033  Sum_probs=161.4

Q ss_pred             hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          295 LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       295 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      ...|..+...+...|++++|...|+++.+..                                   +.+...+..++..+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-----------------------------------~~~~~~~~~la~~~   81 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-----------------------------------PSSADAHAALAVVF   81 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-----------------------------------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----------------------------------CChHHHHHHHHHHH
Confidence            3456667777777777777777777766542                                   22344556677788


Q ss_pred             hhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHH
Q 036340          375 ARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGR  451 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~  451 (579)
                      ...|++++|.+.++++.  .+.+...+..+...+...|++++|+++++++...+..|+. ..+..+...+...|++++|.
T Consensus        82 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  161 (252)
T 2ho1_A           82 QTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAK  161 (252)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            88888888888888764  2345667888889999999999999999999864355654 47788888999999999999


Q ss_pred             HHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          452 QHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      ..++++++.  .+.+...+..++.++...|++++|...++++ ... .+...+..+...+...|++++|...++++.+..
T Consensus       162 ~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          162 EYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            999998764  1335778889999999999999999999887 333 467788888888999999999999999999999


Q ss_pred             CCCCCCc
Q 036340          530 PENSTPY  536 (579)
Q Consensus       530 p~~~~~~  536 (579)
                      |+++...
T Consensus       240 p~~~~~~  246 (252)
T 2ho1_A          240 PGSLEYQ  246 (252)
T ss_dssp             TTSHHHH
T ss_pred             CCCHHHH
Confidence            9986543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.57  E-value=1.3e-14  Score=129.01  Aligned_cols=199  Identities=10%  Similarity=0.028  Sum_probs=155.9

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSA  440 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  440 (579)
                      ....+..++..+...|++++|...|+++.  .+.+...+..+...+...|++++|+..++++.+.. +.+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            45566778888999999999999999874  23456778889999999999999999999998653 2355688888999


Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      +...|++++|...++++.+.  .+.+...+..++.++...|++++|...++++ .. +.+...+..++..+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999864  2346778889999999999999999999987 33 34678889999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +..++++++..|+++.++..++.+|...|++++|...++++.+...
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            9999999999999999999999999999999999999999987654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.57  E-value=1.3e-13  Score=124.75  Aligned_cols=190  Identities=13%  Similarity=0.044  Sum_probs=92.0

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchH
Q 036340          124 SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIV  203 (579)
Q Consensus       124 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  203 (579)
                      .+...+..+...|++++|+..++++.+   ..|.+..++..++.++...|++++|++.++++....      ........
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~------~~~~~~~~   75 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEA---KKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV------NATKAKSA   75 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHH---TTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS------CTTTCCHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc------CchhHHHH
Confidence            344455556666666666666666655   233444456666666666666666666666665210      00011122


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhc
Q 036340          204 SWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQI  277 (579)
Q Consensus       204 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~  277 (579)
                      +|..+..++...|++++|.+.|++.++.   +...+..+...+...|++++|+..|++..   +.+..++..+...+...
T Consensus        76 ~~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  155 (272)
T 3u4t_A           76 DFEYYGKILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYN  155 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHH
Confidence            3556666666666666666666655431   23344444444444444444444444444   22333444444122222


Q ss_pred             CCHHHHHHHHccCCC---CChhhHHHHHHHHHhCCC---chHHHHHHHHHH
Q 036340          278 GNLELALDFFKRMPQ---KNLVSWNSMIAGCETNKD---YEGAIKLFIQMQ  322 (579)
Q Consensus       278 g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~  322 (579)
                      +++++|...|+++.+   .+...+..+..++...|+   +++|...|++..
T Consensus       156 ~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  206 (272)
T 3u4t_A          156 KEYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLI  206 (272)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence            355555555544432   123334444444444444   444555444443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.56  E-value=2.9e-14  Score=133.88  Aligned_cols=227  Identities=11%  Similarity=0.082  Sum_probs=192.6

Q ss_pred             hhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCC-HHHHHHHHHhcc--CCCCeeeHHHHHHHHH
Q 036340          331 HTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGA-IVEARIIFEEMK--LLKNVVSWNAMIGGCA  407 (579)
Q Consensus       331 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  407 (579)
                      ..+..+..++...|+++.|...++......+.+..+|..+..++...|+ +++|+..|+++.  .+.+...|..+..++.
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            3455566677888999999999999777888899999999999999997 999999999875  3446778999999999


Q ss_pred             hcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhc-cCChH
Q 036340          408 SHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGR-HGRLE  484 (579)
Q Consensus       408 ~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~-~g~~~  484 (579)
                      ..|++++|+..|+++++.  .|+ ...|..+..++...|++++|+..++++++.   .| +...|..++.++.. .|..+
T Consensus       178 ~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999964  565 458999999999999999999999999864   45 67889999999999 66658


Q ss_pred             HH-----HHHHHhC-CCCC-CHHHHHHHHHHHhhcC--CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC--------
Q 036340          485 DA-----MDLIKGM-PFEP-DKAVWGALLGACRVHN--NVELAQVAAEALMKVEPENSTPYVLLYNMYADVG--------  547 (579)
Q Consensus       485 ~A-----~~~~~~~-~~~~-~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------  547 (579)
                      +|     +..++++ ...| +...|..+..++...|  ++++|+..++++ +.+|+++.++..++.+|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            88     4667665 4445 6778999998888887  689999999998 899999999999999999875        


Q ss_pred             -CchHHHHHHHHH-HhCC
Q 036340          548 -RWDDANEVRLLM-KSNN  563 (579)
Q Consensus       548 -~~~~A~~~~~~~-~~~~  563 (579)
                       .+++|.++++++ .+..
T Consensus       332 ~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          332 DILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhC
Confidence             358999999998 5544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.56  E-value=3.6e-14  Score=119.93  Aligned_cols=165  Identities=14%  Similarity=0.071  Sum_probs=122.9

Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHH
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASL  473 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  473 (579)
                      +...|..++..|...|++++|++.|++..+.  .|+. .++..+..++...|++++|...++.+...  .+.+...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            3456777777777788888888888877753  4543 37777777778888888888887777643  12245566667


Q ss_pred             HHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          474 VDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       474 ~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      +..+...++++.|...+.+. ...| +...+..++.++...|++++|+..|+++++.+|.++.++..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            77777788888888877776 2233 566777788888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhCC
Q 036340          552 ANEVRLLMKSNN  563 (579)
Q Consensus       552 A~~~~~~~~~~~  563 (579)
                      |.+.+++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            888888877654

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.55  E-value=1e-12  Score=118.87  Aligned_cols=228  Identities=9%  Similarity=-0.044  Sum_probs=176.4

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHccCCCC-ChhhHHHHHHHHHh----CCCchHHHHHHHHHHHcCCCCChhhHHHH
Q 036340          262 PDTLTWNAMVSGYAQIGNLELALDFFKRMPQK-NLVSWNSMIAGCET----NKDYEGAIKLFIQMQVEGEKPDRHTFSSI  336 (579)
Q Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  336 (579)
                      .++.++..+...+...|++++|...|++..++ +...+..+...|..    .+++++|+..|++..+.+   +...+   
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~---   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC---   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH---
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH---
Confidence            46678888999999999999999999988764 56688888999999    999999999999988764   33333   


Q ss_pred             HHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhh----cCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----
Q 036340          337 LSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYAR----CGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----  408 (579)
Q Consensus       337 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----  408 (579)
                                                     ..+...|..    .+++++|...|++.....+...+..+...|..    
T Consensus        78 -------------------------------~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~  126 (273)
T 1ouv_A           78 -------------------------------HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVV  126 (273)
T ss_dssp             -------------------------------HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSS
T ss_pred             -------------------------------HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCc
Confidence                                           345555666    77777777777766534466677778888887    


Q ss_pred             cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc----cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc----c
Q 036340          409 HGFATEALELFKSMRSFKVLPTYITFISVLSACAH----AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR----H  480 (579)
Q Consensus       409 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  480 (579)
                      .+++++|+..|++..+.+   +...+..+...|..    .+++++|...+++..+.    .+...+..++.+|..    .
T Consensus       127 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSC
T ss_pred             ccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCC
Confidence            888888888888888755   44566667777766    88899999998888753    245667778888888    8


Q ss_pred             CChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhhcCCCCC
Q 036340          481 GRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       481 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      +++++|+..+++.-...+...+..+...+..    .+++++|+..|+++.+..|++.
T Consensus       200 ~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          200 KNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            8999999988876212236777888888887    8899999999999999888754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.55  E-value=1.8e-14  Score=140.87  Aligned_cols=206  Identities=10%  Similarity=-0.015  Sum_probs=175.4

Q ss_pred             hhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCH-HHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhH
Q 036340          347 HLGMQIHQMVTKTVIPDVPINNALITMYARCGAI-VEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMR  423 (579)
Q Consensus       347 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  423 (579)
                      +.+...++......+.+...+..+...+...|++ ++|+..|++..  .+.+...|..+..+|...|++++|+..|++..
T Consensus        85 ~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  164 (474)
T 4abn_A           85 EKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGAL  164 (474)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444556777888899999999999 99999998874  33457789999999999999999999999999


Q ss_pred             hCCCCCChhhHHHHHHHhccc---------CcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhcc--------CChHH
Q 036340          424 SFKVLPTYITFISVLSACAHA---------GLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRH--------GRLED  485 (579)
Q Consensus       424 ~~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~--------g~~~~  485 (579)
                      +  +.|+...+..+...+...         |++++|+..++++++.   .| +...+..++.+|...        |++++
T Consensus       165 ~--~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          165 T--HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             T--TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             h--hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            5  468877888999999999         9999999999999864   44 578888999999988        99999


Q ss_pred             HHHHHHhC-CCCC----CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHH
Q 036340          486 AMDLIKGM-PFEP----DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRL  557 (579)
Q Consensus       486 A~~~~~~~-~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  557 (579)
                      |+..|+++ ...|    +...|..+..++...|++++|+..|+++++++|+++.++..++.++...|++++|.+.+.
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999987 3344    788999999999999999999999999999999999999999999999999999997543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=2.3e-13  Score=119.09  Aligned_cols=207  Identities=13%  Similarity=-0.029  Sum_probs=158.4

Q ss_pred             hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          295 LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       295 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      +..+..++..+...|++++|...|+++.+..                                   +.+...+..++..+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-----------------------------------~~~~~~~~~l~~~~   52 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-----------------------------------PKNELAWLVRAEIY   52 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------------------TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-----------------------------------ccchHHHHHHHHHH
Confidence            4456667777777777777777777766542                                   22334456677778


Q ss_pred             hhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhc-CChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHH
Q 036340          375 ARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASH-GFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEG  450 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a  450 (579)
                      ...|++++|...+++..  .+.+...+..++..+... |++++|+..++++.+.+..|+. ..+..+..++...|++++|
T Consensus        53 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  132 (225)
T 2vq2_A           53 QYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLA  132 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888764  234566788888889999 9999999999998873344543 4778888899999999999


Q ss_pred             HHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC-C-CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          451 RQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-E-PDKAVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       451 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      ...++++++.  .+.+...+..++.++...|++++|...++++ .. + .+...+..+...+...|+.+.|...++.+.+
T Consensus       133 ~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          133 EAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            9999998764  1235678888999999999999999999887 22 3 4666777777778899999999999999999


Q ss_pred             cCCCCCCCchh
Q 036340          528 VEPENSTPYVL  538 (579)
Q Consensus       528 ~~p~~~~~~~~  538 (579)
                      ..|+++.....
T Consensus       211 ~~p~~~~~~~~  221 (225)
T 2vq2_A          211 NFPYSEELQTV  221 (225)
T ss_dssp             HCTTCHHHHHH
T ss_pred             hCCCCHHHHHH
Confidence            99998764443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=2e-14  Score=138.83  Aligned_cols=266  Identities=13%  Similarity=0.032  Sum_probs=169.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHccCCC--CC-h----hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCC-CChhhHHHHH
Q 036340          266 TWNAMVSGYAQIGNLELALDFFKRMPQ--KN-L----VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEK-PDRHTFSSIL  337 (579)
Q Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~  337 (579)
                      .+..+...+...|++++|...|+++.+  ++ .    ..+..+...|...|++++|+..+++..+.... .+        
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~--------  121 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMND--------  121 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC--------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccC--------
Confidence            344455566666777777776666553  22 2    24556666666667777776666665432100 00        


Q ss_pred             HhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C------CC-CeeeHHHHHHHHHhc
Q 036340          338 SMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L------LK-NVVSWNAMIGGCASH  409 (579)
Q Consensus       338 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~------~~-~~~~~~~l~~~~~~~  409 (579)
                                            .+....++..+...|...|++++|...+++.. .      .+ ...++..+...|...
T Consensus       122 ----------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (411)
T 4a1s_A          122 ----------------------RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAK  179 (411)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ----------------------chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHc
Confidence                                  11123345566667777777777777776543 0      11 233566677777777


Q ss_pred             CC-----------------hHHHHHHHHHhHhC----CCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-
Q 036340          410 GF-----------------ATEALELFKSMRSF----KVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-  466 (579)
Q Consensus       410 ~~-----------------~~~A~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-  466 (579)
                      |+                 +++|++.+++..+.    +..|. ..++..+...+...|++++|...+++.++...-.++ 
T Consensus       180 g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  259 (411)
T 4a1s_A          180 GKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR  259 (411)
T ss_dssp             HHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc
Confidence            77                 77777777765432    11122 236667777888888888888888877653211111 


Q ss_pred             ---cchhHHHHHHhhccCChHHHHHHHHhC-C----CC---CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC--
Q 036340          467 ---IEHFASLVDIVGRHGRLEDAMDLIKGM-P----FE---PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS--  533 (579)
Q Consensus       467 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~----~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~--  533 (579)
                         ...+..++.+|...|++++|...+++. .    ..   .....+..+...+...|++++|...++++++..+...  
T Consensus       260 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  339 (411)
T 4a1s_A          260 AAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDR  339 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence               226677888888888888888888765 1    11   1245667777888888899999988888887654432  


Q ss_pred             ----CCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          534 ----TPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       534 ----~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                          .++..++.+|...|++++|.+++++..+
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence                3677888888899999999888887754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.53  E-value=8e-14  Score=130.50  Aligned_cols=200  Identities=14%  Similarity=0.009  Sum_probs=145.3

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCC----eeeHHHHHHHHHhcCC--------------------hHHH
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK----LLKN----VVSWNAMIGGCASHGF--------------------ATEA  415 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~--------------------~~~A  415 (579)
                      ..++..+...+...|++++|...+++..    ..++    ..++..+...+...|+                    +++|
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            3455667777888888888888877653    1122    2356777788888888                    8888


Q ss_pred             HHHHHHhHhC----CCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHH
Q 036340          416 LELFKSMRSF----KVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDA  486 (579)
Q Consensus       416 ~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A  486 (579)
                      ++.+++....    +..|. ..++..+...+...|++++|...++++++.....++    ...+..++.++...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8888776532    11222 236777778888999999999999887653211111    23677888899999999999


Q ss_pred             HHHHHhC----CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC------CCchhhhhhhhhcCCchHH
Q 036340          487 MDLIKGM----PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENS------TPYVLLYNMYADVGRWDDA  552 (579)
Q Consensus       487 ~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A  552 (579)
                      ...+++.    +..++    ..++..+...+...|++++|...++++++..|...      .++..++.+|...|++++|
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQA  322 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            9988876    11112    45677788889999999999999999987665432      3688899999999999999


Q ss_pred             HHHHHHHHhCC
Q 036340          553 NEVRLLMKSNN  563 (579)
Q Consensus       553 ~~~~~~~~~~~  563 (579)
                      ..++++..+..
T Consensus       323 ~~~~~~a~~~~  333 (338)
T 3ro2_A          323 MHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHHH
Confidence            99999987543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.52  E-value=3.5e-15  Score=149.51  Aligned_cols=146  Identities=14%  Similarity=0.103  Sum_probs=105.6

Q ss_pred             hhHHHHHHHHHhCCCchHHHHHHHHHHH---cCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          296 VSWNSMIAGCETNKDYEGAIKLFIQMQV---EGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       296 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      .+|++||.+|++.|+.++|.++|.+|.+   .|+.||..                                  +|+.|+.
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~Pdvv----------------------------------TYNtLI~  173 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLD----------------------------------MYNAVML  173 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHH----------------------------------HHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHh----------------------------------HHHHHHH
Confidence            4678888888888888888888877653   24444444                                  4466777


Q ss_pred             HhhhcCCHHHHHHHHHhcc---CCCCeeeHHHHHHHHHhcCCh-HHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHH
Q 036340          373 MYARCGAIVEARIIFEEMK---LLKNVVSWNAMIGGCASHGFA-TEALELFKSMRSFKVLPTYITFISVLSACAHAGLVE  448 (579)
Q Consensus       373 ~~~~~~~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  448 (579)
                      +|++.|++++|.++|++|.   ..||+.+|+++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+    +
T Consensus       174 Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR----~  249 (1134)
T 3spa_A          174 GWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR----A  249 (1134)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH----H
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH----H
Confidence            7778888888888888775   678888999999999999874 7899999999999999999999988754433    4


Q ss_pred             HHHHHHHHhHHhhCCCCC------cchhHHHHHHhhccC
Q 036340          449 EGRQHFKSMVNEYGIEPR------IEHFASLVDIVGRHG  481 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g  481 (579)
                      ..++..+++..  ++.|+      ..+...|.+.|.+.+
T Consensus       250 ~vL~~Vrkv~P--~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          250 TVLKAVHKVKP--TFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHGGGCC--CCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHHHHhCc--ccCCCCCCcccccchHHHHHHHccCC
Confidence            55555555533  44443      344455666676655

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.52  E-value=8.6e-14  Score=134.13  Aligned_cols=291  Identities=13%  Similarity=0.039  Sum_probs=164.5

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHccCCC--C-C----hhhHHHHHHHHHhCCCchHHHHHHHHHHHc----CCCCC-
Q 036340          262 PDTLTWNAMVSGYAQIGNLELALDFFKRMPQ--K-N----LVSWNSMIAGCETNKDYEGAIKLFIQMQVE----GEKPD-  329 (579)
Q Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  329 (579)
                      .....+...+..+...|++++|...|+++.+  | +    ...+..+...+...|++++|...+++....    +..|. 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   86 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   86 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHH
Confidence            3444566677788888888888888887664  2 2    245777788888888888888888876542    11111 


Q ss_pred             hhhHHHHHHhccCCCchhhHHHHHHHHhhc---CCC---CchHHHHHHHHhhhcCC--------------------HHHH
Q 036340          330 RHTFSSILSMSSGIVDLHLGMQIHQMVTKT---VIP---DVPINNALITMYARCGA--------------------IVEA  383 (579)
Q Consensus       330 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~---~~~~~~~l~~~~~~~~~--------------------~~~A  383 (579)
                      ..++..+...+...|+++.|...++.....   ...   ...++..+...|...|+                    +++|
T Consensus        87 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A  166 (406)
T 3sf4_A           87 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAA  166 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHH
Confidence            334445555666677777777666551111   111   13355566666666666                    6666


Q ss_pred             HHHHHhcc----CCC----CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC-CCC----hhhHHHHHHHhcccCcHHHH
Q 036340          384 RIIFEEMK----LLK----NVVSWNAMIGGCASHGFATEALELFKSMRSFKV-LPT----YITFISVLSACAHAGLVEEG  450 (579)
Q Consensus       384 ~~~~~~~~----~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a  450 (579)
                      ...+.+..    ..+    ...++..+...+...|++++|+..+++..+... .++    ..++..+...+...|++++|
T Consensus       167 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  246 (406)
T 3sf4_A          167 VDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  246 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            66665432    011    122455566666666666666666666553210 011    11455556666666666666


Q ss_pred             HHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHHHHHHHhC----CCCCC----HHHHHHHHHHHhhcCCHHHH
Q 036340          451 RQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM----PFEPD----KAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       451 ~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~~~A  518 (579)
                      ...+++.+....-.++    ..++..++.++...|++++|...+++.    +..++    ...+..+...+...|++++|
T Consensus       247 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  326 (406)
T 3sf4_A          247 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQA  326 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHH
Confidence            6666665532111111    334556666666666666666666554    11111    33555555666666666666


Q ss_pred             HHHHHHHhhcCCCCCC------CchhhhhhhhhcCCchHH
Q 036340          519 QVAAEALMKVEPENST------PYVLLYNMYADVGRWDDA  552 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A  552 (579)
                      ...+++++++.+....      ++..++.++...|+...+
T Consensus       327 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  366 (406)
T 3sf4_A          327 MHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYST  366 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHH
Confidence            6666666666665532      344445555555554433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=1.5e-14  Score=139.54  Aligned_cols=285  Identities=10%  Similarity=-0.016  Sum_probs=206.4

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHhhcCC--CC-C----hhhHHHHHHHHHhcCCHHHHHHHHccCCC-----C----Ch
Q 036340          232 DTFSWNTMISGYIHVLDMEEASNLFVKMP--HP-D----TLTWNAMVSGYAQIGNLELALDFFKRMPQ-----K----NL  295 (579)
Q Consensus       232 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~----~~  295 (579)
                      ....+......+...|++++|...|+++.  .| +    ..++..+...+...|++++|...+++...     .    ..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            44566778888999999999999999887  33 3    25678888999999999999999887643     1    23


Q ss_pred             hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCC-CC----hhhHHHHHHhccCCCc--------------------hhhHH
Q 036340          296 VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEK-PD----RHTFSSILSMSSGIVD--------------------LHLGM  350 (579)
Q Consensus       296 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~--------------------~~~a~  350 (579)
                      ..+..+...+...|++++|...+++..+.... ++    ..++..+...+...|+                    ++.|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            46778888999999999999999988653211 12    3366677778888899                    89998


Q ss_pred             HHHHH-Hh--hcC---CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCC----eeeHHHHHHHHHhcCChHHHH
Q 036340          351 QIHQM-VT--KTV---IPDVPINNALITMYARCGAIVEARIIFEEMK----LLKN----VVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       351 ~~~~~-~~--~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~A~  416 (579)
                      ..+.. ..  ...   +....++..+...|...|++++|...+++..    ..++    ..++..+...+...|++++|+
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            88876 22  111   1224467888899999999999999998764    1122    236788888999999999999


Q ss_pred             HHHHHhHhCC----CCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHHH
Q 036340          417 ELFKSMRSFK----VLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDAM  487 (579)
Q Consensus       417 ~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  487 (579)
                      ..+++..+..    ..+. ..++..+...+...|++++|...+++++....-.++    ..++..++.+|...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999887431    1111 347778888999999999999999988754221222    457778899999999999999


Q ss_pred             HHHHhC-------CCCC-CHHHHHHHHHHHhhcCCHH
Q 036340          488 DLIKGM-------PFEP-DKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       488 ~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~  516 (579)
                      ..+++.       +..+ ...++..+...+...|+..
T Consensus       328 ~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  364 (406)
T 3sf4_A          328 HFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSY  364 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhH
Confidence            998875       1111 2334455555555555443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.49  E-value=2.1e-13  Score=115.14  Aligned_cols=169  Identities=11%  Similarity=0.026  Sum_probs=144.4

Q ss_pred             CCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHH
Q 036340          362 PDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVL  438 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~  438 (579)
                      .++.+|..+...|...|++++|+..|++..  .+.++.++..+..+|.+.|++++|+..+.+....  .|+ ...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            456788999999999999999999999874  3446778999999999999999999999999864  444 44777778


Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~  516 (579)
                      ..+...++++.+...+.+....  .+.+...+..++.++.+.|++++|+..+++. ...| +...|..++.++.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            8899999999999999998754  2336778889999999999999999999987 3444 7789999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCC
Q 036340          517 LAQVAAEALMKVEPENST  534 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~~  534 (579)
                      +|+..|+++++++|+++.
T Consensus       159 ~A~~~~~~al~~~p~~a~  176 (184)
T 3vtx_A          159 EAVKYFKKALEKEEKKAK  176 (184)
T ss_dssp             HHHHHHHHHHHTTHHHHH
T ss_pred             HHHHHHHHHHhCCccCHH
Confidence            999999999999998753

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.48  E-value=3e-11  Score=121.17  Aligned_cols=400  Identities=10%  Similarity=0.042  Sum_probs=218.7

Q ss_pred             CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCC---HHHHHHHHccccccCCCCCCCc
Q 036340          120 RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGR---VEEARKLFDKIPVNCDRGEGNV  196 (579)
Q Consensus       120 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~  196 (579)
                      .|..+|..++..+.+.+.++.+..+|+.++.   ..|.....|...+..-.+.|+   ++.+..+|++..        ..
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~---~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal--------~~  132 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHD---RFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCL--------SK  132 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHT--------CS
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHH--------Hh
Confidence            3677899999999999999999999999998   567778888888888888888   999999999997        21


Q ss_pred             c-CCcchHHHHHHHHHHHhcCCH--------HHHHHHHHhcC------CC-ChhHHHHHHHHHHh---------cCChHH
Q 036340          197 R-FKRNIVSWNSMIMCYAKAGDV--------VSAREIFEQML------ER-DTFSWNTMISGYIH---------VLDMEE  251 (579)
Q Consensus       197 ~-~~~~~~~~~~l~~~~~~~~~~--------~~A~~~~~~~~------~~-~~~~~~~l~~~~~~---------~~~~~~  251 (579)
                      . .+|++..|...+....+.++.        +...++|+..+      ++ +...|...+.....         .++.+.
T Consensus       133 ~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~  212 (679)
T 4e6h_A          133 ELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQY  212 (679)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHH
Confidence            1 138888999888877665543        33446776643      22 34567666655432         345677


Q ss_pred             HHHHhhcCCC-CC---hhhHHHHHHHHHh-------------cCCHHHHHHHHcc-------CCC--CC-----------
Q 036340          252 ASNLFVKMPH-PD---TLTWNAMVSGYAQ-------------IGNLELALDFFKR-------MPQ--KN-----------  294 (579)
Q Consensus       252 a~~~~~~~~~-~~---~~~~~~l~~~~~~-------------~g~~~~A~~~~~~-------~~~--~~-----------  294 (579)
                      +..+|+.++. |-   ..+|......-..             ..+++.|...+.+       +.+  |.           
T Consensus       213 ~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p  292 (679)
T 4e6h_A          213 IRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLP  292 (679)
T ss_dssp             HHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSC
T ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCC
Confidence            8888888872 22   1233222111111             0112223333322       111  00           


Q ss_pred             ---------hhhHHHHHHHHHhCC-------CchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHH-HHHHHHh
Q 036340          295 ---------LVSWNSMIAGCETNK-------DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGM-QIHQMVT  357 (579)
Q Consensus       295 ---------~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~  357 (579)
                               ...|...+..-...+       ..+.+..+|++.+..- .-....|...+..+...|+.+.|. .+++...
T Consensus       293 ~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi  371 (679)
T 4e6h_A          293 KPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQ  371 (679)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence                     012333333222211       0122344555555432 123444444444444555555664 6666644


Q ss_pred             hcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccC------------CCC------------eeeHHHHHHHHHhcCChH
Q 036340          358 KTVIPDVPINNALITMYARCGAIVEARIIFEEMKL------------LKN------------VVSWNAMIGGCASHGFAT  413 (579)
Q Consensus       358 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------------~~~------------~~~~~~l~~~~~~~~~~~  413 (579)
                      ...|.+...+...+....+.|+++.|..+|+.+..            .|+            ...|...+....+.|+.+
T Consensus       372 ~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~  451 (679)
T 4e6h_A          372 QCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLA  451 (679)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred             HhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHH
Confidence            44555555555666666666666666666665431            021            123555555555566666


Q ss_pred             HHHHHHHHhHhCCCCCChhhHHHHHHHhcc-cCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHh
Q 036340          414 EALELFKSMRSFKVLPTYITFISVLSACAH-AGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKG  492 (579)
Q Consensus       414 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  492 (579)
                      .|..+|.+..+.-..+....|...+..-.+ .++++.|..+|+..++.+  +.+...+..++......|+.+.|..+|++
T Consensus       452 ~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lfer  529 (679)
T 4e6h_A          452 ASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFES  529 (679)
T ss_dssp             HHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            666666666543001112222222221112 234666666666666542  22334444555555566666666666666


Q ss_pred             C-CCCC----CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          493 M-PFEP----DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       493 ~-~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      . ...|    ....|...+..-.+.|+.+.+..+.+++.+..|+++
T Consensus       530 al~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          530 SIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            5 2122    223555555555566666666666666666666653

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.47  E-value=1.3e-10  Score=116.49  Aligned_cols=415  Identities=12%  Similarity=0.064  Sum_probs=275.3

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCC---HHHHHHHHHHhccCCCCCCCchhh
Q 036340           88 ARNVVSWNAMISGFLQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGE---LDEAARVLVKCGSRCDGGEDLVRA  161 (579)
Q Consensus        88 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~~~~~~~~~  161 (579)
                      +.|..+|..++..+.+.++++.+..+|+++..   .....|...+..-.+.|+   ++.+..+|++++...+ .+|+...
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~-~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKEL-GNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSS-CCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcC-CCCCHHH
Confidence            45778999999999999999999999999875   345678888888888899   9999999999998521 2488889


Q ss_pred             HHHHHHHHhhCCCH----HHHHHHHccccccCCCCCCCccC-Cc-chHHHHHHHHHHHh---------cCCHHHHHHHHH
Q 036340          162 YNTLIVGYGQRGRV----EEARKLFDKIPVNCDRGEGNVRF-KR-NIVSWNSMIMCYAK---------AGDVVSAREIFE  226 (579)
Q Consensus       162 ~~~l~~~~~~~g~~----~~A~~~~~~~~~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~---------~~~~~~A~~~~~  226 (579)
                      |..-+....+.++.    +++......+-...   ....|. .+ +...|...+.....         .++++.+..+|+
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErA---l~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~  218 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVV---VDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYK  218 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHH---HHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHH---HHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHH
Confidence            99988888887876    66777776665210   001244 44 45678888776542         345788999999


Q ss_pred             hcCCC---C-hhHHH---HHHHHHHh----------cCChHHHHHHhhcC-------CC--------------C--C---
Q 036340          227 QMLER---D-TFSWN---TMISGYIH----------VLDMEEASNLFVKM-------PH--------------P--D---  263 (579)
Q Consensus       227 ~~~~~---~-~~~~~---~l~~~~~~----------~~~~~~a~~~~~~~-------~~--------------~--~---  263 (579)
                      +++.-   + ...|.   .+-.....          ..+++.|...+.++       ..              |  +   
T Consensus       219 raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~  298 (679)
T 4e6h_A          219 TLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYD  298 (679)
T ss_dssp             HHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCC
T ss_pred             HHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhH
Confidence            98762   1 12332   22222100          11233344444331       11              1  0   


Q ss_pred             ---hhhHHHHHHHHHhcC-------CHHHHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHH-HHHHHHHHcCCCCC
Q 036340          264 ---TLTWNAMVSGYAQIG-------NLELALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAI-KLFIQMQVEGEKPD  329 (579)
Q Consensus       264 ---~~~~~~l~~~~~~~g-------~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~  329 (579)
                         ...|...+..-...+       ..+.+..+|++...   .+...|...+..+...|+.++|. .+|++.... ++.+
T Consensus       299 ~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s  377 (679)
T 4e6h_A          299 VQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNS  377 (679)
T ss_dssp             HHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTC
T ss_pred             HHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCC
Confidence               123444443322222       12334556766654   35667888888888889999997 999999864 2334


Q ss_pred             hhhHHHHHHhccCCCchhhHHHHHHH-Hhhc----------CCC-----------CchHHHHHHHHhhhcCCHHHHHHHH
Q 036340          330 RHTFSSILSMSSGIVDLHLGMQIHQM-VTKT----------VIP-----------DVPINNALITMYARCGAIVEARIIF  387 (579)
Q Consensus       330 ~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~----------~~~-----------~~~~~~~l~~~~~~~~~~~~A~~~~  387 (579)
                      ...+...+......|+++.|..+++. ....          .+.           ...+|...+....+.|+.+.|..+|
T Consensus       378 ~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf  457 (679)
T 4e6h_A          378 AVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIF  457 (679)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44556667777788999999999998 3321          221           2346888888888899999999999


Q ss_pred             HhccCC-C--CeeeHHHHHHHHHhc-CChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC
Q 036340          388 EEMKLL-K--NVVSWNAMIGGCASH-GFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGI  463 (579)
Q Consensus       388 ~~~~~~-~--~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  463 (579)
                      ...... |  ....|...+..-.+. ++.+.|..+|+...+. .+-+...+...+......|+.+.|..+|++.+... .
T Consensus       458 ~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~-~  535 (679)
T 4e6h_A          458 GKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI-S  535 (679)
T ss_dssp             HHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS-S
T ss_pred             HHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc-C
Confidence            987523 2  223343333333344 4589999999999875 23344455677777778899999999999998641 1


Q ss_pred             CC--CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 036340          464 EP--RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGAC  509 (579)
Q Consensus       464 ~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~  509 (579)
                      ++  ....|...+..-.+.|+.+.+.++.+++ ...|+......++.-|
T Consensus       536 ~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          536 DSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNKLEEFTNKY  584 (679)
T ss_dssp             STTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHh
Confidence            11  3457777777778899999999999988 3345544555555444

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.46  E-value=1.6e-13  Score=132.50  Aligned_cols=259  Identities=14%  Similarity=0.124  Sum_probs=192.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHhhcCC--CC-ch----hhHHHHHHHHHhcCChhhHHHHHccCCC---------CCcchH
Q 036340           62 TWNTVISGYAKTGEMEEALRLFNSMP--AR-NV----VSWNAMISGFLQNGDVANAIEFFDRMPG---------RDSASL  125 (579)
Q Consensus        62 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~---------~~~~~~  125 (579)
                      .+..+...+...|++++|+..|+++.  .| +.    .++..+...+...|++++|+..+++...         .....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            34566777888899999999988876  23 32    4677888888999999999988887643         123467


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccCCC---CCCCchhhHHHHHHHHhhCCC-----------------HHHHHHHHccc
Q 036340          126 SALVSGLIQNGELDEAARVLVKCGSRCD---GGEDLVRAYNTLIVGYGQRGR-----------------VEEARKLFDKI  185 (579)
Q Consensus       126 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~-----------------~~~A~~~~~~~  185 (579)
                      ..+...+...|++++|...++++.....   ..+....++..++..+...|+                 +++|.+.+++.
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  209 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQEN  209 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            7788889999999999999988765310   123445678899999999999                 99999998887


Q ss_pred             cccCCCCCCCccC-CcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----C----hhHHHHHHHHHHhcCChHHHHHH
Q 036340          186 PVNCDRGEGNVRF-KRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-----D----TFSWNTMISGYIHVLDMEEASNL  255 (579)
Q Consensus       186 ~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a~~~  255 (579)
                      .....    ..+- +....++..+..++...|++++|...+++.++.     +    ...+..+...+...|++++|...
T Consensus       210 l~~~~----~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          210 LKLMR----DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHH----HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHH----HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            52110    0011 223457888999999999999999999988552     2    23677888888999999999998


Q ss_pred             hhcCC-----CCC----hhhHHHHHHHHHhcCCHHHHHHHHccCCC-----CC----hhhHHHHHHHHHhCCCchHHHHH
Q 036340          256 FVKMP-----HPD----TLTWNAMVSGYAQIGNLELALDFFKRMPQ-----KN----LVSWNSMIAGCETNKDYEGAIKL  317 (579)
Q Consensus       256 ~~~~~-----~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~  317 (579)
                      +++..     ..+    ..++..+...+...|++++|...+++..+     .+    ..++..+...|...|++++|...
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  365 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKY  365 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            88776     111    45677788888888888888888887654     12    23667778888888888888888


Q ss_pred             HHHHHHc
Q 036340          318 FIQMQVE  324 (579)
Q Consensus       318 ~~~~~~~  324 (579)
                      |++..+.
T Consensus       366 ~~~al~~  372 (411)
T 4a1s_A          366 AEQHLQL  372 (411)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887654

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.45  E-value=1.7e-13  Score=139.13  Aligned_cols=162  Identities=17%  Similarity=0.262  Sum_probs=130.2

Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHH
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFAS  472 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~  472 (579)
                      +..+|+.+...+.+.|++++|++.|++.++  +.|+. .++..+..+|.+.|++++|+..|+++++.   .| +...+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~--l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            345677788888888888888888888875  35654 47788888888888888888888888753   45 4677888


Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCch
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWD  550 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  550 (579)
                      ++.+|...|++++|++.+++. ...| +...|..++.++...|++++|+..|+++++++|+++.++..|+.+|...|+++
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            888888888888888888876 4445 57788888888888999999999999999999998888999999999999999


Q ss_pred             HHHHHHHHHHh
Q 036340          551 DANEVRLLMKS  561 (579)
Q Consensus       551 ~A~~~~~~~~~  561 (579)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99888887653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.44  E-value=5e-13  Score=125.00  Aligned_cols=270  Identities=14%  Similarity=0.051  Sum_probs=164.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCC----hhhHHHHHHHHHhcCC
Q 036340          204 SWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPD----TLTWNAMVSGYAQIGN  279 (579)
Q Consensus       204 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~g~  279 (579)
                      .+......+...|++++|...|+++++.++                            .+    ...+..+...+...|+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~----------------------------~~~~~~~~~~~~l~~~~~~~g~   58 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGT----------------------------EDLKTLSAIYSQLGNAYFYLHD   58 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC----------------------------SCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCc----------------------------ccHHHHHHHHHHHHHHHHHcCC
Confidence            444555666666777777666666543211                            11    1234445555555555


Q ss_pred             HHHHHHHHccCCC-----C----ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCC-CChhhHHHHHHhccCCCchhhH
Q 036340          280 LELALDFFKRMPQ-----K----NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEK-PDRHTFSSILSMSSGIVDLHLG  349 (579)
Q Consensus       280 ~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a  349 (579)
                      +++|...+++..+     +    ....+..+...+...|++++|...+++..+.... ++...                 
T Consensus        59 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-----------------  121 (338)
T 3ro2_A           59 YAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVG-----------------  121 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-----------------
T ss_pred             HHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchH-----------------
Confidence            5555555554332     1    1335666777777888888888887776542111 11100                 


Q ss_pred             HHHHHHHhhcCCCCchHHHHHHHHhhhcCC--------------------HHHHHHHHHhcc-------CCC-CeeeHHH
Q 036340          350 MQIHQMVTKTVIPDVPINNALITMYARCGA--------------------IVEARIIFEEMK-------LLK-NVVSWNA  401 (579)
Q Consensus       350 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------------~~~A~~~~~~~~-------~~~-~~~~~~~  401 (579)
                                   ...++..+...+...|+                    +++|...+++..       ..+ ....+..
T Consensus       122 -------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (338)
T 3ro2_A          122 -------------EARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGN  188 (338)
T ss_dssp             -------------HHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -------------HHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence                         01123344455555555                    566665555432       011 1235677


Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCC----CCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHH
Q 036340          402 MIGGCASHGFATEALELFKSMRSFK----VLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFAS  472 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~  472 (579)
                      +...+...|++++|+..+++..+..    ..+. ..++..+...+...|++++|...+++.+....-.++    ..++..
T Consensus       189 l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  268 (338)
T 3ro2_A          189 LGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYS  268 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHH
Confidence            7778888888888888888876421    1111 226777778888899999999988887653211111    456778


Q ss_pred             HHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM-------PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ++.++...|++++|...+++.       +..+ ...++..+...+...|++++|...+++++++.+.
T Consensus       269 la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          269 LGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            888899999999999988876       1111 2446777888899999999999999999987765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.43  E-value=7.6e-13  Score=126.22  Aligned_cols=163  Identities=11%  Similarity=0.051  Sum_probs=92.2

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhcc----CCCC----eeeHHHHHHHHHhcCChHHHHHHHHHhHhC----CCCCC-hh
Q 036340          366 INNALITMYARCGAIVEARIIFEEMK----LLKN----VVSWNAMIGGCASHGFATEALELFKSMRSF----KVLPT-YI  432 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~p~-~~  432 (579)
                      ++..+...|...|++++|...|++..    ..++    ..++..++.+|...|++++|+..+++..+.    +..|+ ..
T Consensus       186 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  265 (383)
T 3ulq_A          186 CHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQ  265 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHH
Confidence            44556666666777777766666542    1111    124666666777777777777777666541    22133 23


Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCC---CCCcchhHHHHHHhhccCC---hHHHHHHHHhCCCCCC-HHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGI---EPRIEHFASLVDIVGRHGR---LEDAMDLIKGMPFEPD-KAVWGAL  505 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l  505 (579)
                      ++..+...+...|++++|...+++.+.-..-   +.....+..+...+...|+   +++|+.++++.+..|+ ...+..+
T Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~l  345 (383)
T 3ulq_A          266 AYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            5666666777777777777777666542111   1111223456666666666   6666666666643332 2344555


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhc
Q 036340          506 LGACRVHNNVELAQVAAEALMKV  528 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~  528 (579)
                      +..+...|++++|...+++++++
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHH
Confidence            56666666666666666666543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.41  E-value=2.3e-12  Score=122.96  Aligned_cols=220  Identities=12%  Similarity=0.038  Sum_probs=138.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCC-----C----hhHHHHHHHHHHhcCChHHHHHHhhcCC-----CCC-----hhhHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLER-----D----TFSWNTMISGYIHVLDMEEASNLFVKMP-----HPD-----TLTWN  268 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~~-----~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~-----~~~~~  268 (579)
                      ....+...|++++|...|++.++.     +    ..++..+...+...|++++|+..+++..     .++     ..++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            666778889999999999887552     2    2456667777777777777777776654     111     13455


Q ss_pred             HHHHHHHhcCCHHHHHHHHccCCC-----CCh----hhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHh
Q 036340          269 AMVSGYAQIGNLELALDFFKRMPQ-----KNL----VSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSM  339 (579)
Q Consensus       269 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  339 (579)
                      .++.+|...|++++|...|++..+     ++.    .++..+..+|...|++++|+..+++..+...             
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~-------------  255 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFE-------------  255 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH-------------
Confidence            556666666666666666655442     111    2455555566666666666666655543100             


Q ss_pred             ccCCCchhhHHHHHHHHhhcC-CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----C--CCC-eeeHHHHHHHHHhcCC
Q 036340          340 SSGIVDLHLGMQIHQMVTKTV-IPDVPINNALITMYARCGAIVEARIIFEEMK----L--LKN-VVSWNAMIGGCASHGF  411 (579)
Q Consensus       340 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~--~~~-~~~~~~l~~~~~~~~~  411 (579)
                                       ..+. +....++..++..|...|++++|...+++..    .  .|. ...+..+...+...|+
T Consensus       256 -----------------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~  318 (383)
T 3ulq_A          256 -----------------ESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPD  318 (383)
T ss_dssp             -----------------HTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCC
T ss_pred             -----------------hhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCc
Confidence                             0011 2234455667777888888888887777653    0  111 1225667777777888


Q ss_pred             ---hHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          412 ---ATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       412 ---~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                         .++|+.++++.   +..|+. ..+..+...|...|++++|...+++...-
T Consensus       319 ~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          319 EEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence               77777777766   333433 36777888889999999999998887653

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.41  E-value=1.2e-12  Score=110.66  Aligned_cols=161  Identities=12%  Similarity=0.021  Sum_probs=87.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR  479 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  479 (579)
                      ..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++++.+.  .+.+...+..++..+..
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~   88 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHH
Confidence            334444445555555555555544321 112334444555555555555555555555432  12234444555555555


Q ss_pred             cCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHH
Q 036340          480 HGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRL  557 (579)
Q Consensus       480 ~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  557 (579)
                      .|++++|...++++ . .+.+...+..++..+...|++++|...++++++..|.++.++..++.++...|++++|...++
T Consensus        89 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  168 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFK  168 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55555555555554 1 223455556666666666666666666666666666666666666666666666666666666


Q ss_pred             HHHhCC
Q 036340          558 LMKSNN  563 (579)
Q Consensus       558 ~~~~~~  563 (579)
                      ++.+..
T Consensus       169 ~~~~~~  174 (186)
T 3as5_A          169 KANELD  174 (186)
T ss_dssp             HHHHHH
T ss_pred             HHHHcC
Confidence            665443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.40  E-value=8.9e-12  Score=114.64  Aligned_cols=220  Identities=8%  Similarity=0.006  Sum_probs=157.8

Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHHhcc-------CCCch-------hhHHHHHHHHhh-cCCCCchHHHHHHHHhhh
Q 036340          312 EGAIKLFIQMQVEGEKPDRHTFSSILSMSS-------GIVDL-------HLGMQIHQMVTK-TVIPDVPINNALITMYAR  376 (579)
Q Consensus       312 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~-~~~~~~~~~~~l~~~~~~  376 (579)
                      ++|...|++.+... +.+...|......+.       ..|+.       +.|..+++.... -.+.+...+..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888898888753 234556666665553       34665       788888888555 345566788888888888


Q ss_pred             cCCHHHHHHHHHhcc-CCCC-ee-eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHh-cccCcHHHHHH
Q 036340          377 CGAIVEARIIFEEMK-LLKN-VV-SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC-AHAGLVEEGRQ  452 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~~-~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~~~~~~a~~  452 (579)
                      .|++++|..+|++.. ..|+ .. .|..++..+.+.|++++|..+|++..+.. +++...|...+... ...|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            888888888888764 3443 33 68888888888888888888888888643 22333444333322 23688888888


Q ss_pred             HHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C---CCC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          453 HFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P---FEP--DKAVWGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      +|+++++..  +.+...+..++..+.+.|++++|..+|+++ .   .+|  ....|..++......|+.+.|..+++++.
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888887652  235677788888888888888888888877 2   244  35577888888888888888888888888


Q ss_pred             hcCCCCCCC
Q 036340          527 KVEPENSTP  535 (579)
Q Consensus       527 ~~~p~~~~~  535 (579)
                      +..|+++..
T Consensus       269 ~~~p~~~~~  277 (308)
T 2ond_A          269 TAFREEYEG  277 (308)
T ss_dssp             HHTTTTTSS
T ss_pred             HHccccccc
Confidence            888886643

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=9.5e-11  Score=107.72  Aligned_cols=213  Identities=13%  Similarity=0.047  Sum_probs=133.5

Q ss_pred             hhHHHHHHHHhhcCCCCchHHHHHHHHhhh-------cCCH-------HHHHHHHHhcc--CCCC-eeeHHHHHHHHHhc
Q 036340          347 HLGMQIHQMVTKTVIPDVPINNALITMYAR-------CGAI-------VEARIIFEEMK--LLKN-VVSWNAMIGGCASH  409 (579)
Q Consensus       347 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~A~~~~~~~~--~~~~-~~~~~~l~~~~~~~  409 (579)
                      +.|...++......|.++.+|..++..+..       .|++       ++|..+|++..  ..|+ ...|..++..+.+.
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            455556666444556666667666666542       3664       67777777654  2343 34677777777777


Q ss_pred             CChHHHHHHHHHhHhCCCCCCh-h-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhh-ccCChHH
Q 036340          410 GFATEALELFKSMRSFKVLPTY-I-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVG-RHGRLED  485 (579)
Q Consensus       410 ~~~~~A~~~~~~~~~~~~~p~~-~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~-~~g~~~~  485 (579)
                      |++++|..+|+++.+  +.|+. . .|..++..+.+.|++++|..+|+++++.   .| +...|...+.... ..|++++
T Consensus       113 ~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          113 MKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS---TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             CCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            777777777777774  34543 2 5666666777777777777777777642   23 3344433333221 2577777


Q ss_pred             HHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhc---CCC-CCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          486 AMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKV---EPE-NSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       486 A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      |..+|+++ .. +.+...|..++..+...|++++|..+|+++++.   .|+ ....|..++..+...|++++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777766 22 225667777777777777777777777777764   332 3445666677777777777777777777


Q ss_pred             HhCCC
Q 036340          560 KSNNI  564 (579)
Q Consensus       560 ~~~~~  564 (579)
                      .+..+
T Consensus       268 ~~~~p  272 (308)
T 2ond_A          268 FTAFR  272 (308)
T ss_dssp             HHHTT
T ss_pred             HHHcc
Confidence            65544

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.38  E-value=5.2e-12  Score=110.67  Aligned_cols=200  Identities=10%  Similarity=0.036  Sum_probs=86.3

Q ss_pred             hhHHHHHHhccCCCchhhHHHHHHHHhhcCC-CCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHH
Q 036340          331 HTFSSILSMSSGIVDLHLGMQIHQMVTKTVI-PDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCA  407 (579)
Q Consensus       331 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~  407 (579)
                      ..+......+...|+++.|...++......+ ++...+..+..++...|++++|...|++.. ..| +...|..+..++.
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   87 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAYR   87 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHHH
Confidence            3444444444455555555555554222222 344444444445555555555555544432 122 2334444444455


Q ss_pred             hcCChHHHHHHHHHhHhCCCCCC-h-------hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC---cchhHHHHHH
Q 036340          408 SHGFATEALELFKSMRSFKVLPT-Y-------ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR---IEHFASLVDI  476 (579)
Q Consensus       408 ~~~~~~~A~~~~~~~~~~~~~p~-~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~  476 (579)
                      ..|++++|+..+++..+.  .|+ .       ..|..+...+...|++++|+..|+++++   ..|+   ...+..++.+
T Consensus        88 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           88 DMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHHHH
Confidence            555555555555544432  222 1       1233344444444555555555544442   2232   2334444444


Q ss_pred             hhccCCh--HHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          477 VGRHGRL--EDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       477 ~~~~g~~--~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      |...|+.  ++|..+    . ..+...+....  ....+.+++|+..++++++++|+++.+...+..+
T Consensus       163 ~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i  223 (228)
T 4i17_A          163 FYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Confidence            4333322  111110    0 11122222111  1223344777777777777777776555544433

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.38  E-value=1.6e-12  Score=126.95  Aligned_cols=203  Identities=14%  Similarity=-0.002  Sum_probs=164.9

Q ss_pred             hHHHHHHHhhCC---CCCcchHHHHHHHHHccCCH-HHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccC
Q 036340           45 LEEARYLFDIMP---ERDCVTWNTVISGYAKTGEM-EEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRM  117 (579)
Q Consensus        45 ~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  117 (579)
                      +++++..+++..   +.+...+..+...+...|++ ++|+..|++..   +.+..+|..+..+|...|++++|++.|++.
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555666665544   34667889999999999999 99999999887   445779999999999999999999999997


Q ss_pred             CC--CCcchHHHHHHHHHhC---------CCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhC--------CCHHHH
Q 036340          118 PG--RDSASLSALVSGLIQN---------GELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQR--------GRVEEA  178 (579)
Q Consensus       118 ~~--~~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A  178 (579)
                      .+  |+...+..+...+...         |++++|+..++++++   ..|.+..+|..++.++...        |++++|
T Consensus       164 l~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          164 LTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ---MDVLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            65  5567788888999999         999999999999998   4567788999999999998        999999


Q ss_pred             HHHHccccccCCCCCCCccCC---cchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHHhcCChHHH
Q 036340          179 RKLFDKIPVNCDRGEGNVRFK---RNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYIHVLDMEEA  252 (579)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a  252 (579)
                      ++.|+++...        . +   .+...|..+..++...|++++|.+.|++.++.   +...+..+..++...|++++|
T Consensus       241 ~~~~~~al~~--------~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eA  311 (474)
T 4abn_A          241 LSAYAQAEKV--------D-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSL  311 (474)
T ss_dssp             HHHHHHHHHH--------C-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--------C-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999721        1 2   47888999999999999999999999988552   344556666666666666666


Q ss_pred             HHHhhcC
Q 036340          253 SNLFVKM  259 (579)
Q Consensus       253 ~~~~~~~  259 (579)
                      +..+.++
T Consensus       312 i~~~~~~  318 (474)
T 4abn_A          312 LESKGKT  318 (474)
T ss_dssp             HHHTTTC
T ss_pred             HHHhccc
Confidence            6655544

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.37  E-value=2.8e-12  Score=112.39  Aligned_cols=192  Identities=10%  Similarity=-0.073  Sum_probs=115.1

Q ss_pred             CCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CC-CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHH
Q 036340          362 PDVPINNALITMYARCGAIVEARIIFEEMK--LL-KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISV  437 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l  437 (579)
                      .++..+...+..+...|++++|...|++..  .+ ++...+..+..++...|++++|+..+++..+  ..|+.. .+..+
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l   82 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK--KNYNLANAYIGK   82 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCSHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH--hCcchHHHHHHH
Confidence            345566666777777777777777776653  22 4555555566667777777777777777664  345433 66666


Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCC-Cc-------chhHHHHHHhhccCChHHHHHHHHhC-CCCCC---HHHHHHH
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEP-RI-------EHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD---KAVWGAL  505 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~---~~~~~~l  505 (579)
                      ..++...|++++|...+++.++.   .| +.       ..+..++.++...|++++|+..++++ ...|+   ...+..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKA---VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHH
Confidence            66777777777777777766643   23 22       34555666666666666666666665 34443   3455555


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          506 LGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      ..++...     +...++++..+.+.++..+  ........+.+++|...+++..+..+.
T Consensus       160 ~~~~~~~-----~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~A~~~~~~a~~l~p~  212 (228)
T 4i17_A          160 GVLFYNN-----GADVLRKATPLASSNKEKY--ASEKAKADAAFKKAVDYLGEAVTLSPN  212 (228)
T ss_dssp             HHHHHHH-----HHHHHHHHGGGTTTCHHHH--HHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHH-----HHHHHHHHHhcccCCHHHH--HHHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence            5555332     3344455555555443222  223344455669999999999876643

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.37  E-value=1.1e-12  Score=121.19  Aligned_cols=232  Identities=15%  Similarity=0.150  Sum_probs=141.5

Q ss_pred             hhhHHHHHHhccCCCchhhHHHHHHHHhh--------cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C--------
Q 036340          330 RHTFSSILSMSSGIVDLHLGMQIHQMVTK--------TVIPDVPINNALITMYARCGAIVEARIIFEEMK-L--------  392 (579)
Q Consensus       330 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~--------  392 (579)
                      ..++..+...+...|+++.|..+++....        ..+....++..+...|...|++++|...+++.. .        
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            34555666677777888888877776222        233345566777777777888888777777653 1        


Q ss_pred             CC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhC------CCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhh---
Q 036340          393 LK-NVVSWNAMIGGCASHGFATEALELFKSMRSF------KVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEY---  461 (579)
Q Consensus       393 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  461 (579)
                      .| ....+..+...+...|++++|+..++++.+.      +..|.. .++..+...+...|++++|..++++++...   
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            11 2345667777777778888888887777653      222322 356667777777788888888777775431   


Q ss_pred             --CCCC-CcchhHHHHHHhhccCChHHHHHHHHhCC----------CCCC-HHHH------HHHHHHHhhcCCHHHHHHH
Q 036340          462 --GIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMP----------FEPD-KAVW------GALLGACRVHNNVELAQVA  521 (579)
Q Consensus       462 --~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~-~~~~------~~l~~~~~~~~~~~~A~~~  521 (579)
                        +..| ....+..++.++...|++++|...++++-          ..+. ...+      ......+...+.+.++...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              1122 24456677777777888888777776651          1111 1111      1122223344555666666


Q ss_pred             HHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          522 AEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       522 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ++++....|..+.++..++.+|...|++++|.+++++..+
T Consensus       267 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          267 YKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777667788888899999999999999999999998865

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.34  E-value=1.4e-12  Score=120.52  Aligned_cols=241  Identities=16%  Similarity=0.148  Sum_probs=146.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHccCCC--------CC---hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhh
Q 036340          264 TLTWNAMVSGYAQIGNLELALDFFKRMPQ--------KN---LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHT  332 (579)
Q Consensus       264 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  332 (579)
                      ..++..++..+...|++++|..+|+++.+        .+   ...+..+...|...|++++|...+++........    
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~----  102 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT----  102 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH----
Confidence            34566666777777777777777766543        11   2345566666667777777777766654321000    


Q ss_pred             HHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C------C--C-CeeeHHHH
Q 036340          333 FSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L------L--K-NVVSWNAM  402 (579)
Q Consensus       333 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~------~--~-~~~~~~~l  402 (579)
                                             .....+....++..+...|...|++++|...+++.. .      .  | ....+..+
T Consensus       103 -----------------------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  159 (311)
T 3nf1_A          103 -----------------------LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNL  159 (311)
T ss_dssp             -----------------------HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             -----------------------hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence                                   000011223455667777777888888877777653 1      1  1 23457778


Q ss_pred             HHHHHhcCChHHHHHHHHHhHhC------CCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHhh------CCCCC-cc
Q 036340          403 IGGCASHGFATEALELFKSMRSF------KVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNEY------GIEPR-IE  468 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~------~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~-~~  468 (579)
                      ...+...|++++|+++++++.+.      +..|.. .++..+...+...|++++|...+++++...      ...+. ..
T Consensus       160 a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  239 (311)
T 3nf1_A          160 ALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKP  239 (311)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHH
Confidence            88888899999999999888754      223433 367788888999999999999998887531      11222 22


Q ss_pred             hhH------HHHHHhhccCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          469 HFA------SLVDIVGRHGRLEDAMDLIKGMP-FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       469 ~~~------~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      .+.      .+...+...+.+.+|...++... ..| +..++..++.++...|++++|...+++++++.|.
T Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          240 IWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            222      22223344555666666666653 334 5567888999999999999999999999988775

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.34  E-value=2e-10  Score=109.01  Aligned_cols=287  Identities=10%  Similarity=-0.016  Sum_probs=160.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHccCCC----CChh----hHHHHHHHHHhCCCchHHHHHHHHHHHcCCC-CCh----hhH
Q 036340          267 WNAMVSGYAQIGNLELALDFFKRMPQ----KNLV----SWNSMIAGCETNKDYEGAIKLFIQMQVEGEK-PDR----HTF  333 (579)
Q Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~  333 (579)
                      .......+...|++++|...+++...    .+..    .++.+...+...|++++|...+++....... ++.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            34445566778888888888776432    2221    4556667777888888888888887653211 111    123


Q ss_pred             HHHHHhccCCCchhhHHHHHHH-Hhh----cCC--C-CchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC------Ceee
Q 036340          334 SSILSMSSGIVDLHLGMQIHQM-VTK----TVI--P-DVPINNALITMYARCGAIVEARIIFEEMK-LLK------NVVS  398 (579)
Q Consensus       334 ~~l~~~~~~~~~~~~a~~~~~~-~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~------~~~~  398 (579)
                      ..+...+...|+++.|...++. ...    +.+  | ....+..+...+...|++++|...+++.. ..+      ....
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            4445566677777777777665 211    111  1 22344556666777777777777776542 111      1123


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHH-----HHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-----c
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFI-----SVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-----I  467 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~  467 (579)
                      +..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...++.....   .|.     .
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~  253 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKP---EFANNHFLQ  253 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCC---CCTTCGGGH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCC---CCCcchhhH
Confidence            555666667777777777777766543212111 1111     1222355677777777777666532   121     1


Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-------CCCCCH-HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-------PFEPDK-AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      ..+..++.++...|++++|...+++.       +..++. ..+..+..++...|+.++|...+++++...+..     ..
T Consensus       254 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~~-----g~  328 (373)
T 1hz4_A          254 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRT-----GF  328 (373)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH-----CC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhccc-----cH
Confidence            13345666677777777777776654       111111 244445566666777777777777777766652     22


Q ss_pred             hhhhhhcCCchHHHHHHHHHHhCC
Q 036340          540 YNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       540 ~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ...+...|  +....+++.+....
T Consensus       329 ~~~~~~~g--~~~~~ll~~~~~~~  350 (373)
T 1hz4_A          329 ISHFVIEG--EAMAQQLRQLIQLN  350 (373)
T ss_dssp             CHHHHTTH--HHHHHHHHHHHHTT
T ss_pred             HHHHHHcc--HHHHHHHHHHHhCC
Confidence            33444445  45566666665444

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.33  E-value=9.1e-11  Score=111.51  Aligned_cols=301  Identities=11%  Similarity=0.028  Sum_probs=173.9

Q ss_pred             CCcchHHHHHHHHHH--HhcCCHHHHHHHHHhcCC------CC--hhHHHHHHHH--HHhcCChHHHH---------HHh
Q 036340          198 FKRNIVSWNSMIMCY--AKAGDVVSAREIFEQMLE------RD--TFSWNTMISG--YIHVLDMEEAS---------NLF  256 (579)
Q Consensus       198 ~~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~------~~--~~~~~~l~~~--~~~~~~~~~a~---------~~~  256 (579)
                      +.|+..+-+.+-..|  .+.+++++|..+++++.+      .|  ...|..++..  ....+..+...         ..+
T Consensus         6 ~~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l   85 (378)
T 3q15_A            6 AIPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELL   85 (378)
T ss_dssp             CBCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHH
Confidence            356666666666666  789999999999987632      22  2223333321  11111111111         222


Q ss_pred             hcCC---CC-Ch----hhHHHHHHHHHhcCCHHHHHHHHccCCC-----CC----hhhHHHHHHHHHhCCCchHHHHHHH
Q 036340          257 VKMP---HP-DT----LTWNAMVSGYAQIGNLELALDFFKRMPQ-----KN----LVSWNSMIAGCETNKDYEGAIKLFI  319 (579)
Q Consensus       257 ~~~~---~~-~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~  319 (579)
                      +.+.   .+ +.    ..+...+..+...|++++|...|++..+     ++    ..++..+...|...|+++.|+..++
T Consensus        86 ~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~  165 (378)
T 3q15_A           86 ETIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHIL  165 (378)
T ss_dssp             HHHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            2221   11 00    0122233445556666666666655443     11    2245555566666666666666666


Q ss_pred             HHHHcCCC-CChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc----CCC
Q 036340          320 QMQVEGEK-PDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK----LLK  394 (579)
Q Consensus       320 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~  394 (579)
                      +..+.... ++..                             +....++..++..|...|++++|...|.+..    ..+
T Consensus       166 ~al~~~~~~~~~~-----------------------------~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~  216 (378)
T 3q15_A          166 QALDIYQNHPLYS-----------------------------IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQ  216 (378)
T ss_dssp             HHHHHHHTSTTCH-----------------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCch-----------------------------hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcC
Confidence            55432100 0000                             0012345667788888888888888877653    111


Q ss_pred             C----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCC---CCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC
Q 036340          395 N----VVSWNAMIGGCASHGFATEALELFKSMRSFK---VLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR  466 (579)
Q Consensus       395 ~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  466 (579)
                      +    ..++..+..+|...|++++|++.+++..+..   ..|. ..++..+...+...|++++|...+++.+....-.++
T Consensus       217 ~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  296 (378)
T 3q15_A          217 NDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSH  296 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCC
T ss_pred             CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCC
Confidence            1    2356778888888888888888888877510   1232 447777888888889999999888888764222122


Q ss_pred             ---cchhHHHHHHhhccCC---hHHHHHHHHhCCCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          467 ---IEHFASLVDIVGRHGR---LEDAMDLIKGMPFEPD-KAVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       467 ---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                         ...+..+...+...|+   +.+|+.++++....|+ ...+..++..+...|++++|...|+++++
T Consensus       297 ~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          297 KFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             SCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               2334556666777777   7788888877654333 33555666777778888888888877764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.33  E-value=3.2e-11  Score=101.65  Aligned_cols=169  Identities=11%  Similarity=-0.034  Sum_probs=142.3

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhc
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACA  442 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  442 (579)
                      ..+..++..+...|++++|...++++.  .+.+...+..++..+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            455677888999999999999999875  23356678889999999999999999999998642 334568888889999


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQV  520 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~  520 (579)
                      ..|++++|.+.++++...  .+.+...+..++.++...|++++|...++++ . .+.+...+..++..+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999864  2346778888999999999999999999987 2 23467889999999999999999999


Q ss_pred             HHHHHhhcCCCCCCCc
Q 036340          521 AAEALMKVEPENSTPY  536 (579)
Q Consensus       521 ~~~~~~~~~p~~~~~~  536 (579)
                      .++++++..|+++...
T Consensus       166 ~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          166 HFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHcCCCchhhH
Confidence            9999999999876543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.31  E-value=7.3e-12  Score=119.09  Aligned_cols=196  Identities=9%  Similarity=0.016  Sum_probs=146.2

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc----CCCC-----eeeHHHHHHHHHhcCChHHHHHHHHHhHhC----CCCCC-
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK----LLKN-----VVSWNAMIGGCASHGFATEALELFKSMRSF----KVLPT-  430 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~p~-  430 (579)
                      .++..++..|...|+++.|...+.+..    ..++     ..+++.+..+|...|++++|++.+++..+.    +..+. 
T Consensus       142 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~  221 (378)
T 3q15_A          142 EFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFI  221 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            456778888889999999888887653    1122     346788999999999999999999987753    11111 


Q ss_pred             hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhC--CCC-CcchhHHHHHHhhccCChHHHHHHHHhC----CC--CCC-HH
Q 036340          431 YITFISVLSACAHAGLVEEGRQHFKSMVNEYG--IEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM----PF--EPD-KA  500 (579)
Q Consensus       431 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~--~~~-~~  500 (579)
                      ..++..+..+|...|++++|...+++.+.-..  ..| ...++..++.++.+.|++++|...+++.    ..  .|. ..
T Consensus       222 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  301 (378)
T 3q15_A          222 AISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKE  301 (378)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            23677888899999999999999998876211  123 3667888999999999999999999876    11  222 33


Q ss_pred             HHHHHHHHHhhcCC---HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          501 VWGALLGACRVHNN---VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       501 ~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      .+..+...+...++   +.+|+..+++. ...|.....+..++.+|...|++++|..++++..+
T Consensus       302 ~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          302 LFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            45555566777788   78888887763 22333345677899999999999999999998753

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.25  E-value=1.3e-11  Score=125.31  Aligned_cols=166  Identities=14%  Similarity=0.169  Sum_probs=144.1

Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISV  437 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l  437 (579)
                      |.+...++.+...|.+.|++++|++.|++.. ..| +..+|..+..+|.+.|++++|+..|++.++  +.|+. ..|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            3456788999999999999999999999874 344 567899999999999999999999999986  46764 489999


Q ss_pred             HHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCC
Q 036340          438 LSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNN  514 (579)
Q Consensus       438 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~  514 (579)
                      ..++...|++++|++.|+++++.   .| +...+..++.+|...|++++|+..|+++ ...| +...+..++.++...|+
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhccc
Confidence            99999999999999999999854   55 5788999999999999999999999987 4455 67799999999999999


Q ss_pred             HHHHHHHHHHHhhcCCC
Q 036340          515 VELAQVAAEALMKVEPE  531 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~  531 (579)
                      +++|.+.+++++++.|+
T Consensus       161 ~~~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          161 WTDYDERMKKLVSIVAD  177 (723)
T ss_dssp             CTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChh
Confidence            99999999999876543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.24  E-value=2.5e-12  Score=103.84  Aligned_cols=142  Identities=9%  Similarity=-0.019  Sum_probs=97.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhc
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGR  479 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~  479 (579)
                      |+..+...|++++|+..++....  ..|+.. .+..+...|...|++++|++.|+++++.   .| +...+..++.+|.+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~   77 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYEL   77 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHH
Confidence            34445556777777777777663  344433 5666777777788888888888777643   44 56677777777888


Q ss_pred             cCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHH-HHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          480 HGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVA-AEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       480 ~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      .|++++|+..|++. ...| ++..+..++..+.+.|++++|... ++++++++|+++.++.....++...|+
T Consensus        78 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           78 EENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             cCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888888777776 3444 566777777778788877665544 578888888888777777777777664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.23  E-value=2.8e-10  Score=108.04  Aligned_cols=289  Identities=11%  Similarity=0.020  Sum_probs=184.1

Q ss_pred             HHHHHHHHhcCChHHHHHHhhcCC---CCC-h----hhHHHHHHHHHhcCCHHHHHHHHccCCC-----CCh----hhHH
Q 036340          237 NTMISGYIHVLDMEEASNLFVKMP---HPD-T----LTWNAMVSGYAQIGNLELALDFFKRMPQ-----KNL----VSWN  299 (579)
Q Consensus       237 ~~l~~~~~~~~~~~~a~~~~~~~~---~~~-~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~  299 (579)
                      ......+...|++++|...+++..   +++ .    .++..+...+...|++++|...+++...     .+.    .++.
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344556677889999988887754   222 2    1456667778888999998888887654     222    2356


Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHc----CCC--CC-hhhHHHHHHhccCCCchhhHHHHHHH-HhhcCC--C--CchHH
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVE----GEK--PD-RHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVI--P--DVPIN  367 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~--~--~~~~~  367 (579)
                      .+...+...|++++|...+++....    +..  |. ...+..+...+...|+++.|...++. ......  +  ....+
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            6777888889999999988887643    221  22 23445566677888999999888887 322111  1  23456


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc---CCCCe-eeHHH-----HHHHHHhcCChHHHHHHHHHhHhCCCCCC---hhhHH
Q 036340          368 NALITMYARCGAIVEARIIFEEMK---LLKNV-VSWNA-----MIGGCASHGFATEALELFKSMRSFKVLPT---YITFI  435 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~-~~~~~-----l~~~~~~~~~~~~A~~~~~~~~~~~~~p~---~~~~~  435 (579)
                      ..+...+...|++++|...+++..   ..++. ..+..     .+..+...|++++|...+++.......+.   ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            677888888899999988888763   12221 12222     23346688999999999888775332211   12456


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhHHhh---CCCCCc-chhHHHHHHhhccCChHHHHHHHHhCC-CCCCHHHHHHHHHHHh
Q 036340          436 SVLSACAHAGLVEEGRQHFKSMVNEY---GIEPRI-EHFASLVDIVGRHGRLEDAMDLIKGMP-FEPDKAVWGALLGACR  510 (579)
Q Consensus       436 ~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~  510 (579)
                      .+...+...|++++|...++.+....   +..++. ..+..++.++...|+.++|...+++.- ..+.    ......+.
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~----~g~~~~~~  333 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR----TGFISHFV  333 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH----HCCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc----ccHHHHHH
Confidence            66778888899999998888775432   111122 356667788888899999988887651 1000    00112233


Q ss_pred             hcCCHHHHHHHHHHHhhcCCC
Q 036340          511 VHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ..|  +....+++++....|.
T Consensus       334 ~~g--~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          334 IEG--EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             TTH--HHHHHHHHHHHHTTCS
T ss_pred             Hcc--HHHHHHHHHHHhCCCC
Confidence            333  5666777777777765

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.19  E-value=5.1e-11  Score=108.14  Aligned_cols=221  Identities=17%  Similarity=0.162  Sum_probs=151.5

Q ss_pred             cCCCchhhHHHHHHH-Hh---h----cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C--------CC-CeeeHHHH
Q 036340          341 SGIVDLHLGMQIHQM-VT---K----TVIPDVPINNALITMYARCGAIVEARIIFEEMK-L--------LK-NVVSWNAM  402 (579)
Q Consensus       341 ~~~~~~~~a~~~~~~-~~---~----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~--------~~-~~~~~~~l  402 (579)
                      ...|+++.|..+++. ..   .    ..+....++..+...|...|++++|...+++.. .        .| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            456788888887776 22   1    223356678889999999999999999998764 1        11 24468888


Q ss_pred             HHHHHhcCChHHHHHHHHHhHhC------CCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhh-----CCCC-Ccch
Q 036340          403 IGGCASHGFATEALELFKSMRSF------KVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEY-----GIEP-RIEH  469 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~-~~~~  469 (579)
                      ...+...|++++|+..+++....      .-.|+ ..++..+...+...|++++|..+++++++..     +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            89999999999999999998754      11233 3478888889999999999999999887541     1122 3567


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhCC----------CCC-CHHHHHHHHHHHhhcC------CHHHHHHHHHHHhhcCCCC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGMP----------FEP-DKAVWGALLGACRVHN------NVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~-~~~~~~~l~~~~~~~~------~~~~A~~~~~~~~~~~p~~  532 (579)
                      +..++.++...|++++|...++++-          ..+ ....+..+.......+      .+..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            7888999999999999999987761          122 2233444333333222      2334444444433444555


Q ss_pred             CCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          533 STPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       533 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      +.++..++.+|...|++++|..++++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66789999999999999999999998865

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.19  E-value=3.4e-10  Score=98.65  Aligned_cols=186  Identities=12%  Similarity=0.003  Sum_probs=123.2

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCe----eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh----h
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK-LLKNV----VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI----T  433 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~----~  433 (579)
                      ++..+..++..+...|++++|...|+++. ..|+.    ..+..++.++.+.|++++|+..|+++.+.  .|+..    .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHH
Confidence            34455667777888888888888888764 23332    35677778888888888888888888754  34332    3


Q ss_pred             HHHHHHHhcc------------------cCcHHHHHHHHHHhHHhhCCCCCc-chhHHHHHHhhccCChHHHHHHHHhCC
Q 036340          434 FISVLSACAH------------------AGLVEEGRQHFKSMVNEYGIEPRI-EHFASLVDIVGRHGRLEDAMDLIKGMP  494 (579)
Q Consensus       434 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  494 (579)
                      +..+..++..                  .|++++|...|+++++.   .|+. ..........    ......       
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~----~~~~~~-------  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLV----FLKDRL-------  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHH----HHHHHH-------
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHH----HHHHHH-------
Confidence            4444444443                  45666666666666643   3322 2211111000    000000       


Q ss_pred             CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC---CCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCC
Q 036340          495 FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS---TPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPT  568 (579)
Q Consensus       495 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  568 (579)
                          ......++..+.+.|++++|+..|+++++..|+++   .++..++.+|.+.|++++|.+.++.+...+...+.
T Consensus       147 ----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          147 ----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             ----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             ----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence                01123456778899999999999999999999976   56889999999999999999999999887765443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.18  E-value=2.5e-10  Score=102.21  Aligned_cols=100  Identities=6%  Similarity=-0.101  Sum_probs=71.8

Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC-CCC-hhh
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK-LLKN----VVSWNAMIGGCASHGFATEALELFKSMRSFKV-LPT-YIT  433 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~-~~~  433 (579)
                      +.++..+..++..+.+.|++++|...|+++. ..|+    ...+..+..++.+.|++++|+..|++..+... .|. ...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            4456677777888888888888888888774 2343    45677778888888888888888888876421 122 235


Q ss_pred             HHHHHHHhcc--------cCcHHHHHHHHHHhHHh
Q 036340          434 FISVLSACAH--------AGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       434 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~  460 (579)
                      +..+..++..        .|++++|+..|+++++.
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            6666677777        88888888888888765

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.18  E-value=1.3e-09  Score=96.81  Aligned_cols=242  Identities=8%  Similarity=-0.014  Sum_probs=144.8

Q ss_pred             HHHHhcCCHHHHHHHHccCCCCChh-hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHH
Q 036340          272 SGYAQIGNLELALDFFKRMPQKNLV-SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGM  350 (579)
Q Consensus       272 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  350 (579)
                      +-..-.|++..++.-..++...+.. .-..+.++|...|++...         ....|....+..+...+ ..+    +.
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~   86 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NI   86 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CC
T ss_pred             HHHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HH
Confidence            4445578998888866665543322 333445778888887742         12233333333333322 221    56


Q ss_pred             HHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CC---CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC
Q 036340          351 QIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-LL---KNVVSWNAMIGGCASHGFATEALELFKSMRSFK  426 (579)
Q Consensus       351 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  426 (579)
                      ..++......+++...+..++.++...|++++|++++.+.. ..   .+...+..++..+.+.|+.+.|.+.+++|.+  
T Consensus        87 ~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~--  164 (310)
T 3mv2_B           87 EELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN--  164 (310)
T ss_dssp             HHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--
Confidence            66665222224445555677777888888888888887762 22   2345566777778888888888888888874  


Q ss_pred             CCC-----ChhhHHHHHHH--hcccC--cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC-
Q 036340          427 VLP-----TYITFISVLSA--CAHAG--LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-  495 (579)
Q Consensus       427 ~~p-----~~~~~~~l~~~--~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-  495 (579)
                      ..|     +..+...++.+  ....|  ++.+|..+|+++...   .|+......+..++.+.|++++|.+.++.+ .. 
T Consensus       165 ~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            355     24455555544  33333  788888888887543   344222233333777888888888887654 11 


Q ss_pred             ---------CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          496 ---------EP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       496 ---------~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                               .| ++.++..++......|+  +|.++++++.+..|+++.
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                     13 55566555555555565  677888888888888654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.18  E-value=1.6e-10  Score=105.13  Aligned_cols=226  Identities=10%  Similarity=0.012  Sum_probs=134.5

Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHHhccCC-C-chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhc
Q 036340          313 GAIKLFIQMQVEGEKPDRHTFSSILSMSSGI-V-DLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEM  390 (579)
Q Consensus       313 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  390 (579)
                      +|.+++.+..+. .+++...| .++   ... + +++.|...+..              .+..|...|++++|...|.+.
T Consensus         3 ~a~~~~~~a~k~-~~~~~~~~-~~~---~~~~~~~~~~A~~~~~~--------------a~~~~~~~g~~~~A~~~~~~a   63 (292)
T 1qqe_A            3 DPVELLKRAEKK-GVPSSGFM-KLF---SGSDSYKFEEAADLCVQ--------------AATIYRLRKELNLAGDSFLKA   63 (292)
T ss_dssp             CHHHHHHHHHHH-SSCCCTHH-HHH---SCCSHHHHHHHHHHHHH--------------HHHHHHHTTCTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH-hCcCCCcc-hhc---CCCCCccHHHHHHHHHH--------------HHHHHHHcCCHHHHHHHHHHH
Confidence            466677666554 22222222 222   111 2 36666666554              345677778888888877765


Q ss_pred             c-----C-CC--CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC---CCC--hhhHHHHHHHhccc-CcHHHHHHHHHH
Q 036340          391 K-----L-LK--NVVSWNAMIGGCASHGFATEALELFKSMRSFKV---LPT--YITFISVLSACAHA-GLVEEGRQHFKS  456 (579)
Q Consensus       391 ~-----~-~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~p~--~~~~~~l~~~~~~~-~~~~~a~~~~~~  456 (579)
                      .     . .+  ...+|+.+..+|...|++++|+..+++..+...   .+.  ..++..+...|... |++++|+..|++
T Consensus        64 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~  143 (292)
T 1qqe_A           64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            3     0 11  134677788888888888888888887764311   111  23677777777775 888888888887


Q ss_pred             hHHhhCCCCC----cchhHHHHHHhhccCChHHHHHHHHhC-CCCC---CH-----HHHHHHHHHHhhcCCHHHHHHHHH
Q 036340          457 MVNEYGIEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP---DK-----AVWGALLGACRVHNNVELAQVAAE  523 (579)
Q Consensus       457 ~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~~-----~~~~~l~~~~~~~~~~~~A~~~~~  523 (579)
                      .+.-..-..+    ..++..++.++.+.|++++|+..+++. ...|   ..     ..+..++.++...|++++|+..|+
T Consensus       144 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  223 (292)
T 1qqe_A          144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7653211111    345677788888888888888888776 2222   11     145666677777888888888888


Q ss_pred             HHhhcCCCCCCC------chhhhhhhhhcCCchHHHHHHHHH
Q 036340          524 ALMKVEPENSTP------YVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       524 ~~~~~~p~~~~~------~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ++++++|+ ...      +..++.++ ..++.++..+.++..
T Consensus       224 ~al~l~p~-~~~~~~~~~l~~l~~~~-~~~~~~~~~~A~~~~  263 (292)
T 1qqe_A          224 EGQSEDPN-FADSRESNFLKSLIDAV-NEGDSEQLSEHCKEF  263 (292)
T ss_dssp             GGGCC----------HHHHHHHHHHH-HTTCTTTHHHHHHHH
T ss_pred             HHHhhCCC-CCCcHHHHHHHHHHHHH-HcCCHHHHHHHHHHh
Confidence            88887775 221      11223322 345666666666554

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.18  E-value=2.2e-10  Score=102.61  Aligned_cols=184  Identities=10%  Similarity=-0.027  Sum_probs=104.3

Q ss_pred             ChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCC---chHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCC----eeeHH
Q 036340          329 DRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD---VPINNALITMYARCGAIVEARIIFEEMK-LLKN----VVSWN  400 (579)
Q Consensus       329 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~----~~~~~  400 (579)
                      +...+......+...|+++.|...++......|.+   ...+..++.+|...|++++|...|+... ..|+    ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            34455555566677777777777777755544444   5666777777777777777777777664 2232    23455


Q ss_pred             HHHHHHHh--------cCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhH
Q 036340          401 AMIGGCAS--------HGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFA  471 (579)
Q Consensus       401 ~l~~~~~~--------~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  471 (579)
                      .+..++..        .|++++|+..|+++.+.  .|+.. ....+..              +..+...     ....+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~--------------~~~~~~~-----~~~~~~  152 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQK--------------IRELRAK-----LARKQY  152 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHH--------------HHHHHHH-----HHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHH--------------HHHHHHH-----HHHHHH
Confidence            66666666        77777777777777753  34332 2211110              0000000     001134


Q ss_pred             HHHHHhhccCChHHHHHHHHhC-CCCC----CHHHHHHHHHHHhhc----------CCHHHHHHHHHHHhhcCCCCC
Q 036340          472 SLVDIVGRHGRLEDAMDLIKGM-PFEP----DKAVWGALLGACRVH----------NNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       472 ~l~~~~~~~g~~~~A~~~~~~~-~~~~----~~~~~~~l~~~~~~~----------~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      .++.+|.+.|++++|+..++++ ...|    ....+..++.++...          |++++|+..|+++++..|+++
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  229 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSP  229 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCCh
Confidence            4555666666666666666555 1112    233455555555543          667777777777777777764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.15  E-value=3.2e-11  Score=97.28  Aligned_cols=125  Identities=9%  Similarity=-0.081  Sum_probs=105.8

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      |...+...|++++|+..++...   ...| +...+..++.+|.+.|++++|+..|++. ...| ++..|..++.++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            4567788899999999999876   3345 4566778999999999999999999987 4455 7889999999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHH-HHHHHhCCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEV-RLLMKSNNI  564 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~  564 (579)
                      ++++|+..|+++++++|+++.++..++.+|.+.|++++|.+. ++++.+..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P  131 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP  131 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc
Confidence            999999999999999999999999999999999999887765 588776554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=1.2e-09  Score=99.39  Aligned_cols=174  Identities=16%  Similarity=0.102  Sum_probs=128.9

Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCC-------C--chhhHHHHHHHHHhcCChhhHHHHHc
Q 036340           45 LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPA-------R--NVVSWNAMISGFLQNGDVANAIEFFD  115 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~--~~~~~~~l~~~~~~~~~~~~A~~~~~  115 (579)
                      +++|...|++.           +..|...|++++|...|++...       +  ...+|+.+..+|...|++++|+..++
T Consensus        33 ~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~  101 (292)
T 1qqe_A           33 FEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLE  101 (292)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            77887766654           6678888999999988887651       1  14578889999999999999999988


Q ss_pred             cCCCC-----C----cchHHHHHHHHHhC-CCHHHHHHHHHHhccCCCCCCC---chhhHHHHHHHHhhCCCHHHHHHHH
Q 036340          116 RMPGR-----D----SASLSALVSGLIQN-GELDEAARVLVKCGSRCDGGED---LVRAYNTLIVGYGQRGRVEEARKLF  182 (579)
Q Consensus       116 ~~~~~-----~----~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~  182 (579)
                      +...-     +    ..++..+...+... |++++|+..|++++...+....   ...++..++..+...|++++|+..|
T Consensus       102 ~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~  181 (292)
T 1qqe_A          102 NAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY  181 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            86531     1    34677888999996 9999999999998874211111   1356889999999999999999999


Q ss_pred             ccccccCCCCCCCccCC-cc-hHHHHHHHHHHHhcCCHHHHHHHHHhcCCCCh
Q 036340          183 DKIPVNCDRGEGNVRFK-RN-IVSWNSMIMCYAKAGDVVSAREIFEQMLERDT  233 (579)
Q Consensus       183 ~~~~~~~~~~~~~~~~~-~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  233 (579)
                      +++....+.    .+.. .. ...+..+..++...|++++|...|++.++-++
T Consensus       182 ~~al~~~~~----~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  230 (292)
T 1qqe_A          182 SKLIKSSMG----NRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDP  230 (292)
T ss_dssp             HHHHHTTSS----CTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC--
T ss_pred             HHHHHHHhc----CCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            998732110    0000 01 12577888899999999999999999877433

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.10  E-value=2.2e-09  Score=92.35  Aligned_cols=173  Identities=8%  Similarity=-0.117  Sum_probs=136.1

Q ss_pred             HHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccC----cHHHHHHHHHHhH
Q 036340          383 ARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAG----LVEEGRQHFKSMV  458 (579)
Q Consensus       383 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~  458 (579)
                      |.+.|++.....++..+..+...|...+++++|+++|++..+.|   +...+..|...|.. +    ++++|.++|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            45555555435667778888888888899999999999988765   45677777777777 6    8999999999886


Q ss_pred             HhhCCCCCcchhHHHHHHhhc----cCChHHHHHHHHhC-CCCCC---HHHHHHHHHHHhh----cCCHHHHHHHHHHHh
Q 036340          459 NEYGIEPRIEHFASLVDIVGR----HGRLEDAMDLIKGM-PFEPD---KAVWGALLGACRV----HNNVELAQVAAEALM  526 (579)
Q Consensus       459 ~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~~~---~~~~~~l~~~~~~----~~~~~~A~~~~~~~~  526 (579)
                      +.    -++..+..|+.+|..    .+++++|+.++++. ...|.   +..+..+...|..    .+++++|+..|+++.
T Consensus        81 ~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 EA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            43    356677788888877    88999999999887 33443   7788888888877    789999999999999


Q ss_pred             hcCCCCCCCchhhhhhhhhc-C-----CchHHHHHHHHHHhCCC
Q 036340          527 KVEPENSTPYVLLYNMYADV-G-----RWDDANEVRLLMKSNNI  564 (579)
Q Consensus       527 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  564 (579)
                      +. |.++.++..|+.+|... |     ++++|...+++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            88 66677889999988764 3     89999999999887764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.10  E-value=4.6e-10  Score=88.78  Aligned_cols=128  Identities=16%  Similarity=0.195  Sum_probs=68.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhh
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVG  478 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  478 (579)
                      |..++..+...|++++|+.+++++.+.. +.+...+..+...+...|++++|..+++++...                  
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~------------------   64 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL------------------   64 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH------------------
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH------------------
Confidence            4445555555566666666665555432 122334444555555555555555555555432                  


Q ss_pred             ccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHH
Q 036340          479 RHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       479 ~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  558 (579)
                                      .+.+...+..++..+...|++++|...++++.+..|.++.++..++.++...|++++|...+++
T Consensus        65 ----------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  128 (136)
T 2fo7_A           65 ----------------DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQK  128 (136)
T ss_dssp             ----------------CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             ----------------CCCchHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHH
Confidence                            1123344445555555555666666666666655555555555566666666666666666655


Q ss_pred             HHh
Q 036340          559 MKS  561 (579)
Q Consensus       559 ~~~  561 (579)
                      +.+
T Consensus       129 ~~~  131 (136)
T 2fo7_A          129 ALE  131 (136)
T ss_dssp             HHH
T ss_pred             HHc
Confidence            543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.09  E-value=2.5e-10  Score=116.80  Aligned_cols=168  Identities=9%  Similarity=-0.032  Sum_probs=99.8

Q ss_pred             hhcCCHHHHHHHHHhcc---------C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcc
Q 036340          375 ARCGAIVEARIIFEEMK---------L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAH  443 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~---------~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  443 (579)
                      ...|++++|++.+++..         . +.+...+..+..++...|++++|+..|+++.+.  .|+ ...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHH
Confidence            45566666666665542         1 223445666666666666666666666666643  343 3356666666666


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHH
Q 036340          444 AGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQV  520 (579)
Q Consensus       444 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~  520 (579)
                      .|++++|...|+++++.   .| +...+..++.++.+.|++++ +..|+++ ...| +...|..+..++...|++++|+.
T Consensus       480 ~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            66666666666666543   33 45556666666666666666 6666655 2233 45566666666666666666666


Q ss_pred             HHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          521 AAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       521 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      .|+++++++|++..++..++.++...|+
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            6666666666666666666666655444

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.08  E-value=3.1e-10  Score=94.55  Aligned_cols=159  Identities=8%  Similarity=0.002  Sum_probs=108.2

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHH
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDI  476 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  476 (579)
                      .+..+...+...|++++|+..|++..+.  .|+ ...+..+...+...|++++|...++++...   .|+......+...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~   82 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKL   82 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHH
Confidence            3445556666777777777777776642  343 336666666777777777777777766543   2322222222211


Q ss_pred             -hhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC--CCCchhhhhhhhhcCCchH
Q 036340          477 -VGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN--STPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       477 -~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~  551 (579)
                       +...+...+|+..+++. ...| +...+..+..++...|++++|+..|+++++.+|+.  +.++..++.++...|+.++
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence             11222333466666665 3345 67888889999999999999999999999999875  4478899999999999999


Q ss_pred             HHHHHHHHHh
Q 036340          552 ANEVRLLMKS  561 (579)
Q Consensus       552 A~~~~~~~~~  561 (579)
                      |...+++...
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.07  E-value=4.2e-11  Score=95.94  Aligned_cols=102  Identities=13%  Similarity=0.064  Sum_probs=83.7

Q ss_pred             CCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchh
Q 036340          462 GIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVL  538 (579)
Q Consensus       462 ~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  538 (579)
                      .+.| +...+..++..+.+.|++++|+..|+++ ...| ++..|..+..++...|++++|+..|+++++++|+++.+|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            3445 4566777788888888888888888877 3344 67788888888888999999999999999999999999999


Q ss_pred             hhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          539 LYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       539 l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++.+|...|++++|...+++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999998887655

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.07  E-value=1.2e-09  Score=99.06  Aligned_cols=166  Identities=13%  Similarity=0.120  Sum_probs=110.0

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc-C--------CC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhC------CC
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK-L--------LK-NVVSWNAMIGGCASHGFATEALELFKSMRSF------KV  427 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~--------~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~~  427 (579)
                      ..++..+...|...|++++|...|.+.. .        .| ....+..+...+...|++++|+..++++.+.      +-
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            4456777888888888888888887653 1        12 2456778888899999999999999988764      11


Q ss_pred             CCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhh------CCCC-CcchhHHHHHHhhccC------ChHHHHHHHHhC
Q 036340          428 LPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEY------GIEP-RIEHFASLVDIVGRHG------RLEDAMDLIKGM  493 (579)
Q Consensus       428 ~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~  493 (579)
                      .|+ ..++..+...+...|++++|..+++++++..      ...+ ....+..+...+...+      .+.++...++..
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKAC  244 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CC
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhc
Confidence            343 3478888889999999999999999887531      1122 2333444443333322      344455555555


Q ss_pred             C-CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          494 P-FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       494 ~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      . ..| ....+..++.++...|++++|...++++++..
T Consensus       245 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          245 KVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            3 223 34577888899999999999999999998653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.06  E-value=1.2e-08  Score=90.69  Aligned_cols=176  Identities=12%  Similarity=-0.024  Sum_probs=105.2

Q ss_pred             HHHHHHhccC--CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          383 ARIIFEEMKL--LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       383 A~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      |+..|+++..  .++..++..+..++...|++++|++++.+.+..+..++ ...+..++..+.+.|+.+.|.+.+++|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5566665431  23444455666667777777777777777664432123 33666666677777777777777777753


Q ss_pred             hhCCCC-----CcchhHHHHHH--hhccC--ChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhc-
Q 036340          460 EYGIEP-----RIEHFASLVDI--VGRHG--RLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKV-  528 (579)
Q Consensus       460 ~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  528 (579)
                      .   .|     +..+...++.+  ....|  ++.+|..+|+++ ...|+..+-..+..++.+.|++++|...++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            2   44     23444444444  22233  777777777776 33344222233333666777777777777766654 


Q ss_pred             ---------CCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          529 ---------EPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       529 ---------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                               +|+++.++..++.+....|+  +|.++++++++..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     36677766666666666665  6777777776655

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=7.4e-10  Score=100.35  Aligned_cols=173  Identities=9%  Similarity=-0.036  Sum_probs=134.8

Q ss_pred             HHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          382 EARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       382 ~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      .....+.... +.+...+..+...+...|++++|+..|++..+.  .|+. ..+..+...+...|++++|...++++...
T Consensus       104 ~l~~~l~~~l-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~  180 (287)
T 3qou_A          104 AIRALLDXVL-PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ  180 (287)
T ss_dssp             HHHHHHHHHS-CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG
T ss_pred             HHHHHHHHHc-CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh
Confidence            3344444443 444556677788888899999999999998864  5644 47888888999999999999999988643


Q ss_pred             hCCCCCcchh-HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC--CCC
Q 036340          461 YGIEPRIEHF-ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN--STP  535 (579)
Q Consensus       461 ~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~  535 (579)
                         .|+.... ......+...++.++|...+++. ...| +...+..+...+...|++++|+..|+++++.+|++  ..+
T Consensus       181 ---~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          181 ---DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             ---GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             ---hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence               4543322 23333466778888888888776 3344 77889999999999999999999999999999998  778


Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHH
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +..++.++...|+.++|...+++..
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            9999999999999999999988764

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.04  E-value=3.9e-09  Score=83.29  Aligned_cols=123  Identities=14%  Similarity=0.163  Sum_probs=88.0

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhc
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACA  442 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  442 (579)
                      ..+..++..+...|++++|..+++++.  .+.+...+..++..+...|++++|..+++++.... +.+...+..+...+.
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            356778899999999999999999874  34456678889999999999999999999998653 334557777888888


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLI  490 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  490 (579)
                      ..|++++|..+++.+....  +.+...+..++.++...|++++|...+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~  126 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYY  126 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHH
Confidence            8899999998888876531  112333333444444444444443333

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.02  E-value=9.4e-10  Score=110.65  Aligned_cols=159  Identities=11%  Similarity=0.049  Sum_probs=123.0

Q ss_pred             cCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHH
Q 036340          377 CGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQH  453 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~  453 (579)
                      .|++++|...|++.. ..| +...|..+...+...|++++|++.+++..+.  .|+ ...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLAL--HPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--STTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999998874 333 5677889999999999999999999999964  564 45888899999999999999999


Q ss_pred             HHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhc---CCHHHHHHHHHHHhh
Q 036340          454 FKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVH---NNVELAQVAAEALMK  527 (579)
Q Consensus       454 ~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~  527 (579)
                      +++.++.   .| +...+..++.++.+.|++++|.+.+++. ...| +...+..+..++...   |++++|...++++++
T Consensus        80 ~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            9999864   34 5778899999999999999999999987 3344 677888999999999   999999999999999


Q ss_pred             cCCCCCCCchhhh
Q 036340          528 VEPENSTPYVLLY  540 (579)
Q Consensus       528 ~~p~~~~~~~~l~  540 (579)
                      .+|.+...+..++
T Consensus       157 ~~p~~~~~~~~l~  169 (568)
T 2vsy_A          157 QGVGAVEPFAFLS  169 (568)
T ss_dssp             HTCCCSCHHHHTT
T ss_pred             cCCcccChHHHhC
Confidence            9999988777776

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.01  E-value=5.9e-10  Score=86.61  Aligned_cols=113  Identities=13%  Similarity=0.091  Sum_probs=78.4

Q ss_pred             CCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHH
Q 036340          427 VLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVW  502 (579)
Q Consensus       427 ~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~  502 (579)
                      +.|+.. .+......|.+.|++++|++.|+++++.   .| +...+..++.++.+.|++++|+..+++. ...| +...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            455443 5666677777777777777777777643   33 5566777777777777777777777765 3333 56677


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      ..++.++...|++++|+..|+++++++|+++.++..|+.+
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            7777777777888888888888888888777666666544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.00  E-value=1.9e-09  Score=92.54  Aligned_cols=159  Identities=10%  Similarity=-0.007  Sum_probs=116.0

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHH----------------HHHHHHhcCChHHHHHHHHHhHhCCCCC
Q 036340          368 NALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNA----------------MIGGCASHGFATEALELFKSMRSFKVLP  429 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~----------------l~~~~~~~~~~~~A~~~~~~~~~~~~~p  429 (579)
                      ...+..+...|++++|...|++.. ..| +...|..                +..++.+.|++++|+..|++..+.  .|
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p   85 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--AP   85 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CC
Confidence            334555667777888877777653 233 3344555                888899999999999999999864  56


Q ss_pred             C-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCC--hHHHHHHHHhCCCCCCH--HHHH
Q 036340          430 T-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGR--LEDAMDLIKGMPFEPDK--AVWG  503 (579)
Q Consensus       430 ~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~~~--~~~~  503 (579)
                      + ...+..+..++...|++++|+..|+++++.   .| +...+..++.+|...|+  ...+...++... .|++  ..+.
T Consensus        86 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~  161 (208)
T 3urz_A           86 NNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS-SPTKMQYARY  161 (208)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh-CCCchhHHHH
Confidence            4 458888889999999999999999999864   45 56788888888876654  345566666653 3333  3444


Q ss_pred             HHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          504 ALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       504 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      ....++...|++++|+..|++++++.|++
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            55666777899999999999999999973

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.98  E-value=5.2e-09  Score=87.04  Aligned_cols=154  Identities=18%  Similarity=0.112  Sum_probs=95.8

Q ss_pred             hHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCc--chHHHHHHH-HHhC
Q 036340           62 TWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDS--ASLSALVSG-LIQN  135 (579)
Q Consensus        62 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~l~~~-~~~~  135 (579)
                      .+..+...+.+.|++++|+..|++..   +.++..+..+..++...|++++|+..++++...++  ..+...... +...
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhh
Confidence            34455566667777777777777766   34455667777777777777777777777654322  211111111 1122


Q ss_pred             CCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc---chHHHHHHHHHH
Q 036340          136 GELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR---NIVSWNSMIMCY  212 (579)
Q Consensus       136 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~l~~~~  212 (579)
                      +...+|+..++++++   ..|.+..++..++.++...|++++|...|+++..          ..|   +...+..++.++
T Consensus        88 ~~~~~a~~~~~~al~---~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~----------~~p~~~~~~a~~~l~~~~  154 (176)
T 2r5s_A           88 AAESPELKRLEQELA---ANPDNFELACELAVQYNQVGRDEEALELLWNILK----------VNLGAQDGEVKKTFMDIL  154 (176)
T ss_dssp             HTSCHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----------TCTTTTTTHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHH----------hCcccChHHHHHHHHHHH
Confidence            223346677777766   3455667777777778888888888888877762          123   244677777777


Q ss_pred             HhcCCHHHHHHHHHhc
Q 036340          213 AKAGDVVSAREIFEQM  228 (579)
Q Consensus       213 ~~~~~~~~A~~~~~~~  228 (579)
                      ...|+.++|...|++.
T Consensus       155 ~~~g~~~~A~~~y~~a  170 (176)
T 2r5s_A          155 SALGQGNAIASKYRRQ  170 (176)
T ss_dssp             HHHCSSCHHHHHHHHH
T ss_pred             HHhCCCCcHHHHHHHH
Confidence            7777777777777653

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.98  E-value=7.3e-09  Score=105.92  Aligned_cols=144  Identities=10%  Similarity=0.042  Sum_probs=65.4

Q ss_pred             CCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHH
Q 036340          362 PDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVL  438 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~  438 (579)
                      .+...+..+...+...|++++|...|++..  .+.+...|..+..++...|++++|+..|++..+.  .|+ ...+..+.
T Consensus       431 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg  508 (681)
T 2pzi_A          431 ESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALA  508 (681)
T ss_dssp             TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHH
T ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHH
Confidence            344444444455555555555555554432  1223334444555555555555555555554432  232 22444444


Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHhh
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD-KAVWGALLGACRV  511 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~-~~~~~~l~~~~~~  511 (579)
                      .++...|++++ ++.|+++++.   .| +...+..++.++.+.|++++|+..++++ ...|+ ...+..+..++..
T Consensus       509 ~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          509 ATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC-
T ss_pred             HHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHc
Confidence            45555555555 5555544432   22 3344445555555555555555555544 23332 2344444444433

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.97  E-value=5.7e-09  Score=95.68  Aligned_cols=220  Identities=9%  Similarity=-0.023  Sum_probs=150.6

Q ss_pred             CCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHH
Q 036340          308 NKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIF  387 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  387 (579)
                      .|++++|.+++++..+.... .         .+...++++.|...+..              .+..|...|++++|...|
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~--------------a~~~~~~~g~~~~A~~~~   59 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK--------------AAVAFKNAKQLEQAKDAY   59 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH--------------HHHHHHHTTCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH--------------HHHHHHHcCCHHHHHHHH
Confidence            46677788888776653211 1         01114667777666544              355677788888888888


Q ss_pred             Hhcc----CCCC----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC---CCC--hhhHHHHHHHhcccCcHHHHHHHH
Q 036340          388 EEMK----LLKN----VVSWNAMIGGCASHGFATEALELFKSMRSFKV---LPT--YITFISVLSACAHAGLVEEGRQHF  454 (579)
Q Consensus       388 ~~~~----~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~p~--~~~~~~l~~~~~~~~~~~~a~~~~  454 (579)
                      .+..    ...+    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+...|.. |++++|+..|
T Consensus        60 ~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~  138 (307)
T 2ifu_A           60 LQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLY  138 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence            7653    1111    34678888889999999999999988764311   122  2467788888888 9999999999


Q ss_pred             HHhHHhhCCCC----CcchhHHHHHHhhccCChHHHHHHHHhC-C---CCCC----HHHHHHHHHHHhhcCCHHHHHHHH
Q 036340          455 KSMVNEYGIEP----RIEHFASLVDIVGRHGRLEDAMDLIKGM-P---FEPD----KAVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       455 ~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~~~----~~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      ++.+.-..-..    ...++..++.+|.+.|++++|+..+++. .   ..++    ...+..++.++...|++++|+..|
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            98875421111    1457788899999999999999999887 1   1112    225566667777889999999999


Q ss_pred             HHHhhcCCCCCCC-----chhhhhhhhhcCCchHHHH
Q 036340          523 EALMKVEPENSTP-----YVLLYNMYADVGRWDDANE  554 (579)
Q Consensus       523 ~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~  554 (579)
                      ++++ ..|.....     +..++.++ ..|+.+.+.+
T Consensus       219 ~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          219 RESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            9999 99987654     33444444 5677666655

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.96  E-value=1.3e-08  Score=88.45  Aligned_cols=185  Identities=11%  Similarity=-0.014  Sum_probs=132.0

Q ss_pred             hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCC---chHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCee----eHHH
Q 036340          330 RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPD---VPINNALITMYARCGAIVEARIIFEEMK-LLKNVV----SWNA  401 (579)
Q Consensus       330 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~----~~~~  401 (579)
                      ...+......+...|+++.|...++......|.+   ...+..++.+|.+.|++++|+..|+++. ..|+..    .+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            3455566677889999999999999954444433   4578889999999999999999999874 344432    4555


Q ss_pred             HHHHHHh------------------cCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhC
Q 036340          402 MIGGCAS------------------HGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYG  462 (579)
Q Consensus       402 l~~~~~~------------------~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  462 (579)
                      +..++..                  .|++++|+..|+++++.  .|+.. .......          ...+...+.    
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~----  147 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH----
Confidence            6666554                  57899999999999954  56654 3322111          011111111    


Q ss_pred             CCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          463 IEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       463 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                           .....++..|.+.|++++|+..++++ ...|+    ...+..++.++.+.|+.++|+..++++....|++...
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                 11245678889999999999999887 33333    2567888899999999999999999999999987654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.94  E-value=6.1e-09  Score=89.29  Aligned_cols=108  Identities=15%  Similarity=0.151  Sum_probs=66.2

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHH----------------HHHHHhhCCCHHHHHHHHcccccc
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNT----------------LIVGYGQRGRVEEARKLFDKIPVN  188 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~g~~~~A~~~~~~~~~~  188 (579)
                      +......+...|++++|+..|++++.   ..|.+..++..                ++.++...|++++|+..|+++...
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIA---LNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34445566677888888888888776   33445555555                666677777777777777766511


Q ss_pred             CCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC---ChhHHHHHHHHHH
Q 036340          189 CDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER---DTFSWNTMISGYI  244 (579)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~  244 (579)
                              . +.+...+..+..++...|++++|...|+++++.   +..++..+...+.
T Consensus        84 --------~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~  133 (208)
T 3urz_A           84 --------A-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYY  133 (208)
T ss_dssp             --------C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             --------C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence                    1 334566666677777777777777777666442   3344444444443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.93  E-value=2.9e-09  Score=97.65  Aligned_cols=196  Identities=8%  Similarity=-0.058  Sum_probs=147.0

Q ss_pred             CCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHh
Q 036340          343 IVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSM  422 (579)
Q Consensus       343 ~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  422 (579)
                      .|+++.|..+++...+..+..         .+...++++.|...|...            +..|...|++++|...|.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~---------~~~~~~~~~~A~~~~~~a------------~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS---------FMKWKPDYDSAASEYAKA------------AVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC---------SSSCSCCHHHHHHHHHHH------------HHHHHHTTCHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcccc---------ccCCCCCHHHHHHHHHHH------------HHHHHHcCCHHHHHHHHHHH
Confidence            467778888887744333321         011147888888887764            45788899999999999887


Q ss_pred             HhCC----CCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC--CC--CcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          423 RSFK----VLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGI--EP--RIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       423 ~~~~----~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      .+..    -.+. ..+|..+...|...|++++|+..|++.+.-..-  .+  ...++..++.+|.. |++++|+..+++.
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            6432    1111 237888888999999999999999988654211  11  13577889999988 9999999999876


Q ss_pred             -CC-----CC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC------CchhhhhhhhhcCCchHHHHHHHHH
Q 036340          494 -PF-----EP--DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST------PYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       494 -~~-----~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                       ..     .+  ...++..+...+...|++++|+..|++++++.|.+..      .+..++.++...|++++|...+++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence             11     11  1457888889999999999999999999998776543      5667788888999999999999998


Q ss_pred             H
Q 036340          560 K  560 (579)
Q Consensus       560 ~  560 (579)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            7

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.93  E-value=9e-09  Score=103.48  Aligned_cols=145  Identities=12%  Similarity=-0.020  Sum_probs=65.4

Q ss_pred             CchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHH
Q 036340          344 VDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKS  421 (579)
Q Consensus       344 ~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  421 (579)
                      |+++.|...++......+.+...+..+...+...|++++|.+.|++.. . +.+...+..+..++...|++++|++.+++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~   82 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQQ   82 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444555555555333344445555555555555555555555555542 1 22334455555555555555555555555


Q ss_pred             hHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhcc---CChHHHHHHHHhC
Q 036340          422 MRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRH---GRLEDAMDLIKGM  493 (579)
Q Consensus       422 ~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  493 (579)
                      ..+.  .|+ ...+..+..++...|++++|.+.++++++.   .| +...+..++.++...   |+.++|.+.+++.
T Consensus        83 al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           83 ASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL---LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            5542  232 235555555555555555555555555432   22 344455555555555   5555555555544

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.93  E-value=9.6e-10  Score=88.25  Aligned_cols=99  Identities=9%  Similarity=-0.006  Sum_probs=55.2

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      .+..+...+...|++++|...|+.++..   .| +...+..++.++...|++++|+..++++ ...| ++..+..++.++
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVL---DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            4455555566666666666666665532   23 4455555555666666666666665554 2222 444555555555


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      ...|++++|+..|++++++.|+++.
T Consensus       100 ~~~g~~~~A~~~~~~al~~~p~~~~  124 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQELIANXPE  124 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHcCCHHHHHHHHHHHHHHCcCCCc
Confidence            5666666666666666666555543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.93  E-value=1.5e-09  Score=84.25  Aligned_cols=102  Identities=10%  Similarity=0.096  Sum_probs=91.5

Q ss_pred             CCCC-cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          463 IEPR-IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       463 ~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      +.|+ ...+...+..+.+.|++++|+..|++. ...| +...|..++.++...|++++|+..++++++++|+++.+|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4553 466778899999999999999999987 4444 788999999999999999999999999999999999999999


Q ss_pred             hhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          540 YNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       540 ~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +.+|...|++++|.+.+++..+..+
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            9999999999999999999987654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.92  E-value=8.3e-09  Score=93.42  Aligned_cols=171  Identities=14%  Similarity=0.050  Sum_probs=128.6

Q ss_pred             hHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCC
Q 036340           45 LEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRD  121 (579)
Q Consensus        45 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  121 (579)
                      .+....++....+.+...+..+...+.+.|++++|+..|+++.   +.+..++..+..++...|++++|+..++++...+
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~  181 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD  181 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh
Confidence            3445555555555556677778888888899999999988876   4466788888889999999999999999887633


Q ss_pred             cch--H-HHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccC
Q 036340          122 SAS--L-SALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRF  198 (579)
Q Consensus       122 ~~~--~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  198 (579)
                      +..  . ......+...++.++|+..++++..   ..|.+..++..++..+...|++++|...|+++...          
T Consensus       182 p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~---~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~----------  248 (287)
T 3qou_A          182 QDTRYQGLVAQIELLXQAADTPEIQQLQQQVA---ENPEDAALATQLALQLHQVGRNEEALELLFGHLRX----------  248 (287)
T ss_dssp             CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------
T ss_pred             cchHHHHHHHHHHHHhhcccCccHHHHHHHHh---cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc----------
Confidence            322  1 2223335667778888888888887   45777888889999999999999999999988722          


Q ss_pred             Cc---chHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          199 KR---NIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       199 ~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      .|   +...+..++..+...|+.+.|...|++.
T Consensus       249 ~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~a  281 (287)
T 3qou_A          249 DLTAADGQTRXTFQEILAALGTGDALASXYRRQ  281 (287)
T ss_dssp             CTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            23   2667888888888888888888777653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.92  E-value=9e-09  Score=88.79  Aligned_cols=129  Identities=11%  Similarity=-0.045  Sum_probs=107.5

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHh
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV  477 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  477 (579)
                      .+..+...+...|++++|+..|++..    .|+...+..+..++...|++++|...+++.+..  .+.+...+..++.++
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            35567778889999999999998874    567788999999999999999999999998864  133567888999999


Q ss_pred             hccCChHHHHHHHHhC-CCCC-C----------------HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          478 GRHGRLEDAMDLIKGM-PFEP-D----------------KAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~-~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      ...|++++|...+++. ...| +                ...+..++.++...|++++|...++++++..|++
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            9999999999999887 2222 2                2678888889999999999999999999999986

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.86  E-value=5.3e-09  Score=91.60  Aligned_cols=184  Identities=11%  Similarity=-0.030  Sum_probs=115.1

Q ss_pred             hcCCHHHHHHHHHhcc-CCC-CeeeHHHH-------HHHHHhcCChHHHHHHHHHhHhCCCCCChh--------------
Q 036340          376 RCGAIVEARIIFEEMK-LLK-NVVSWNAM-------IGGCASHGFATEALELFKSMRSFKVLPTYI--------------  432 (579)
Q Consensus       376 ~~~~~~~A~~~~~~~~-~~~-~~~~~~~l-------~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~--------------  432 (579)
                      ..++...|.+.|.++. ..| ....|..+       ..++...++..+++..+++-.  ++.|+..              
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l--~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSV--QISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTT--TCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHh--cCChhhhhhhhccCCcccccc
Confidence            4577777777777764 233 34456666       455555555556655555554  3333211              


Q ss_pred             --------hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCH----H
Q 036340          433 --------TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDK----A  500 (579)
Q Consensus       433 --------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~  500 (579)
                              ....+...+...|++++|.++|+.+..   ..|+......++..+.+.|++++|+..|+.....|++    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                    223344566777888888888776653   2343225556666777788888888888766333322    3


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhcC--CC-CCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKVE--PE-NSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .+..+..++...|++++|+..|+++....  |. .+.++..++.++.+.|+.++|...|+++....+
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            56666777777888888888888776433  43 334567777788888888888888887766554

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.85  E-value=6.3e-09  Score=93.81  Aligned_cols=191  Identities=7%  Similarity=-0.090  Sum_probs=135.0

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLS  439 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~  439 (579)
                      +...+..++..+...|++++|...|++.. ..| +...|..+..++.+.|++++|+..+++..+  +.|+. ..+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            45567778888999999999999999874 334 677788899999999999999999999985  45654 48888888


Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHH
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      ++...|++++|...|+++++.   .|+ ...+...+....+......... .......++......+...  ..|++++|
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~l--~~~~~~~A  154 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTRL--IAAERERE  154 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHHH--HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHHH--HHHHHHHH
Confidence            999999999999999988754   232 1122222222222211111111 2222333444444444332  36899999


Q ss_pred             HHHHHHHhhcCCCCCCCchhhhhhhhhc-CCchHHHHHHHHHHh
Q 036340          519 QVAAEALMKVEPENSTPYVLLYNMYADV-GRWDDANEVRLLMKS  561 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~  561 (579)
                      ++.++++++.+|++......+...+.+. +.+++|.++|+++.+
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9999999999999877777777777666 778999999998765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.84  E-value=5e-08  Score=84.02  Aligned_cols=152  Identities=9%  Similarity=-0.064  Sum_probs=119.2

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccC
Q 036340          366 INNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAG  445 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  445 (579)
                      .+..+...+...|++++|...|++.. .|+...|..+..++...|++++|+..+++..+.. +.+...+..+..++...|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcc
Confidence            35667888899999999999999986 7788889999999999999999999999998643 234558888999999999


Q ss_pred             cHHHHHHHHHHhHHhhCCC-------------C-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHh
Q 036340          446 LVEEGRQHFKSMVNEYGIE-------------P-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACR  510 (579)
Q Consensus       446 ~~~~a~~~~~~~~~~~~~~-------------~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~  510 (579)
                      ++++|...|+++++...-.             | ....+..++.++...|++++|...+++. ...|+.           
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~-----------  154 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------  154 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc-----------
Confidence            9999999999998642111             1 1267888999999999999999999987 566654           


Q ss_pred             hcCCHHHHHHHHHHHhhcCC
Q 036340          511 VHNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~p  530 (579)
                      ..+..+.+...+++.....|
T Consensus       155 ~~~~~~~a~~~~~~~~~~~~  174 (213)
T 1hh8_A          155 RHSKIDKAMECVWKQKLYEP  174 (213)
T ss_dssp             GGGHHHHHHHHHHTTCCCCC
T ss_pred             ccchHHHHHHHHHhcccccc
Confidence            23455666666654444333

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.82  E-value=1.7e-07  Score=80.36  Aligned_cols=161  Identities=10%  Similarity=-0.095  Sum_probs=123.2

Q ss_pred             CchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcC----ChHHHHHHHHHhHhCCCCCChhhHHHHH
Q 036340          363 DVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHG----FATEALELFKSMRSFKVLPTYITFISVL  438 (579)
Q Consensus       363 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~A~~~~~~~~~~~~~p~~~~~~~l~  438 (579)
                      ++..+..+...|...+++++|...|++.....++..+..+...|.. +    ++++|+++|++..+.|   +...+..|.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg   92 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLA   92 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            4556677778888888899998888887645566777788888777 6    8899999999987654   455777777


Q ss_pred             HHhcc----cCcHHHHHHHHHHhHHhhCCCCC---cchhHHHHHHhhc----cCChHHHHHHHHhC-CCCCCHHHHHHHH
Q 036340          439 SACAH----AGLVEEGRQHFKSMVNEYGIEPR---IEHFASLVDIVGR----HGRLEDAMDLIKGM-PFEPDKAVWGALL  506 (579)
Q Consensus       439 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~----~g~~~~A~~~~~~~-~~~~~~~~~~~l~  506 (579)
                      ..|..    .+++++|..+|++..+.   .|+   +..+..|+.+|..    .+++++|...|++. ...+++..+..+.
T Consensus        93 ~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg  169 (212)
T 3rjv_A           93 RVLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAG  169 (212)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            77776    78999999999888643   342   6777888888887    78899999999887 3335666777777


Q ss_pred             HHHhhc-C-----CHHHHHHHHHHHhhcCC
Q 036340          507 GACRVH-N-----NVELAQVAAEALMKVEP  530 (579)
Q Consensus       507 ~~~~~~-~-----~~~~A~~~~~~~~~~~p  530 (579)
                      ..|... |     +.++|+..|+++.+..+
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            777543 3     89999999999887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.81  E-value=7.4e-09  Score=82.56  Aligned_cols=99  Identities=9%  Similarity=-0.001  Sum_probs=53.8

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      .+..+...+...|++++|...|+.++..   .| +...+..++.++.+.|++++|+..+++. ...| ++..+..+..++
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            4444555555666666666666665542   23 4445555555555666666666555554 2222 344555555555


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      ...|++++|+..|++++++.|+++.
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~  121 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPA  121 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGG
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcc
Confidence            5556666666666666555555543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.81  E-value=7.9e-07  Score=86.64  Aligned_cols=372  Identities=8%  Similarity=-0.041  Sum_probs=207.1

Q ss_pred             cC-ChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCC-HHHHHHH
Q 036340          104 NG-DVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGR-VEEARKL  181 (579)
Q Consensus       104 ~~-~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~  181 (579)
                      .| +++.|..+|+.+..           .+ -.|+++.+..+|++++..    .|+...|...+....+.++ .+....+
T Consensus         7 ~~~~i~~aR~vyer~l~-----------~~-P~~~~e~~~~iferal~~----~ps~~LW~~Y~~f~~~~~~~~~~i~~~   70 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARR-----------LY-MSKDYRSLESLFGRCLKK----SYNLDLWMLYIEYVRKVSQKKFKLYEV   70 (493)
T ss_dssp             -----CCHHHHHHHHHH-----------HH-HTTCHHHHHHHHHHHSTT----CCCHHHHHHHHHHHHHHC----CTHHH
T ss_pred             cCcchHHHHHHHHHHHH-----------HC-CCCCHHHHHHHHHHHhcc----CCCHHHHHHHHHHHHHhCchHHHHHHH
Confidence            45 36777777666432           11 128999999999999884    2477788887777766663 4556777


Q ss_pred             HccccccCCCCCCCccC-CcchHHHHHHHHHHH----hcCCHHHHHHHHHhcCCCChhHHHHHHHHH---HhcCChHHHH
Q 036340          182 FDKIPVNCDRGEGNVRF-KRNIVSWNSMIMCYA----KAGDVVSAREIFEQMLERDTFSWNTMISGY---IHVLDMEEAS  253 (579)
Q Consensus       182 ~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~  253 (579)
                      |+.+...       .|. +++...|...+..+.    ..++.+.+.++|++.+..-...+..+-..|   ....+...+.
T Consensus        71 fe~al~~-------vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~  143 (493)
T 2uy1_A           71 YEFTLGQ-------FENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGK  143 (493)
T ss_dssp             HHHHHHH-------STTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHH
T ss_pred             HHHHHHH-------cCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHH
Confidence            7776621       232 346678888777654    346788899999988662111111111111   1111111222


Q ss_pred             HHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCC----CChhhHHHHHHHHHhCC--C-----chHHHHHHHHHH
Q 036340          254 NLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQ----KNLVSWNSMIAGCETNK--D-----YEGAIKLFIQMQ  322 (579)
Q Consensus       254 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~~~  322 (579)
                      .++.+.                 .+.+..|..+++.+..    .+...|...+..-...+  -     .+.+..+|++++
T Consensus       144 ~~~~~~-----------------~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al  206 (493)
T 2uy1_A          144 KIVGDT-----------------LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYIL  206 (493)
T ss_dssp             HHHHHH-----------------HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHH-----------------hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHH
Confidence            221110                 0111222222211111    12334444444322211  0     234566777766


Q ss_pred             HcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHH-HHHHHhcc-C--------
Q 036340          323 VEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEA-RIIFEEMK-L--------  392 (579)
Q Consensus       323 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A-~~~~~~~~-~--------  392 (579)
                      ... +.+...|...+..+...|+.+.|..+++..... |.+...+...+..    .+.++. ..+.+... .        
T Consensus       207 ~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~-P~~~~l~~~y~~~----~e~~~~~~~l~~~~~~~~~~~~~~~  280 (493)
T 2uy1_A          207 DSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM-SDGMFLSLYYGLV----MDEEAVYGDLKRKYSMGEAESAEKV  280 (493)
T ss_dssp             HHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CCSSHHHHHHHHH----TTCTHHHHHHHHHTC----------
T ss_pred             HcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-CCcHHHHHHHHhh----cchhHHHHHHHHHHHhhccchhhhh
Confidence            643 223555555555566677777777777773333 4444433322211    111111 11221110 0        


Q ss_pred             --CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc-cCcHHHHHHHHHHhHHhhCCCCCcch
Q 036340          393 --LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAH-AGLVEEGRQHFKSMVNEYGIEPRIEH  469 (579)
Q Consensus       393 --~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~  469 (579)
                        ......|...+....+.++.+.|..+|++. .. ...+...|...+..-.. .++.+.|..+|+..++.++  .++..
T Consensus       281 ~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~--~~~~~  356 (493)
T 2uy1_A          281 FSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHP--DSTLL  356 (493)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCT--TCHHH
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCC--CCHHH
Confidence              001234666677777788899999999998 32 12233344332222222 3369999999999988642  23455


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      +...++.....|+.+.|..+|+.+.  .....|...+..-...|+.+.+..+++++.+
T Consensus       357 ~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          357 KEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6667787888999999999999983  3567888888777788999999999999874

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.79  E-value=2.8e-07  Score=82.81  Aligned_cols=227  Identities=11%  Similarity=0.024  Sum_probs=109.3

Q ss_pred             HhCCC-chHHHHHHHHHHHcCCCCChhh-HHHHHHhccCCC--chhhHHHHHHHHhhcCCCCchHHHHHHHHh----hhc
Q 036340          306 ETNKD-YEGAIKLFIQMQVEGEKPDRHT-FSSILSMSSGIV--DLHLGMQIHQMVTKTVIPDVPINNALITMY----ARC  377 (579)
Q Consensus       306 ~~~~~-~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  377 (579)
                      .+.|. .++|+.++++++..  .|+..| ++.--.++...+  +++.+...++......|.+..+++.-...+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhc
Confidence            34444 45788888887764  344333 333333334444  555666665554444555555554444443    333


Q ss_pred             ---CCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChH--HHHHHHHHhHhCCCCCChhhHHHHHHHhcccCc----
Q 036340          378 ---GAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFAT--EALELFKSMRSFKVLPTYITFISVLSACAHAGL----  446 (579)
Q Consensus       378 ---~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~--~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~----  446 (579)
                         ++++++..+++.+.  .+.+..+|+--..++.+.|.++  ++++.++++.+.. .-|...|..-...+...+.    
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             cccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchh
Confidence               45555555555543  2334444554444555555555  5555555555432 1123344443333444443    


Q ss_pred             --HHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHH-HHHHHHhC-CC----CCCHHHHHHHHHHHhhcCCHHH
Q 036340          447 --VEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLED-AMDLIKGM-PF----EPDKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       447 --~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~-A~~~~~~~-~~----~~~~~~~~~l~~~~~~~~~~~~  517 (579)
                        ++++++.++.++..   .| |...|+.+..++.+.|+..+ +..++.++ ..    ..++..+..++.++.+.|+.++
T Consensus       200 ~~~~eEl~~~~~aI~~---~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          200 NTIDEELNYVKDKIVK---CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             HHHHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhHHHHHHHHHHHHHh---CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHH
Confidence              55555555555432   22 44455555555555554333 33344433 11    1244455555555555555555


Q ss_pred             HHHHHHHHhh-cCCCCCCCchh
Q 036340          518 AQVAAEALMK-VEPENSTPYVL  538 (579)
Q Consensus       518 A~~~~~~~~~-~~p~~~~~~~~  538 (579)
                      |++.++.+.+ .+|.+...|..
T Consensus       277 A~~~~~~l~~~~Dpir~~yW~~  298 (306)
T 3dra_A          277 SRTVYDLLKSKYNPIRSNFWDY  298 (306)
T ss_dssp             HHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHHhccChHHHHHHHH
Confidence            5555555553 45554443333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.79  E-value=2.5e-08  Score=79.69  Aligned_cols=105  Identities=12%  Similarity=0.054  Sum_probs=83.7

Q ss_pred             CCCCChh-hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHH
Q 036340          426 KVLPTYI-TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAV  501 (579)
Q Consensus       426 ~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~  501 (579)
                      .+.|+.. .+..+...+...|++++|...|++++..   .| +...|..++.++...|++++|+..|+++ ...| ++..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~  106 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY---DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTP  106 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHH
Confidence            3456544 6777777888888899998888888754   45 5777888888888889999998888887 3344 6778


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          502 WGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       502 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      |..+..++...|++++|+..|++++++.|+++
T Consensus       107 ~~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          107 VFHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            88888889999999999999999999988753

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.79  E-value=2.1e-08  Score=87.86  Aligned_cols=175  Identities=12%  Similarity=0.018  Sum_probs=134.3

Q ss_pred             cCCCHHHHHHHhccCCC--C-chhHHHHH-------HHHHHHcCCCCChHHHHHHHhhCCCCCc----------------
Q 036340            7 KRREMAKARKLFDEMPQ--R-DVVSWNVM-------ISGYISSRGSGFLEEARYLFDIMPERDC----------------   60 (579)
Q Consensus         7 ~~~~~~~A~~~~~~~~~--~-~~~~~~~l-------~~~~~~~~~~~~~~~A~~~~~~~~~~~~----------------   60 (579)
                      ..+++..|.+.|.++.+  | ....|..+       ..++.....   ..++...+....+-.+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r---~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWY---SRRNFGQLSGSVQISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHH---TGGGTTHHHHTTTCCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHH---HHHHHHHHHHHhcCChhhhhhhhccCCccccc
Confidence            57999999999999986  3 35678777       455555555   5555555555443111                


Q ss_pred             --------chHHHHHHHHHccCCHHHHHHHhhcCC--CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCC-----cchH
Q 036340           61 --------VTWNTVISGYAKTGEMEEALRLFNSMP--ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRD-----SASL  125 (579)
Q Consensus        61 --------~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----~~~~  125 (579)
                              ...-.+...+...|++++|.++|+.+.  .|+......+...+.+.+++++|+..|+......     ...+
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~  174 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAG  174 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHH
Confidence                    123456677889999999999999997  3443467777789999999999999999776532     2467


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHhccCCCCC-CC-chhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          126 SALVSGLIQNGELDEAARVLVKCGSRCDGG-ED-LVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       126 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ..+..++...|++++|+..|++....  .. |. ........+.++.+.|+.++|..+|+++.
T Consensus       175 ~~LG~al~~LG~~~eAl~~l~~a~~g--~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~  235 (282)
T 4f3v_A          175 VAHGVAAANLALFTEAERRLTEANDS--PAGEACARAIAWYLAMARRSQGNESAAVALLEWLQ  235 (282)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTS--TTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHhcC--CCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            78899999999999999999999752  22 33 45578889999999999999999999997

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.79  E-value=2e-08  Score=82.55  Aligned_cols=126  Identities=8%  Similarity=-0.040  Sum_probs=87.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACR  510 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~  510 (579)
                      .+..+...+...|++++|...+++.+..  .+.+...+..++.++...|++++|...+++. .. +.+...+..++.++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4455555666677777777777766643  1224566666777777777777777777665 22 235667777888888


Q ss_pred             hcCCHHHHHHHHHHHhhcCCCCCCCchhhhh--hhhhcCCchHHHHHHHHHH
Q 036340          511 VHNNVELAQVAAEALMKVEPENSTPYVLLYN--MYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~  560 (579)
                      ..|++++|...++++++..|.++..+..+..  .+...|++++|.+.+++..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            8888888888888888888887776644443  4777888888888877653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.79  E-value=6.8e-08  Score=87.88  Aligned_cols=162  Identities=9%  Similarity=-0.052  Sum_probs=106.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-----hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cch
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFKVLPTY-----ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEH  469 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  469 (579)
                      +...+..+...|++++|++.+++..+.......     ..+..+...+...|++++|...+++.+.......+    ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            344556677777888888777776653221111     12333445566777888888888777643111111    236


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC----CCCCC-----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC------CC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM----PFEPD-----KAVWGALLGACRVHNNVELAQVAAEALMKVEPEN------ST  534 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~------~~  534 (579)
                      +..++.+|...|++++|...++++    ...|+     ..++..++..|...|++++|+..+++++++.+..      ..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            677788888888888888887765    11122     2477788888888999999999999888654321      34


Q ss_pred             CchhhhhhhhhcCCchHH-HHHHHHHH
Q 036340          535 PYVLLYNMYADVGRWDDA-NEVRLLMK  560 (579)
Q Consensus       535 ~~~~l~~~~~~~g~~~~A-~~~~~~~~  560 (579)
                      ++..++.+|...|++++| ...+++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            567888888999999999 77677653

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.79  E-value=6.2e-09  Score=86.74  Aligned_cols=126  Identities=9%  Similarity=0.036  Sum_probs=81.2

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHH-hhccCCh-
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDI-VGRHGRL-  483 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~-  483 (579)
                      +...|++++|+..+++..+.. +.+...+..+...|...|++++|...|+++++..  +.+...+..++.+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcc
Confidence            345667777777777776532 2234467777777777788888888777776542  2245566666766 6677776 


Q ss_pred             -HHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          484 -EDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       484 -~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                       ++|...++++ ...| +...+..++..+...|++++|+..++++++..|+++.
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  150 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRIN  150 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSC
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCcc
Confidence             7777777766 2233 4566777777777777777777777777777777644

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.77  E-value=3.1e-08  Score=74.99  Aligned_cols=101  Identities=13%  Similarity=0.070  Sum_probs=83.1

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC--CCCCchhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPE--NSTPYVLLYN  541 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~  541 (579)
                      +...+..++..+...|++++|...+++. .. +.+...+..++.++...|++++|+..++++++..|.  ++.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4566777888888888888888888776 22 336677888888888999999999999999999998  8888899999


Q ss_pred             hhhhc-CCchHHHHHHHHHHhCCCCC
Q 036340          542 MYADV-GRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       542 ~~~~~-g~~~~A~~~~~~~~~~~~~~  566 (579)
                      ++... |++++|.+.+++..+.....
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccCC
Confidence            99999 99999999999987766543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.77  E-value=1.9e-06  Score=77.40  Aligned_cols=211  Identities=12%  Similarity=0.119  Sum_probs=157.2

Q ss_pred             hhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC--CHHHHHHHHHhcc--CCCCeeeHHHHHHHH----Hhc---CChHHH
Q 036340          347 HLGMQIHQMVTKTVIPDVPINNALITMYARCG--AIVEARIIFEEMK--LLKNVVSWNAMIGGC----ASH---GFATEA  415 (579)
Q Consensus       347 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~----~~~---~~~~~A  415 (579)
                      +.|....+....-.|.+..+++.-...+...+  +++++++.++.+.  .+.+..+|+.-...+    ...   ++++++
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~E  129 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYRE  129 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHH
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHH
Confidence            45666677766667777788888888888888  8999999998874  334555666655544    444   788899


Q ss_pred             HHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHH--HHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCC------hHHH
Q 036340          416 LELFKSMRSFKVLP-TYITFISVLSACAHAGLVE--EGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGR------LEDA  486 (579)
Q Consensus       416 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~A  486 (579)
                      +.+++++.+.  .| +..+|..-...+...|.++  +++++++++++.  .+-+...|..-..++.+.|+      ++++
T Consensus       130 L~~~~~~l~~--~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~eE  205 (306)
T 3dra_A          130 FDILEAMLSS--DPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDEE  205 (306)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHHH
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHHH
Confidence            9999999863  45 4447777666777778777  889999988864  13366777766667767666      8888


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHhhcCC-HHHHHHHHHHHhhcC---CCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          487 MDLIKGM-PFEP-DKAVWGALLGACRVHNN-VELAQVAAEALMKVE---PENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       487 ~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ++.++++ ...| |...|+.+...+.+.|. .+....+.+++.+++   |.++.++..++.+|.+.|+.++|.++++.+.
T Consensus       206 l~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          206 LNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             HHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            8888776 3344 78888888888877776 444667788777765   7778888899999999999999999999887


Q ss_pred             h
Q 036340          561 S  561 (579)
Q Consensus       561 ~  561 (579)
                      +
T Consensus       286 ~  286 (306)
T 3dra_A          286 S  286 (306)
T ss_dssp             H
T ss_pred             h
Confidence            5

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.76  E-value=7.2e-08  Score=87.69  Aligned_cols=159  Identities=11%  Similarity=-0.013  Sum_probs=113.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHhHhCCC-CCChh----hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHH
Q 036340          402 MIGGCASHGFATEALELFKSMRSFKV-LPTYI----TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFAS  472 (579)
Q Consensus       402 l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~  472 (579)
                      .+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|+..+++++....-.++    ..++..
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            35667778888888888888775321 12211    2234556677778888888888888763111222    225778


Q ss_pred             HHHHhhccCChHHHHHHHHhCC-----C---CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC------CCCch
Q 036340          473 LVDIVGRHGRLEDAMDLIKGMP-----F---EP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN------STPYV  537 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~~-----~---~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~------~~~~~  537 (579)
                      ++.+|...|++++|...++++-     .   .+ ...++..++..|...|++++|+..+++++++.+..      ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            8888888899888888887761     1   11 23377888899999999999999999998765443      34578


Q ss_pred             hhhhhhhhcCC-chHHHHHHHHHH
Q 036340          538 LLYNMYADVGR-WDDANEVRLLMK  560 (579)
Q Consensus       538 ~l~~~~~~~g~-~~~A~~~~~~~~  560 (579)
                      .++.+|...|+ +++|.+.+++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            89999999995 699999988774

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.76  E-value=2.7e-08  Score=78.15  Aligned_cols=113  Identities=6%  Similarity=-0.001  Sum_probs=79.6

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~  509 (579)
                      .+..+...+...|++++|...+++++.   ..| +...+..++.++...|++++|...++++ .. +.+...+..++.++
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIK---RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            555566666666666666666666653   233 4556666666666777777777666665 22 23566777888888


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ...|++++|+..++++++..|.+..++..++.++...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            888889999999999888888888888888888777663

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.75  E-value=3.9e-07  Score=88.83  Aligned_cols=357  Identities=10%  Similarity=-0.023  Sum_probs=203.9

Q ss_pred             hHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCC-HHHHHHHHHhcCC------CCh
Q 036340          161 AYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGD-VVSAREIFEQMLE------RDT  233 (579)
Q Consensus       161 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~------~~~  233 (579)
                      +|...+..+-. |+++.+..+|++...          ..|+...|...+....+.++ .+....+|+..+.      .+.
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~----------~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~   85 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLK----------KSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSY   85 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHST----------TCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhc----------cCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccH
Confidence            45555555544 889999999999872          25788899888888777663 3445566665532      244


Q ss_pred             hHHHHHHHHHH----hcCChHHHHHHhhcCCC-CCh---hhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHH
Q 036340          234 FSWNTMISGYI----HVLDMEEASNLFVKMPH-PDT---LTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGC  305 (579)
Q Consensus       234 ~~~~~l~~~~~----~~~~~~~a~~~~~~~~~-~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~  305 (579)
                      ..|...+..+.    ..++.+.+..+|+++.. |..   ..|...... ....+...+.+++.+               .
T Consensus        86 ~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~f-E~~~~~~~~~~~~~~---------------~  149 (493)
T 2uy1_A           86 GLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENF-ELELNKITGKKIVGD---------------T  149 (493)
T ss_dssp             HHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHH-HHHHCHHHHHHHHHH---------------H
T ss_pred             HHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHH-HHHhccccHHHHHHH---------------H
Confidence            56666665543    23456667777776652 211   111111111 111112222222221               1


Q ss_pred             HhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCC--C--c---hhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC
Q 036340          306 ETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGI--V--D---LHLGMQIHQMVTKTVIPDVPINNALITMYARCG  378 (579)
Q Consensus       306 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~--~---~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  378 (579)
                        .+.+..|..+++.+...-...+...|...+.--...  +  +   .+.+..+++......+.++.+|...+..+.+.|
T Consensus       150 --~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~  227 (493)
T 2uy1_A          150 --LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYYAEEVYFFYSEYLIGIG  227 (493)
T ss_dssp             --HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTT
T ss_pred             --hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcC
Confidence              122333444444443210011223344433322111  1  1   234556777755566777888998899899999


Q ss_pred             CHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCC---------CCC-C--hhhHHHHHHHhcccC
Q 036340          379 AIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFK---------VLP-T--YITFISVLSACAHAG  445 (579)
Q Consensus       379 ~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---------~~p-~--~~~~~~l~~~~~~~~  445 (579)
                      +.+.|..++++.. . |.......   .|....+.++.   ++.+.+.-         ..+ .  ...|...+....+.+
T Consensus       228 ~~~~ar~i~erAi~~-P~~~~l~~---~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~  300 (493)
T 2uy1_A          228 QKEKAKKVVERGIEM-SDGMFLSL---YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKR  300 (493)
T ss_dssp             CHHHHHHHHHHHHHH-CCSSHHHH---HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhC-CCcHHHHH---HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcC
Confidence            9999999999864 4 54432211   22222122222   22222110         011 1  134566666666778


Q ss_pred             cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccC-ChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Q 036340          446 LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHG-RLEDAMDLIKGM--PFEPDKAVWGALLGACRVHNNVELAQVAA  522 (579)
Q Consensus       446 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  522 (579)
                      +.+.|..+|+++ +. . ..+...|...+..-...+ +.+.|..+|+..  ..+.++..|...+......|+.+.|..+|
T Consensus       301 ~~~~AR~i~~~A-~~-~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yid~e~~~~~~~~aR~l~  377 (493)
T 2uy1_A          301 GLELFRKLFIEL-GN-E-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFFLFLLRIGDEENARALF  377 (493)
T ss_dssp             CHHHHHHHHHHH-TT-S-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             CHHHHHHHHHHh-hC-C-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            899999999988 32 1 123445544444333344 699999999877  23224556777777778899999999999


Q ss_pred             HHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          523 EALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       523 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +++.    .....|...+..-...|+.+.+..++++..
T Consensus       378 er~~----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          378 KRLE----KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHSC----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHH----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            9983    334456676666777899999999888775

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.74  E-value=1.2e-08  Score=78.44  Aligned_cols=97  Identities=13%  Similarity=0.011  Sum_probs=80.1

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      ..+..++..+.+.|++++|+..++++ ...| +...|..+..++...|++++|+..|+++++++|+++.++..++.+|..
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34556777888888999998888887 3344 677888888889999999999999999999999999999999999999


Q ss_pred             cCCchHHHHHHHHHHhCCC
Q 036340          546 VGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       546 ~g~~~~A~~~~~~~~~~~~  564 (579)
                      .|++++|...++++.+...
T Consensus        98 ~g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHHC---
T ss_pred             cCCHHHHHHHHHHHHHhCc
Confidence            9999999999998876543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.73  E-value=1.8e-08  Score=93.45  Aligned_cols=124  Identities=12%  Similarity=0.064  Sum_probs=98.7

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----------------cchhHHHHHHhhccCChHHHHHHHHhC-CC
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----------------IEHFASLVDIVGRHGRLEDAMDLIKGM-PF  495 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  495 (579)
                      .+..+...+...|++++|+..|++++..   .|+                ...+..++.+|.+.|++++|+..++++ ..
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5555666666667777777766666543   232                367888888999999999999998887 33


Q ss_pred             CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHH-HHHHHHH
Q 036340          496 EP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDA-NEVRLLM  559 (579)
Q Consensus       496 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~  559 (579)
                      .| +...+..+..++...|++++|+..|+++++++|++..++..++.++...|++++| ...++.|
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34 6788899999999999999999999999999999999999999999999999998 4455554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.73  E-value=3.2e-08  Score=77.42  Aligned_cols=117  Identities=11%  Similarity=0.025  Sum_probs=89.7

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      ..+..+...+...|++++|...+++++..  .+.+...+..++.++...|++++|...+++. ...| +...+..++..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            35666666777778888888887777653  1235566777777778888888888877776 2233 567888888888


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCch
Q 036340          510 RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWD  550 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  550 (579)
                      ...|++++|...++++++..|+++.++..++.++...|+++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999998888888888888888753

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.72  E-value=1.2e-08  Score=81.74  Aligned_cols=109  Identities=14%  Similarity=0.085  Sum_probs=88.2

Q ss_pred             HHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          453 HFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       453 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      .+++++   .+.| +...+..++..+.+.|++++|+..|+++ ...| +...|..+..++...|++++|+..|+++++++
T Consensus         9 ~~~~al---~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            9 TIAMLN---EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             SHHHHT---TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hHHHHH---cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            344444   3445 4566777888888999999999998887 3334 77788888888899999999999999999999


Q ss_pred             CCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          530 PENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       530 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      |+++.++..++.+|...|++++|.+.+++..+...
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  120 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQELIA  120 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999988876543

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.72  E-value=3.5e-07  Score=83.16  Aligned_cols=160  Identities=8%  Similarity=-0.066  Sum_probs=120.7

Q ss_pred             HHHHHhhhcCCHHHHHHHHHhccC-CC---Ce----eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-C----hhhHH
Q 036340          369 ALITMYARCGAIVEARIIFEEMKL-LK---NV----VSWNAMIGGCASHGFATEALELFKSMRSFKVLP-T----YITFI  435 (579)
Q Consensus       369 ~l~~~~~~~~~~~~A~~~~~~~~~-~~---~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~----~~~~~  435 (579)
                      ..+..+...|++++|..++++... .+   +.    ..+..+...+...+++++|+..+++..+..... +    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346778889999999999998752 12   11    123346666777889999999999998743222 2    12688


Q ss_pred             HHHHHhcccCcHHHHHHHHHHhHHhhC----CCC-CcchhHHHHHHhhccCChHHHHHHHHhC-------CCCCC-HHHH
Q 036340          436 SVLSACAHAGLVEEGRQHFKSMVNEYG----IEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-------PFEPD-KAVW  502 (579)
Q Consensus       436 ~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~~-~~~~  502 (579)
                      .+...|...|++++|..+++++++...    ..+ ...++..++.+|.+.|++++|...+++.       ...+. ...+
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            899999999999999999999875321    112 2347788999999999999999998876       12222 5688


Q ss_pred             HHHHHHHhhcC-CHHHHHHHHHHHhhc
Q 036340          503 GALLGACRVHN-NVELAQVAAEALMKV  528 (579)
Q Consensus       503 ~~l~~~~~~~~-~~~~A~~~~~~~~~~  528 (579)
                      ..++.++...| ++++|...+++++.+
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            88999999999 569999999999864

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.71  E-value=5e-08  Score=75.53  Aligned_cols=114  Identities=14%  Similarity=0.156  Sum_probs=82.2

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHH
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGAC  509 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~  509 (579)
                      ..+..+...+...|++++|..++++++..  .+.+...+..++.++.+.|++++|...++++ . .+.+...+..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            35666666777777777777777777653  1234556667777777777777777777766 2 233566778888888


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVG  547 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  547 (579)
                      ...|++++|...++++++..|+++.++..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            88899999999999999888888877777777766544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.70  E-value=2.7e-07  Score=83.91  Aligned_cols=164  Identities=7%  Similarity=-0.094  Sum_probs=122.1

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCe-------eeHHHHHHHHHhcCChHHHHHHHHHhHhCCC---CCC--h
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK-LLKNV-------VSWNAMIGGCASHGFATEALELFKSMRSFKV---LPT--Y  431 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~p~--~  431 (579)
                      ..+...+..+...|++++|.+.+.+.. ..+..       ..+..+...+...|++++|+..+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            344567778889999999999987653 22221       1234456667788999999999999875321   121  3


Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-----cchhHHHHHHhhccCChHHHHHHHHhC-C------CCC-C
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-----IEHFASLVDIVGRHGRLEDAMDLIKGM-P------FEP-D  498 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~------~~~-~  498 (579)
                      .+++.+...|...|++++|..+++++++.....|+     ..++..++.+|...|++++|+..+++. .      ... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            37888889999999999999999998732211222     257889999999999999999999876 1      111 2


Q ss_pred             HHHHHHHHHHHhhcCCHHHH-HHHHHHHhhc
Q 036340          499 KAVWGALLGACRVHNNVELA-QVAAEALMKV  528 (579)
Q Consensus       499 ~~~~~~l~~~~~~~~~~~~A-~~~~~~~~~~  528 (579)
                      ..++..++.++...|++++| ...+++++.+
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            56788889999999999999 7889988753

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.69  E-value=2.5e-08  Score=77.53  Aligned_cols=91  Identities=12%  Similarity=0.020  Sum_probs=46.4

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      ..++..+.+.|++++|+..|++. ...| +...|..++.++...|++++|+..++++++++|+++.++..++.++...|+
T Consensus         8 ~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~   87 (126)
T 3upv_A            8 RLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKE   87 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhC
Confidence            33444444444444444444443 1122 344555555555555555555555555555555555555555555555555


Q ss_pred             chHHHHHHHHHHh
Q 036340          549 WDDANEVRLLMKS  561 (579)
Q Consensus       549 ~~~A~~~~~~~~~  561 (579)
                      +++|...+++..+
T Consensus        88 ~~~A~~~~~~al~  100 (126)
T 3upv_A           88 YASALETLDAART  100 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555443

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.64  E-value=5.4e-08  Score=87.66  Aligned_cols=92  Identities=12%  Similarity=0.015  Sum_probs=42.5

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      +..+...+...|++++|+..|++++.   ..|.+...+..++.++...|++++|...++++..        . -+.+...
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~--------~-~p~~~~~   74 (281)
T 2c2l_A            7 LKEQGNRLFVGRKYPEAAACYGRAIT---RNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--------L-DGQSVKA   74 (281)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--------S-CTTCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--------h-CCCCHHH
Confidence            33344444444555555555554444   2233444444555555555555555555554441        1 0223444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      +..++.++...|++++|...|++.
T Consensus        75 ~~~lg~~~~~~g~~~~A~~~~~~a   98 (281)
T 2c2l_A           75 HFFLGQCQLEMESYDEAIANLQRA   98 (281)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444455555555555555555444

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.64  E-value=3.1e-08  Score=76.99  Aligned_cols=91  Identities=11%  Similarity=0.006  Sum_probs=47.3

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC-------Cchhhhh
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST-------PYVLLYN  541 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~-------~~~~l~~  541 (579)
                      ..++..+.+.|++++|+..|++. ...| +...|..++.++...|++++|+..+++++++.|++..       +|..++.
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~   91 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRAGN   91 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHHHH
Confidence            34444455555555555555444 2222 3445555555555556666666666666555555443       2344455


Q ss_pred             hhhhcCCchHHHHHHHHHHh
Q 036340          542 MYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       542 ~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ++...|++++|.+.+++..+
T Consensus        92 ~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           92 AFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHh
Confidence            55555566666666555543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.62  E-value=3.1e-07  Score=78.21  Aligned_cols=127  Identities=12%  Similarity=0.030  Sum_probs=57.9

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhh---CCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-C---CCC-C----H
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEY---GIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-P---FEP-D----K  499 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~~-~----~  499 (579)
                      ++..+...+...|++++|...+++.+...   +..| ....+..++.++...|++++|...+++. .   ..+ +    .
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  107 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAAS  107 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHH
Confidence            44444444444555555555544443311   0111 1233444445555555555555554443 0   011 1    1


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC------CCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPENS------TPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ..+..+...+...|++++|...++++++..+...      .++..++.++...|++++|...+++.
T Consensus       108 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          108 ANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            2344445555555666666666655554321111      11345555666666666666655544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.62  E-value=4.1e-08  Score=80.50  Aligned_cols=107  Identities=13%  Similarity=0.007  Sum_probs=92.7

Q ss_pred             hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 036340          431 YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLG  507 (579)
Q Consensus       431 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~  507 (579)
                      ...+..+...+...|++++|+..|++.++.   .| +...+..++.+|.+.|++++|+..+++. ...| +...|..+..
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            447888888999999999999999999864   44 6788899999999999999999999987 3344 6789999999


Q ss_pred             HHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          508 ACRVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      ++...|++++|+..|+++++++|+++..+...+
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            999999999999999999999999988655544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.61  E-value=4.4e-08  Score=77.97  Aligned_cols=101  Identities=12%  Similarity=0.034  Sum_probs=83.1

Q ss_pred             CCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          463 IEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       463 ~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      ..| +...+..++..+.+.|++++|+..|+++ ...| +...|..+..++...|++++|+..|+++++++|+++.++..+
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l   92 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHA   92 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHH
Confidence            344 4556677788888899999999988887 3334 677888888888889999999999999999999998888999


Q ss_pred             hhhhhhcCCchHHHHHHHHHHhCC
Q 036340          540 YNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       540 ~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +.+|...|++++|.+.+++..+..
T Consensus        93 g~~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           93 AECHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999999999999999998876554

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.61  E-value=9.9e-08  Score=75.39  Aligned_cols=100  Identities=6%  Similarity=-0.112  Sum_probs=63.5

Q ss_pred             ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 036340          430 TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLG  507 (579)
Q Consensus       430 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~  507 (579)
                      +...+..+...+...|++++|...|+..+..  .+.+...+..++.++...|++++|...+++. ...| +...+..++.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            3446666666777777777777777776643  1224556666666666777777776666665 2223 4556666666


Q ss_pred             HHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          508 ACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      ++...|++++|+..|+++++..|+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChh
Confidence            666667777777777777666665

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.56  E-value=1.4e-07  Score=80.17  Aligned_cols=96  Identities=10%  Similarity=-0.070  Sum_probs=72.0

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      ..+..++.++...|++++|+..+++. ...| +...+..++.++...|++++|+..|++++++.|+++.++..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            56677888888888888888888876 3333 677888889999999999999999999999999999999999999999


Q ss_pred             cCCchHHH-HHHHHHHhCC
Q 036340          546 VGRWDDAN-EVRLLMKSNN  563 (579)
Q Consensus       546 ~g~~~~A~-~~~~~~~~~~  563 (579)
                      .|+.+++. ..++.+...+
T Consensus       169 ~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            88888887 5555554433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.56  E-value=1.5e-07  Score=71.94  Aligned_cols=107  Identities=13%  Similarity=0.043  Sum_probs=60.7

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      ..+..+...+...|++++|...++..+..  .+.+...+..++.++...|++++|...+++. ...| +...+..++.++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34555556666666666666666666543  1224455555666666666666666666554 2222 445555555666


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          510 RVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      ...|++++|...++++++..|+++.++..++
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~  113 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANNPQLKEGLQ  113 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            6666666666666666666666554444443

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.56  E-value=1.9e-07  Score=77.57  Aligned_cols=124  Identities=11%  Similarity=0.076  Sum_probs=87.6

Q ss_pred             hcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HhhcCCH--
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGA-CRVHNNV--  515 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~-~~~~~~~--  515 (579)
                      +...|++++|...++..+..  .+.+...+..++.++...|++++|...++++ ...| +...+..++.+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            45667788888888777654  1235567777888888888888888888776 2223 56677777777 6677777  


Q ss_pred             HHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          516 ELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      ++|+..++++++.+|+++.++..++.+|...|++++|...++++.+.....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            888888888888888887778888888888888888888888877665443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.56  E-value=1.8e-07  Score=73.27  Aligned_cols=99  Identities=13%  Similarity=0.065  Sum_probs=89.1

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +...+..++..+...|++++|...+++. ...| +...+..++..+...|++++|+..++++++..|.++.++..++.++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4567788899999999999999999987 4444 7788999999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHHHhCCC
Q 036340          544 ADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ...|++++|.+.+++..+...
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p  115 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDS  115 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHhhHHHHHHHHHHHHHhCC
Confidence            999999999999999876543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.54  E-value=2.8e-07  Score=70.38  Aligned_cols=96  Identities=9%  Similarity=0.102  Sum_probs=63.2

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PFE-PDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      ..+..++..+...|++++|...+++. ... .+...+..++..+...|++++|...++++++..|+++.++..++.++..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~   84 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEF   84 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34455666666777777777776665 222 2556666666666667777777777777777777766666777777777


Q ss_pred             cCCchHHHHHHHHHHhCC
Q 036340          546 VGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       546 ~g~~~~A~~~~~~~~~~~  563 (579)
                      .|++++|.+.+++..+..
T Consensus        85 ~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           85 LNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             TTCHHHHHHHHHHHHTTC
T ss_pred             HhhHHHHHHHHHHHHHcC
Confidence            777777777777666543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.53  E-value=4.2e-07  Score=72.80  Aligned_cols=108  Identities=9%  Similarity=-0.015  Sum_probs=64.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALL  506 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~  506 (579)
                      .+..+...+...|++++|...|++.++   ..|+    ...+..++.++...|++++|+..+++. ...| +...+..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            444555555555666666665555542   2333    344555555666666666666665554 2222 455666677


Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      .++...|++++|...++++++..|+++.++..+..+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            7777777777777777777777777766555554443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.52  E-value=2.7e-07  Score=73.94  Aligned_cols=99  Identities=10%  Similarity=0.026  Sum_probs=89.2

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      +...+..++..+...|++++|...+++. ...|+    ...+..+..++...|++++|+..++++++..|+++.++..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            4567788889999999999999999987 56676    678888889999999999999999999999999999999999


Q ss_pred             hhhhhcCCchHHHHHHHHHHhCCC
Q 036340          541 NMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       541 ~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .++...|++++|...+++..+...
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999887553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.52  E-value=2.6e-07  Score=75.58  Aligned_cols=94  Identities=12%  Similarity=0.059  Sum_probs=74.1

Q ss_pred             CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHH
Q 036340          395 NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP-TYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFAS  472 (579)
Q Consensus       395 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~  472 (579)
                      +...+..+...+...|++++|+..|++..+.  .| +...+..+..+|...|++++|+..++++++.   .| +...+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~   84 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVV---DPKYSKAWSR   84 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            3445777888888888888888888888864  45 4457778888888888888888888888754   34 5677888


Q ss_pred             HHHHhhccCChHHHHHHHHhC
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      ++.++...|++++|...|++.
T Consensus        85 lg~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           85 LGLARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHH
Confidence            888888888888888888876

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.52  E-value=4.8e-07  Score=77.05  Aligned_cols=154  Identities=12%  Similarity=-0.047  Sum_probs=95.6

Q ss_pred             hcCCHHHHHHHHHhccCC--CCeeeHHHHHHHHHhcCChHHHHHHHHHhHh----CCCCCC-hhhHHHHHHHhcccCcHH
Q 036340          376 RCGAIVEARIIFEEMKLL--KNVVSWNAMIGGCASHGFATEALELFKSMRS----FKVLPT-YITFISVLSACAHAGLVE  448 (579)
Q Consensus       376 ~~~~~~~A~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~p~-~~~~~~l~~~~~~~~~~~  448 (579)
                      ..|++++|.+.++.+...  .....+..+...+...|++++|+..+++..+    .+..|. ..++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            456777777733322212  2344566777777777888877777777654    122222 235666777777888888


Q ss_pred             HHHHHHHHhHHhhCCCC-C----cchhHHHHHHhhccCChHHHHHHHHhC----CCCCC----HHHHHHHHHHHhhcCCH
Q 036340          449 EGRQHFKSMVNEYGIEP-R----IEHFASLVDIVGRHGRLEDAMDLIKGM----PFEPD----KAVWGALLGACRVHNNV  515 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~----~~~~~~l~~~~~~~~~~  515 (579)
                      +|...+++.+......+ +    ...+..++.++...|++++|...+++.    ...++    ..++..+..++...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            88888877665322122 1    234667777788888888888777765    11112    22456677778888888


Q ss_pred             HHHHHHHHHHhhcC
Q 036340          516 ELAQVAAEALMKVE  529 (579)
Q Consensus       516 ~~A~~~~~~~~~~~  529 (579)
                      ++|...+++++++.
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888888887643

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.50  E-value=1.9e-07  Score=72.52  Aligned_cols=108  Identities=7%  Similarity=-0.034  Sum_probs=73.7

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACR  510 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~  510 (579)
                      .+..+...+...|++++|+..|++.++.  .+.+...+..++.++.+.|++++|+..+++. ...| +...|..++.++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            4555566667777777777777776643  1224566677777777777777777777766 3333 5667777888888


Q ss_pred             hcCCHHHHHHHHHHHhhcC------CCCCCCchhhhhh
Q 036340          511 VHNNVELAQVAAEALMKVE------PENSTPYVLLYNM  542 (579)
Q Consensus       511 ~~~~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~  542 (579)
                      ..|++++|+..|+++++++      |.+..++..+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~  121 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  121 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHH
Confidence            8888888888888888888      6665555544443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.50  E-value=1.8e-07  Score=86.69  Aligned_cols=148  Identities=9%  Similarity=-0.018  Sum_probs=78.2

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHh
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV  477 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  477 (579)
                      .+..+...+.+.|++++|+..|++....  .|+...       +...++++++...+.           ...+..++.+|
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~~  240 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHHH
Confidence            3555566666677777777777776642  344321       223334444332221           13678899999


Q ss_pred             hccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh-hhhcCCchHHHH
Q 036340          478 GRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM-YADVGRWDDANE  554 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~-~~~~g~~~~A~~  554 (579)
                      .+.|++++|+..+++. ...| +...|..+..++...|++++|+..|+++++++|+++.++..|..+ ....+..+++..
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~  320 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKE  320 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887 3344 778999999999999999999999999999999999999998887 445677888889


Q ss_pred             HHHHHHhCCCC
Q 036340          555 VRLLMKSNNIK  565 (579)
Q Consensus       555 ~~~~~~~~~~~  565 (579)
                      .++++......
T Consensus       321 ~~~~~l~~~p~  331 (338)
T 2if4_A          321 MYKGIFKGKDE  331 (338)
T ss_dssp             -----------
T ss_pred             HHHHhhCCCCC
Confidence            99988765543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.49  E-value=1.7e-07  Score=73.17  Aligned_cols=97  Identities=13%  Similarity=0.042  Sum_probs=60.8

Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-c---chhHHHHHHhhccCChHHHHHHHHhC-CCCC-C---HHHHHHH
Q 036340          435 ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-I---EHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-D---KAVWGAL  505 (579)
Q Consensus       435 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~---~~~~~~l  505 (579)
                      ..+...+...|++++|...|+.+++.   .|+ .   ..+..++.++...|++++|...++++ ...| +   ...+..+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l   82 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHH
Confidence            34455666777777777777777654   232 2   35566666777777777777776665 2223 2   4456666


Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          506 LGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      +.++...|++++|+..|+++++..|+++.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCChH
Confidence            66666777777777777777777766543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.48  E-value=3e-07  Score=71.00  Aligned_cols=98  Identities=17%  Similarity=0.214  Sum_probs=87.5

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      ...+..++..+...|++++|...++++ . .+.+...+..++..+...|++++|+..++++.+..|.++.++..++.++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            466788889999999999999999987 2 23467788999999999999999999999999999999999999999999


Q ss_pred             hcCCchHHHHHHHHHHhCCC
Q 036340          545 DVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       545 ~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ..|++++|...++++.+...
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~  108 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELDP  108 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT
T ss_pred             HhcCHHHHHHHHHHHHHhCC
Confidence            99999999999999876553

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.46  E-value=1.6e-07  Score=74.07  Aligned_cols=105  Identities=13%  Similarity=0.031  Sum_probs=55.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCC-CHHHHHHHHHHHhh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEP-DKAVWGALLGACRV  511 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~  511 (579)
                      .+......+...|++++|+..|++.++-..-.|+..                       .....| +...|..+..++.+
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~-----------------------a~~~~~~~a~a~~n~g~al~~   69 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEE-----------------------AFDHAGFDAFCHAGLAEALAG   69 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTS-----------------------CCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchh-----------------------hhhhccchHHHHHHHHHHHHH
Confidence            455566677788888888888888875422211110                       000000 12244555555555


Q ss_pred             cCCHHHHHHHHHHHhhc-------CCCCCCCc----hhhhhhhhhcCCchHHHHHHHHHH
Q 036340          512 HNNVELAQVAAEALMKV-------EPENSTPY----VLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       512 ~~~~~~A~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .|++++|+..+++++++       +|++..+|    +..+.++...|++++|++.|++..
T Consensus        70 Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           70 LRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555       55555555    555555555555555555555543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.45  E-value=1.2e-06  Score=66.07  Aligned_cols=99  Identities=16%  Similarity=0.074  Sum_probs=69.7

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC---CHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP---DKAVWGALLGA  508 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~---~~~~~~~l~~~  508 (579)
                      .+..+...+...|++++|...++++++.  .+.+...+..++.++...|++++|...+++. ...|   +...+..+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            5555666666777777777777776643  1224556667777777777777777777765 2223   46677888888


Q ss_pred             Hhhc-CCHHHHHHHHHHHhhcCCCCC
Q 036340          509 CRVH-NNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       509 ~~~~-~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      +... |++++|+..++++++..|.++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            8888 888888888888888888764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.45  E-value=3.1e-06  Score=81.88  Aligned_cols=190  Identities=7%  Similarity=-0.063  Sum_probs=135.8

Q ss_pred             HHHhhhcCCHHHHHHHHHhcc-CCCC---e---------------eeHHHHHHHHHhcCChHHHHHHHHHhHhCCC-CCC
Q 036340          371 ITMYARCGAIVEARIIFEEMK-LLKN---V---------------VSWNAMIGGCASHGFATEALELFKSMRSFKV-LPT  430 (579)
Q Consensus       371 ~~~~~~~~~~~~A~~~~~~~~-~~~~---~---------------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~  430 (579)
                      +..+.+.|++++|.+.|..+. ..|+   .               .++..++..|...|++++|.+.+.++...-- .++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            445667788888888887763 1111   1               1266788899999999999999988764211 111


Q ss_pred             h----hhHHHHHHHhcccCcHHHHHHHHHHhHHhh---CCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-------CC
Q 036340          431 Y----ITFISVLSACAHAGLVEEGRQHFKSMVNEY---GIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-------PF  495 (579)
Q Consensus       431 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~  495 (579)
                      .    .+.+.+...+...|+++.|..+++......   +..+ ...++..++..|...|++++|..+++++       ..
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    133444456677899999999988775432   2222 2456778999999999999999998876       12


Q ss_pred             CC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC-------CCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          496 EP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS-------TPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       496 ~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      ++ ....+..++..|...|++++|...+++++...|...       ..+..++..+...|++++|...+.+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            23 245778888999999999999999999987543322       235677788889999999998887664

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.44  E-value=7.1e-07  Score=86.51  Aligned_cols=127  Identities=12%  Similarity=0.061  Sum_probs=90.8

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-------------CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-------------RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-  497 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-  497 (579)
                      .+..+...+.+.|++++|+..|+++++.....+             ....|..++.+|.+.|++++|+..++++ ...| 
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            444455555555556666555555554211111             1467788888899999999999988887 3334 


Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHH-HHHH
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEV-RLLM  559 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~  559 (579)
                      +...|..+..++...|++++|+..|+++++++|++..++..++.++...|++++|... ++.|
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778889999999999999999999999999999999999999999999999888643 4443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.44  E-value=3.7e-07  Score=71.22  Aligned_cols=99  Identities=11%  Similarity=0.025  Sum_probs=88.2

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +...+..++..+...|++++|...+++. .. +.+...+..++..+...|++++|+..++++++..|+++.++..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            4566778888999999999999999987 33 347788899999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHHHhCCC
Q 036340          544 ADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ...|++++|...+++..+...
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p  111 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDP  111 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST
T ss_pred             HHhCCHHHHHHHHHHHHhcCc
Confidence            999999999999999887653

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.43  E-value=1.6e-06  Score=70.97  Aligned_cols=127  Identities=9%  Similarity=-0.010  Sum_probs=80.5

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHh
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV  477 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  477 (579)
                      .+..+...+...|++++|+..|++..+.. +.+..++..+..++...|++++|...+++.+..  .+.+...+..++.++
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            35556666667777777777777766532 223446666666777777777777777777653  122456667777777


Q ss_pred             hccCChHHHHHHHHhC-CCCC-CHHHHHHHH--HHHhhcCCHHHHHHHHHHHhh
Q 036340          478 GRHGRLEDAMDLIKGM-PFEP-DKAVWGALL--GACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~--~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      ...|++++|...++++ ...| +...+..+.  ..+...|++++|+..+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            7777777777777765 2223 444443333  336667888888888877764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.41  E-value=5.2e-07  Score=69.20  Aligned_cols=98  Identities=19%  Similarity=0.172  Sum_probs=68.5

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGAC  509 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~  509 (579)
                      .+..+...+...|++++|+..++++++.   .| +...+..++.++...|++++|+..+++. ...| +...+..+..++
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3445556667777888888877777653   34 5667777777778888888888877776 3344 566788888888


Q ss_pred             hhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          510 RVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       510 ~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      ...|++++|+..++++++.+|+++
T Consensus        96 ~~~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC------
T ss_pred             HHcCCHHHHHHHHHHHHHhCcCCC
Confidence            888899999999999988888764

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.40  E-value=3.5e-07  Score=89.05  Aligned_cols=118  Identities=9%  Similarity=-0.008  Sum_probs=89.3

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      +...+...|++++|.+.++++++.   .| +...+..++.+|.+.|++++|+..++++ ...| +...+..++.++...|
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            344566778888888888887754   34 4677778888888888888888888776 3344 5678888888888889


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhh--hhhcCCchHHHHHHH
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNM--YADVGRWDDANEVRL  557 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~  557 (579)
                      ++++|+..++++++..|++..++..++.+  +.+.|++++|.+.++
T Consensus        89 ~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99999999999998888888888888777  788888898888887

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.39  E-value=5.2e-07  Score=71.14  Aligned_cols=97  Identities=8%  Similarity=-0.026  Sum_probs=64.4

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +...+..++..+...|++++|...+++. ...| +...+..++.++...|++++|+..++++++.+|+++.++..++.+|
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            4555666666677777777777776665 2223 4556666666666777777777777777777777666677777777


Q ss_pred             hhcCCchHHHHHHHHHHhC
Q 036340          544 ADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~  562 (579)
                      ...|++++|...++++.+.
T Consensus        88 ~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHH
Confidence            7777777777777666543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.38  E-value=3.6e-07  Score=72.02  Aligned_cols=113  Identities=11%  Similarity=-0.074  Sum_probs=80.2

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-------------hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCC
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-------------ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIE  464 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  464 (579)
                      .+......+.+.|++++|+..|++.++.  .|+.             ..|..+..++...|++++|+..+++.+.-    
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l----   86 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY----   86 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----
Confidence            4566778889999999999999999964  5551             14444445555555555555555544321    


Q ss_pred             CCcchhHHHHHHhhccCChHHHHHHHHh-CCCCCC-HHHH----HHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchh
Q 036340          465 PRIEHFASLVDIVGRHGRLEDAMDLIKG-MPFEPD-KAVW----GALLGACRVHNNVELAQVAAEALMKVEPENSTPYVL  538 (579)
Q Consensus       465 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~~~-~~~~----~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  538 (579)
                                               |.+ .+..|+ ...|    .....++...|++++|+..|++++++.|++..+...
T Consensus        87 -------------------------~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~  141 (159)
T 2hr2_A           87 -------------------------FNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPG  141 (159)
T ss_dssp             -------------------------HHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTT
T ss_pred             -------------------------hhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHH
Confidence                                     111 123664 5577    888999999999999999999999999999887766


Q ss_pred             hhh
Q 036340          539 LYN  541 (579)
Q Consensus       539 l~~  541 (579)
                      +..
T Consensus       142 ~~~  144 (159)
T 2hr2_A          142 KER  144 (159)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            644

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.38  E-value=6.7e-05  Score=68.16  Aligned_cols=169  Identities=9%  Similarity=0.020  Sum_probs=77.2

Q ss_pred             CCCchHHHHHHHHHHHcCCCCCh-hhHHHHHHhccCCC-chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhc-C-CHHHH
Q 036340          308 NKDYEGAIKLFIQMQVEGEKPDR-HTFSSILSMSSGIV-DLHLGMQIHQMVTKTVIPDVPINNALITMYARC-G-AIVEA  383 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~A  383 (579)
                      .+..++|++++++++...  |+. ..++.--..+...+ .++.+..+++......+.+..+++....++... + +++++
T Consensus        67 ~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           67 EEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             CCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHH
Confidence            344455666666665532  222 22222222222223 244444444443344444444555444444444 4 55566


Q ss_pred             HHHHHhcc--CCCCeeeHHHHHHHHHhcCChH--------HHHHHHHHhHhCCCCCChhhHHHHHHHhcccCc-------
Q 036340          384 RIIFEEMK--LLKNVVSWNAMIGGCASHGFAT--------EALELFKSMRSFKVLPTYITFISVLSACAHAGL-------  446 (579)
Q Consensus       384 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~--------~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-------  446 (579)
                      +++++.+.  .+.+..+|+--..++.+.|.++        ++++.++++.+.. .-|...|+.....+...+.       
T Consensus       145 L~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          145 IEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHH
Confidence            66665553  2223344444444443333333        6666666666432 2233355555444444443       


Q ss_pred             HHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCC
Q 036340          447 VEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGR  482 (579)
Q Consensus       447 ~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  482 (579)
                      ++++++.+++++..   .| |...|..+-..+.+.|+
T Consensus       224 ~~eELe~~~~aI~~---~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          224 LQDELIYILKSIHL---IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCC
Confidence            45566666555532   33 44455444444444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.37  E-value=1.2e-05  Score=73.12  Aligned_cols=213  Identities=12%  Similarity=0.089  Sum_probs=152.3

Q ss_pred             chhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC-CHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhc-C-ChHHHHHHH
Q 036340          345 DLHLGMQIHQMVTKTVIPDVPINNALITMYARCG-AIVEARIIFEEMK--LLKNVVSWNAMIGGCASH-G-FATEALELF  419 (579)
Q Consensus       345 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-~-~~~~A~~~~  419 (579)
                      ..+.|..+.+......+.+..+++.....+...| .+++++.+++.+.  .+.+..+|+.-...+.+. + +++++++++
T Consensus        69 ~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           69 KSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            3456777777777777788888888888888888 5999999999875  334556777777777666 6 889999999


Q ss_pred             HHhHhCCCCC-ChhhHHHHHHHhcccCcHH--------HHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCC-------h
Q 036340          420 KSMRSFKVLP-TYITFISVLSACAHAGLVE--------EGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGR-------L  483 (579)
Q Consensus       420 ~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~  483 (579)
                      +++.+  ..| |..+|..-...+...|.++        +++++++++++.  .+-+...|+....++.+.++       +
T Consensus       149 ~k~L~--~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          149 HGSLL--PDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHTS--SCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHH--hCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHHH
Confidence            99995  355 4447776666666666666        899999999865  23367788888888877776       6


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCH--------------------HHHHHHHHHHhhcC------CCCCCC
Q 036340          484 EDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNV--------------------ELAQVAAEALMKVE------PENSTP  535 (579)
Q Consensus       484 ~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~--------------------~~A~~~~~~~~~~~------p~~~~~  535 (579)
                      +++++.++++ ...| |...|+.+...+.+.|..                    .....+...+....      +..+.+
T Consensus       225 ~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          225 QDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            7888888776 3344 788888877777665543                    23333333333222      345556


Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      +..|+.+|.+.|+.++|.++++.+.+
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            88999999999999999999999864

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.36  E-value=1.3e-07  Score=72.22  Aligned_cols=91  Identities=12%  Similarity=0.082  Sum_probs=55.7

Q ss_pred             ccCcHHHHHHHHHHhHHhhCC-CC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGI-EP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~-~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      ..|++++|+..|+++++. +. .| +...+..++.+|...|++++|+..++++ ...| +...+..++.++...|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHH
Confidence            356777777777777632 10 23 3456666777777777777777777666 2233 455666666777777777777


Q ss_pred             HHHHHHHhhcCCCCCC
Q 036340          519 QVAAEALMKVEPENST  534 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~  534 (579)
                      +..++++++..|+++.
T Consensus        81 ~~~~~~al~~~p~~~~   96 (117)
T 3k9i_A           81 VELLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHhCCCcHH
Confidence            7777777777776654

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.36  E-value=1.9e-06  Score=66.75  Aligned_cols=103  Identities=15%  Similarity=0.085  Sum_probs=79.7

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc---
Q 036340          124 SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR---  200 (579)
Q Consensus       124 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---  200 (579)
                      ++..+...+.+.|++++|++.|+++++   ..|.+..+|..++.+|...|++++|++.+++.+...+      ...+   
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~---~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~------~~~~~~~   80 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIE---LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGR------ETRADYK   80 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH------HTTCCHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCc------ccchhhH
Confidence            456788889999999999999999988   4567788999999999999999999999998872210      0011   


Q ss_pred             -chHHHHHHHHHHHhcCCHHHHHHHHHhcCC--CChhH
Q 036340          201 -NIVSWNSMIMCYAKAGDVVSAREIFEQMLE--RDTFS  235 (579)
Q Consensus       201 -~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~  235 (579)
                       -..+|..+..++...|++++|++.|++.++  +++..
T Consensus        81 ~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~  118 (127)
T 4gcn_A           81 LIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRDPEL  118 (127)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCHHH
Confidence             124677788888889999999999887754  45443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.35  E-value=2.9e-07  Score=75.20  Aligned_cols=102  Identities=11%  Similarity=0.054  Sum_probs=64.9

Q ss_pred             hhHHHHHHHhcccCcHHHHHHHHHHhHHhhC-----C----------CC-CcchhHHHHHHhhccCChHHHHHHHHhC-C
Q 036340          432 ITFISVLSACAHAGLVEEGRQHFKSMVNEYG-----I----------EP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-P  494 (579)
Q Consensus       432 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~----------~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  494 (579)
                      ..+......+.+.|++++|+..|++.+....     .          .| +...+..++.+|.+.|++++|+..++++ .
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            3667777788888999999999888875310     0          11 2245556666666666666666666655 2


Q ss_pred             CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          495 FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       495 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      ..| +...|..++.++...|++++|+..|+++++++|+++
T Consensus        92 ~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           92 REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            233 455666666666666666666666666666666654

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.34  E-value=1.1e-07  Score=80.75  Aligned_cols=96  Identities=15%  Similarity=0.020  Sum_probs=74.5

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-CCCC-C----------------HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCC
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-PFEP-D----------------KAVWGALLGACRVHNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  530 (579)
                      .+..++..+...|++++|+..+++. ...| +                ...+..+..++...|++++|+..++++++..|
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p  119 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDK  119 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc
Confidence            3444455555555555555555544 1111 1                36788888999999999999999999999999


Q ss_pred             CCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          531 ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       531 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +++.++..++.+|...|++++|...+++..+...
T Consensus       120 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p  153 (198)
T 2fbn_A          120 NNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  153 (198)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC
Confidence            9999999999999999999999999999876543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.34  E-value=5.9e-07  Score=84.12  Aligned_cols=90  Identities=9%  Similarity=0.068  Sum_probs=78.0

Q ss_pred             CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          466 RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       466 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      +...+..++.+|.+.|++++|+..++++ ...| +...+..+..++...|++++|+..|+++++++|++..++..++.++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4567888899999999999999999887 5555 6778889999999999999999999999999999998899999999


Q ss_pred             hhcCCchHHHHH
Q 036340          544 ADVGRWDDANEV  555 (579)
Q Consensus       544 ~~~g~~~~A~~~  555 (579)
                      ...++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            888888877654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.32  E-value=2.5e-06  Score=66.25  Aligned_cols=89  Identities=16%  Similarity=0.116  Sum_probs=42.6

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CH---HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC---CCCchhhhhhhh
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM-PFEP-DK---AVWGALLGACRVHNNVELAQVAAEALMKVEPEN---STPYVLLYNMYA  544 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~-~~~~-~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~  544 (579)
                      ++..+...|++++|...++++ ...| +.   ..+..++.++...|++++|+..++++++..|++   +.++..++.++.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            344444555555555555444 1112 11   244444444555555555555555555555554   333455555555


Q ss_pred             hcCCchHHHHHHHHHHh
Q 036340          545 DVGRWDDANEVRLLMKS  561 (579)
Q Consensus       545 ~~g~~~~A~~~~~~~~~  561 (579)
                      ..|++++|...++++.+
T Consensus        88 ~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555443

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.32  E-value=3.2e-06  Score=78.20  Aligned_cols=127  Identities=9%  Similarity=-0.012  Sum_probs=90.0

Q ss_pred             eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC----------------hhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          396 VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT----------------YITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       396 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      ...+..+...+.+.|++++|+..|++..+.  .|+                ..++..+..++...|++++|+..++++++
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345566666677777777777777776643  333                25777777788888888888888888875


Q ss_pred             hhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHH-HHHHHHHhh
Q 036340          460 EYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELA-QVAAEALMK  527 (579)
Q Consensus       460 ~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A-~~~~~~~~~  527 (579)
                      .   .| +...+..++.+|...|++++|+..|+++ ...| +...+..+..++...|+.++| ...|++++.
T Consensus       225 ~---~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          225 L---DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             H---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             h---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3   34 5677778888888888888888888776 3344 566777777888888888777 456666653

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.29  E-value=6.5e-07  Score=69.78  Aligned_cols=95  Identities=12%  Similarity=0.057  Sum_probs=60.8

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC-------CCCchhh
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-P-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN-------STPYVLL  539 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~-------~~~~~~l  539 (579)
                      .+..++..+...|++++|...+++. . .+.+...+..++..+...|++++|+..++++++..|.+       +.++..+
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3444555555566666666655554 1 22245566666666777777777777777777766655       5556777


Q ss_pred             hhhhhhcCCchHHHHHHHHHHhCC
Q 036340          540 YNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       540 ~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +.++...|++++|.+.++++.+..
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC
Confidence            777777777777777777766543

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.27  E-value=1.9e-06  Score=67.06  Aligned_cols=106  Identities=5%  Similarity=-0.050  Sum_probs=53.2

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-C----CCCC----HHHHHH
Q 036340          434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-P----FEPD----KAVWGA  504 (579)
Q Consensus       434 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~----~~~~----~~~~~~  504 (579)
                      +..+...+...|++++|...+++++..  .+.+...+..++.++...|++++|...++++ .    ..++    ...+..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            333444444444444444444444432  1123334444444444555555555444443 1    1111    445666


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhh
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNM  542 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  542 (579)
                      ++.++...|++++|...++++++..| ++.....+..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  121 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHH
Confidence            66667777777777777777777766 34444444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.26  E-value=1.3e-06  Score=70.99  Aligned_cols=91  Identities=16%  Similarity=0.076  Sum_probs=51.5

Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC----CCCC----CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC------CCCC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM----PFEP----DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE------NSTP  535 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~----~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~------~~~~  535 (579)
                      +..++.++...|++++|...+++.    +..+    ....+..+...+...|++++|...++++++..+.      ...+
T Consensus        52 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  131 (164)
T 3ro3_A           52 YSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRA  131 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHH
Confidence            344444455555555555544443    0001    1234555566666677777777777776654221      1234


Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHH
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +..++.++...|++++|.+.+++..
T Consensus       132 ~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          132 CWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHH
Confidence            6667777777777777777777664

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.26  E-value=4.4e-07  Score=74.08  Aligned_cols=93  Identities=10%  Similarity=0.028  Sum_probs=57.2

Q ss_pred             eHHHHHHHHHhcCChHHHHHHHHHhHhC--------CC--------CCCh-hhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          398 SWNAMIGGCASHGFATEALELFKSMRSF--------KV--------LPTY-ITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       398 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~--------~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      .+...+..+.+.|++++|+..|.+.+..        ..        .|.. ..|..+..+|...|++++|+..++.++..
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~   92 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKR   92 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhc
Confidence            3555666666677777777777766643        00        1222 35566666666777777777777666643


Q ss_pred             hCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          461 YGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       461 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                         .| +...+..++.++...|++++|...|++.
T Consensus        93 ---~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~a  123 (162)
T 3rkv_A           93 ---EETNEKALFRRAKARIAAWKLDEAEEDLKLL  123 (162)
T ss_dssp             ---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ---CCcchHHHHHHHHHHHHHhcHHHHHHHHHHH
Confidence               33 4556666677777777777777766665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.24  E-value=4.9e-07  Score=68.99  Aligned_cols=60  Identities=17%  Similarity=0.184  Sum_probs=28.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          501 VWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       501 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .+..++.++...|++++|+..++++++..|+++.++..++.++...|++++|.+.+++..
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   88 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKII   88 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444444444444444444444444444444444444444444444444443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.23  E-value=1.6e-05  Score=78.82  Aligned_cols=169  Identities=6%  Similarity=-0.029  Sum_probs=134.3

Q ss_pred             CCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCC----------hHHHHHHHHHhHhCCCCCCh-hhHHHHHHHhccc
Q 036340          378 GAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGF----------ATEALELFKSMRSFKVLPTY-ITFISVLSACAHA  444 (579)
Q Consensus       378 ~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~  444 (579)
                      ...++|.+.++.+. ..| +..+|+.-..++...|+          ++++++.++++.+.  .|.. .+|..-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            34567788888774 344 45567776666666666          89999999999964  5654 4888777788888


Q ss_pred             C--cHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccC-ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhc------
Q 036340          445 G--LVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHG-RLEDAMDLIKGM-PFEP-DKAVWGALLGACRVH------  512 (579)
Q Consensus       445 ~--~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~------  512 (579)
                      +  +++++++.++++++.   .| +...|..-..++.+.| .++++++.++++ ...| |...|+....++...      
T Consensus       121 ~~~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          121 PEPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            8  779999999999864   44 6778888888888888 899999999888 4455 788888887776552      


Q ss_pred             --------CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          513 --------NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       513 --------~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                              +.++++++.+++++..+|++..+|..+.+++.+.+++++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                    567999999999999999999999999999999988655

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.22  E-value=4.3e-05  Score=69.10  Aligned_cols=179  Identities=12%  Similarity=0.036  Sum_probs=86.8

Q ss_pred             HHHHHHHHhcc--CCCCeeeHHHHHHHHHhcC--ChHHHHHHHHHhHhCCCCC-ChhhHHHHHHHhcccCc-HHHHHHHH
Q 036340          381 VEARIIFEEMK--LLKNVVSWNAMIGGCASHG--FATEALELFKSMRSFKVLP-TYITFISVLSACAHAGL-VEEGRQHF  454 (579)
Q Consensus       381 ~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~-~~~a~~~~  454 (579)
                      +++..+++.+.  .+.+..+|+.-...+...+  .+++++.++.++.+.  .| |..+|+.-...+...|. ++++++.+
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            44444444432  2234444554444444444  255666666666542  23 33344444444444454 35566666


Q ss_pred             HHhHHhhCCCCCcchhHHHHHHhhcc--------------CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhc------
Q 036340          455 KSMVNEYGIEPRIEHFASLVDIVGRH--------------GRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVH------  512 (579)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~------  512 (579)
                      ..++..  .+-|...|+....++.+.              +.++++++.+.+. ...| |...|+-+-..+...      
T Consensus       169 ~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHHH--CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            555543  122444444443333332              3345555555554 2223 555555444333332      


Q ss_pred             -----CCHHHHHHHHHHHhhcCCCCCCCchhhhhh---hhhcCCchHHHHHHHHHHhCC
Q 036340          513 -----NNVELAQVAAEALMKVEPENSTPYVLLYNM---YADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       513 -----~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~---~~~~g~~~~A~~~~~~~~~~~  563 (579)
                           +.++++++.+++++++.|++.-.+..++..   ....|..++....+.++++.+
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                 345677777777777777763322222211   113466667777777766443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.21  E-value=1.8e-06  Score=79.90  Aligned_cols=151  Identities=13%  Similarity=0.063  Sum_probs=82.5

Q ss_pred             chHHHHHHHHhhhcCCHHHHHHHHHhcc-CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhc
Q 036340          364 VPINNALITMYARCGAIVEARIIFEEMK-LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACA  442 (579)
Q Consensus       364 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  442 (579)
                      ...+..+...+.+.|++++|...|++.. ..|+..       .+...++.+++...+.          ...|..+..+|.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-------~~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-------MFQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-------HHTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-------hhhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            3457788899999999999999999864 334322       1223333444433221          136778888899


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HhhcCCHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGA-CRVHNNVELA  518 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~-~~~~~~~~~A  518 (579)
                      +.|++++|+..++++++.   .| +...+..++.+|...|++++|+..|+++ ...| +...+..+... ....+..+.+
T Consensus       242 ~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTE---EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998864   34 6778889999999999999999999988 4555 44455555555 3345677888


Q ss_pred             HHHHHHHhhcCCCCCC
Q 036340          519 QVAAEALMKVEPENST  534 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~  534 (579)
                      ...|+++++..|.++.
T Consensus       319 ~~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          319 KEMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ----------------
T ss_pred             HHHHHHhhCCCCCCCC
Confidence            9999999999988753

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.20  E-value=7.8e-05  Score=67.38  Aligned_cols=191  Identities=10%  Similarity=0.055  Sum_probs=127.2

Q ss_pred             hhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC--CHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCC-hHHHHHHHH
Q 036340          346 LHLGMQIHQMVTKTVIPDVPINNALITMYARCG--AIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGF-ATEALELFK  420 (579)
Q Consensus       346 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~  420 (579)
                      ++.+..+++......|.+..+|+.-..++...+  .++++..+++.+.  .+.|..+|+--..++...|. ++++++.+.
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            345555555555566677777777777777777  4788888888875  45566777777777777787 588999999


Q ss_pred             HhHhCCCCCChhhHHHHHHHhccc--------------CcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhcc-----
Q 036340          421 SMRSFKVLPTYITFISVLSACAHA--------------GLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRH-----  480 (579)
Q Consensus       421 ~~~~~~~~p~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~-----  480 (579)
                      ++++.. +-|...|+.....+...              +.++++++.+...+..   .| |...|+.+-..+.+.     
T Consensus       170 ~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          170 SLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccCccc
Confidence            988643 22444665554444333              5678888888888754   45 566666554444444     


Q ss_pred             ------CChHHHHHHHHhC-CCCCCHHHHHHHHHH-----HhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          481 ------GRLEDAMDLIKGM-PFEPDKAVWGALLGA-----CRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       481 ------g~~~~A~~~~~~~-~~~~~~~~~~~l~~~-----~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                            +.++++++.++++ ...||. .|..+..+     ....|..++....+.++.+++|....-|..+..
T Consensus       246 ~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~  317 (331)
T 3dss_A          246 LSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS  317 (331)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHH
Confidence                  3567888888777 455654 34332222     224678889999999999999987665555543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.18  E-value=3.3e-06  Score=68.63  Aligned_cols=132  Identities=14%  Similarity=-0.006  Sum_probs=75.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCCCC-CC----hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cch
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFKVL-PT----YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEH  469 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  469 (579)
                      +..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++.+....-.++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            444555555556666666555554432100 01    124555555666666666666666665442111111    334


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM-------PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  530 (579)
                      +..++.++...|++++|...+++.       +..+ ....+..+...+...|++++|...+++++++..
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            556666677777777777766654       1111 134566677778888999999998888876543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.17  E-value=3.4e-06  Score=61.97  Aligned_cols=65  Identities=25%  Similarity=0.213  Sum_probs=54.5

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSN  562 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  562 (579)
                      +...+..++.++...|++++|+..|+++++.+|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56778888888888888888888888888888888888888888888888888888888877543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.16  E-value=2.5e-07  Score=69.82  Aligned_cols=92  Identities=11%  Similarity=-0.042  Sum_probs=70.9

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC------CCCchh
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN------STPYVL  538 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~------~~~~~~  538 (579)
                      ...+..++..+...|++++|+..+++. ...| +...+..+..++...|++++|+..+++++++.|++      ..++..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~   83 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYR   83 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence            345666777777788888888777776 2233 67788888888899999999999999999999988      666777


Q ss_pred             hhhhhhhcCCchHHHHHHHH
Q 036340          539 LYNMYADVGRWDDANEVRLL  558 (579)
Q Consensus       539 l~~~~~~~g~~~~A~~~~~~  558 (579)
                      ++.++...|+++.|.+.+++
T Consensus        84 ~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           84 LELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHhHhhhHhHHHH
Confidence            88888888887777665554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.15  E-value=2.9e-06  Score=81.85  Aligned_cols=123  Identities=7%  Similarity=0.018  Sum_probs=90.7

Q ss_pred             hcccCcHHHHHHHHHHhHHhhC--CCC----CcchhHHHHHHhhccCChHHHHHHHHhC---------CCCCC-HHHHHH
Q 036340          441 CAHAGLVEEGRQHFKSMVNEYG--IEP----RIEHFASLVDIVGRHGRLEDAMDLIKGM---------PFEPD-KAVWGA  504 (579)
Q Consensus       441 ~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~~~-~~~~~~  504 (579)
                      +..+|++++|+.++++.+....  +.|    ...+++.|+.+|..+|++++|+.++++.         +..|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4567888888888877765421  112    2356778888888888888888887765         23343 347788


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhh-----cCCCCCCC---chhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          505 LLGACRVHNNVELAQVAAEALMK-----VEPENSTP---YVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~-----~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++..|...|++++|+.+++++++     +.|+.|.+   ...|..++.++|++++|+.+++++++.-
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88889999999999999999875     56776543   4577788888899999999998887643

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.14  E-value=1.3e-05  Score=77.43  Aligned_cols=159  Identities=8%  Similarity=-0.027  Sum_probs=119.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhCCCCCCh----------------hhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC
Q 036340          403 IGGCASHGFATEALELFKSMRSFKVLPTY----------------ITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR  466 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  466 (579)
                      ...+.+.|++++|++.|.++.+.......                ..+..++..|...|++++|.+++..+....+..++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45577889999999999999875322211                13677888999999999999999988764332222


Q ss_pred             c----chhHHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC-----
Q 036340          467 I----EHFASLVDIVGRHGRLEDAMDLIKGM-------PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVE-----  529 (579)
Q Consensus       467 ~----~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-----  529 (579)
                      .    .+...+...+...|++++|..+++..       ...+ ...++..++..+...|++++|...++++....     
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            2    23345566677889999999988765       2233 34577888999999999999999999987532     


Q ss_pred             -CCCCCCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          530 -PENSTPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       530 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                       |....++..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence             22234688889999999999999999988753

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.13  E-value=8.6e-06  Score=79.21  Aligned_cols=116  Identities=9%  Similarity=0.043  Sum_probs=56.1

Q ss_pred             HHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcH
Q 036340          371 ITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLV  447 (579)
Q Consensus       371 ~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~  447 (579)
                      ...+.+.|++++|.+.|++.. . +.+...|..+..+|.+.|++++|++.+++..+.  .|+ ..++..+..+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            334555566666666655542 1 223445555555555666666666666655543  332 23555555555555666


Q ss_pred             HHHHHHHHHhHHhhCCCC-CcchhHHHHHH--hhccCChHHHHHHHH
Q 036340          448 EEGRQHFKSMVNEYGIEP-RIEHFASLVDI--VGRHGRLEDAMDLIK  491 (579)
Q Consensus       448 ~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~--~~~~g~~~~A~~~~~  491 (579)
                      ++|.+.++++++.   .| +...+..+..+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKV---KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHH---STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666655555533   22 22333333333  444555555555554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.10  E-value=3.6e-06  Score=63.88  Aligned_cols=80  Identities=14%  Similarity=0.166  Sum_probs=48.9

Q ss_pred             HHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 036340          449 EGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEAL  525 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  525 (579)
                      .|+..|+++++   ..| +...+..++.++...|++++|+..+++. ...| +...|..+..++...|++++|+..|+++
T Consensus         3 ~a~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLA---QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHT---TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35556665553   233 4556666666666777777777666665 2223 4556666666666667777777777776


Q ss_pred             hhcCCC
Q 036340          526 MKVEPE  531 (579)
Q Consensus       526 ~~~~p~  531 (579)
                      ++..|.
T Consensus        80 l~~~~~   85 (115)
T 2kat_A           80 LAAAQS   85 (115)
T ss_dssp             HHHHHH
T ss_pred             HHhccc
Confidence            666654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.06  E-value=8.9e-06  Score=58.24  Aligned_cols=73  Identities=15%  Similarity=0.094  Sum_probs=61.9

Q ss_pred             CCCHHHHHHHHHHHhhcCC---HHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCCCCc
Q 036340          496 EPDKAVWGALLGACRVHNN---VELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKKPTG  569 (579)
Q Consensus       496 ~~~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  569 (579)
                      ++++..+..+..++...++   .++|...++++++.+|+++.++..++..+.+.|++++|..+|+++.+.... .+.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~   78 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLD   78 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Ccc
Confidence            4577788888877754444   799999999999999999999999999999999999999999999987766 554

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.05  E-value=7.2e-07  Score=70.12  Aligned_cols=87  Identities=14%  Similarity=0.189  Sum_probs=51.8

Q ss_pred             cccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChH----------HHHHHHHhC-CCCC-CHHHHHHHHHH
Q 036340          442 AHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLE----------DAMDLIKGM-PFEP-DKAVWGALLGA  508 (579)
Q Consensus       442 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~----------~A~~~~~~~-~~~~-~~~~~~~l~~~  508 (579)
                      .+.+.+++|.+.++..++.   .| +...+..++.++...++++          +|+..|++. ...| +...|..+..+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHH
Confidence            3556677777777777653   34 5667777777777766543          555555554 3333 34455555555


Q ss_pred             HhhcC-----------CHHHHHHHHHHHhhcCCC
Q 036340          509 CRVHN-----------NVELAQVAAEALMKVEPE  531 (579)
Q Consensus       509 ~~~~~-----------~~~~A~~~~~~~~~~~p~  531 (579)
                      |...|           ++++|+..|+++++++|+
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~  123 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPD  123 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHhCCC
Confidence            55442           556666666666666665

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.99  E-value=6.5e-06  Score=59.14  Aligned_cols=80  Identities=18%  Similarity=0.273  Sum_probs=54.4

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      ..+..++..+...|++++|+..+++. ...| +...+..+..++...|++++|+..++++++.+|+++.++..++.++..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            44555666666666666666666655 2222 556677777777778888888888888888888877777777777665


Q ss_pred             cC
Q 036340          546 VG  547 (579)
Q Consensus       546 ~g  547 (579)
                      .|
T Consensus        90 ~g   91 (91)
T 1na3_A           90 QG   91 (91)
T ss_dssp             HC
T ss_pred             cC
Confidence            43

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.99  E-value=5.6e-06  Score=80.21  Aligned_cols=120  Identities=8%  Similarity=-0.011  Sum_probs=97.6

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-C---------------HHHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-D---------------KAVWGA  504 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~---------------~~~~~~  504 (579)
                      ..+++++|...|+.....   .| ....+..++..+.+.|++++|+..|+++ ...| +               ...|..
T Consensus       246 ~l~~~~~A~~~~~~~~~~---~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~n  322 (457)
T 1kt0_A          246 TLKSFEKAKESWEMDTKE---KLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLN  322 (457)
T ss_dssp             EEEEEECCCCGGGSCHHH---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCcchhhcCHHH---HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHH
Confidence            445556666655544332   23 3556778899999999999999999987 2223 2               578889


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      +..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...|+++.+....
T Consensus       323 la~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~  383 (457)
T 1kt0_A          323 LAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ  383 (457)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            9999999999999999999999999999999999999999999999999999999876543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.99  E-value=5.1e-06  Score=77.77  Aligned_cols=67  Identities=7%  Similarity=-0.051  Sum_probs=62.1

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +...|..+..++.+.|++++|+..++++++++|+++.++..++.+|...|++++|.+.++++.+...
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P  338 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  338 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            4568888999999999999999999999999999999999999999999999999999999887653

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.91  E-value=2.2e-05  Score=61.60  Aligned_cols=89  Identities=7%  Similarity=-0.145  Sum_probs=45.0

Q ss_pred             HHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh---
Q 036340          473 LVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMKVEPENSTPYVLLYNMYAD---  545 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---  545 (579)
                      +..+|...+.+++|...|++.-...++..+..+...|..    .+++++|+..|+++.+.  .++.++..|+.+|..   
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g  108 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAGKG  108 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCCCC
Confidence            444444444444444444444222344444445444444    45555555555555544  334445555555555   


Q ss_pred             -cCCchHHHHHHHHHHhCC
Q 036340          546 -VGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       546 -~g~~~~A~~~~~~~~~~~  563 (579)
                       .+++++|.+.+++..+.|
T Consensus       109 ~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          109 VVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             SCCCHHHHHHHHHHHHHTT
T ss_pred             CCcCHHHHHHHHHHHHHCC
Confidence             556666666666555544

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.89  E-value=1.7e-05  Score=59.53  Aligned_cols=68  Identities=10%  Similarity=-0.019  Sum_probs=62.4

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      +...+..++..+...|++++|+..|+++++..|+++.++..++.++...|++++|.+.+++..+....
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~   70 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST   70 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC
Confidence            45678888899999999999999999999999999999999999999999999999999999876543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.86  E-value=3.1e-05  Score=76.73  Aligned_cols=152  Identities=9%  Similarity=0.026  Sum_probs=123.6

Q ss_pred             CChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCc----------HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhh
Q 036340          410 GFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGL----------VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVG  478 (579)
Q Consensus       410 ~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  478 (579)
                      ...++|++.++++..  +.|+.. .|+.-..++...|+          ++++++.++.+++.  .+.+..+|..-..++.
T Consensus        43 ~~~eeal~~~~~~l~--~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            345688999999995  467665 66665556666666          89999999999864  2336778888888888


Q ss_pred             ccC--ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC-CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc-------
Q 036340          479 RHG--RLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN-NVELAQVAAEALMKVEPENSTPYVLLYNMYADV-------  546 (579)
Q Consensus       479 ~~g--~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------  546 (579)
                      +.|  +++++++.++++ ...| +...|+.-..++...| .++++++.++++++.+|.|..+|...+.++...       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  679999999998 4444 7889999888888888 899999999999999999999999999988774       


Q ss_pred             -------CCchHHHHHHHHHHhCCCC
Q 036340          547 -------GRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       547 -------g~~~~A~~~~~~~~~~~~~  565 (579)
                             +.++++.+.++++....+.
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~  224 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPN  224 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSS
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCC
Confidence                   5678999999988765543

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.83  E-value=6e-06  Score=64.88  Aligned_cols=87  Identities=14%  Similarity=0.088  Sum_probs=63.9

Q ss_pred             hccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCC----------HHHHHHHHHHHhhcCCCCCCCchhhhhhhhh
Q 036340          478 GRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNN----------VELAQVAAEALMKVEPENSTPYVLLYNMYAD  545 (579)
Q Consensus       478 ~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~----------~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  545 (579)
                      .+.+.+++|+..++.. ...| +...|..+..++...++          +++|+..|+++++++|++..+|+.++.+|..
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHH
Confidence            4556677777777766 3334 67777777777766655          4588888888888888888888888888887


Q ss_pred             cC-----------CchHHHHHHHHHHhCCC
Q 036340          546 VG-----------RWDDANEVRLLMKSNNI  564 (579)
Q Consensus       546 ~g-----------~~~~A~~~~~~~~~~~~  564 (579)
                      .|           ++++|.+.|++..+.+.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            64           78888888888776554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.78  E-value=9.1e-06  Score=74.88  Aligned_cols=263  Identities=13%  Similarity=0.143  Sum_probs=176.7

Q ss_pred             CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc
Q 036340          121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       121 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  200 (579)
                      .+..|..+..+....+.+.+|++.|        --..|+..|..++....+.|.+++-.+++...+.        .  ..
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--------IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk--------~--~k  114 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--------IKADDPSSYMEVVQAANTSGNWEELVKYLQMARK--------K--AR  114 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--------CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTST--------T--CC
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--------HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHH--------H--hc
Confidence            4567788888888888777777665        3366888888888888888888888888887762        1  22


Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCH
Q 036340          201 NIVSWNSMIMCYAKAGDVVSAREIFEQMLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNL  280 (579)
Q Consensus       201 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~  280 (579)
                      ++..=+.|+-+|++.++..+.++++   ..+|......+..-|...|.++.|.-+|..+.     -|..|..++.+.|++
T Consensus       115 e~~IDteLi~ayAk~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~is-----N~akLAstLV~L~~y  186 (624)
T 3lvg_A          115 ESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEY  186 (624)
T ss_dssp             STTTTHHHHHHHHTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSC-----CCTTTSSSSSSCSGG
T ss_pred             ccccHHHHHHHHHhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCc-----cHHHHHHHHHHHHHH
Confidence            3334457888888888765543332   22555566677777888888887777776553     233344556666776


Q ss_pred             HHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcC
Q 036340          281 ELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTV  360 (579)
Q Consensus       281 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  360 (579)
                      ..|.+.-++.  .++.+|..+-.+|...+++.-|.-.--.++-.     ..-+..++..|...|.+++-+.+++.....-
T Consensus       187 q~AVdaArKA--ns~ktWKeV~~ACvd~~EfrLAqicGLniIvh-----adeL~elv~~YE~~G~f~ELIsLlEaglglE  259 (624)
T 3lvg_A          187 QAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH-----ADELEELINYYQDRGYFEELITMLEAALGLE  259 (624)
T ss_dssp             GSSTTTTTTC--CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC-----SSCCSGGGSSSSTTCCCTTSTTTHHHHTTST
T ss_pred             HHHHHHHHhc--CChhHHHHHHHHHhCchHHHHHHHhcchhccc-----HHHHHHHHHHHHhCCCHHHHHHHHHHHhCCC
Confidence            6665443322  57778999999999999888776554444321     2223345566888888888888888855566


Q ss_pred             CCCchHHHHHHHHhhhcCCHHHHHHHHHhcc---CCC-------CeeeHHHHHHHHHhcCChHHHHH
Q 036340          361 IPDVPINNALITMYARCGAIVEARIIFEEMK---LLK-------NVVSWNAMIGGCASHGFATEALE  417 (579)
Q Consensus       361 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~-------~~~~~~~l~~~~~~~~~~~~A~~  417 (579)
                      .....+|+.|.-.|++- ++++-.+.++..-   .-|       ....|.-++-.|.+..+++.|..
T Consensus       260 rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          260 RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            67778888888888875 4455444444321   122       33458888888888888876653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.71  E-value=3.9e-05  Score=54.93  Aligned_cols=66  Identities=20%  Similarity=0.235  Sum_probs=60.7

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      +...+..+...+...|++++|+..++++++..|+++.++..++.++...|++++|...+++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            355778888889999999999999999999999999999999999999999999999999988754

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.69  E-value=9.5e-05  Score=71.38  Aligned_cols=123  Identities=11%  Similarity=-0.006  Sum_probs=85.2

Q ss_pred             HHHhcCChHHHHHHHHHhHhC---CCCC---Ch-hhHHHHHHHhcccCcHHHHHHHHHHhHHhh----CC-CC-CcchhH
Q 036340          405 GCASHGFATEALELFKSMRSF---KVLP---TY-ITFISVLSACAHAGLVEEGRQHFKSMVNEY----GI-EP-RIEHFA  471 (579)
Q Consensus       405 ~~~~~~~~~~A~~~~~~~~~~---~~~p---~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~-~~~~~~  471 (579)
                      .+...|++++|+.++++..+.   -+.|   +. .+++.|..+|..+|++++|..++++.+.-.    |- .| ...+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            355678888888887776532   1222   22 377888888888888888888888765421    11 12 235678


Q ss_pred             HHHHHhhccCChHHHHHHHHhC---------CCCCCHH-HHHHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          472 SLVDIVGRHGRLEDAMDLIKGM---------PFEPDKA-VWGALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       472 ~l~~~~~~~g~~~~A~~~~~~~---------~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      .|+.+|..+|++++|+.++++.         +..|+.. +...+..++...+.+++|+.+|.++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888899999999998888776         2233332 445555677788899999999999875

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.64  E-value=0.00068  Score=52.96  Aligned_cols=112  Identities=10%  Similarity=-0.137  Sum_probs=88.9

Q ss_pred             CChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc----cCChHH
Q 036340          410 GFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR----HGRLED  485 (579)
Q Consensus       410 ~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  485 (579)
                      +++++|+++|++..+.| .|...    +...|...+.+++|.+.|++..+.    -++.....|+.+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999988877 33333    677788888888899999988653    356777788888887    789999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhhcCC
Q 036340          486 AMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       486 A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p  530 (579)
                      |..++++.-..-++..+..+...|..    .++.++|...|+++.+...
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999888434577788888888877    7899999999999987643

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.58  E-value=2.6e-05  Score=71.90  Aligned_cols=224  Identities=15%  Similarity=0.182  Sum_probs=121.9

Q ss_pred             hhhcCCCHHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCC--CCcchHHHHHHHHHccCCHHHHHH
Q 036340            4 GYVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPE--RDCVTWNTVISGYAKTGEMEEALR   81 (579)
Q Consensus         4 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~   81 (579)
                      ++++.++..+|++.|=++  .|+..|..++.+..+.|.   +++-..++....+  .++.+=+.|+-+|++.++..+-.+
T Consensus        63 AqL~~~~v~eAIdsyIkA--~Dps~y~eVi~~A~~~~~---~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEe  137 (624)
T 3lvg_A           63 AQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGN---WEELVKYLQMARKKARESYVETELIFALAKTNRLAELEE  137 (624)
T ss_dssp             HTTTSSSCTTTTTSSCCC--SCCCSSSHHHHHTTTSSC---CTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTS
T ss_pred             HHHccCchHHHHHHHHhC--CChHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHH
Confidence            444555555555444332  345556666666666665   7777766666652  444555677777777776554332


Q ss_pred             HhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC------------------------CCcchHHHHHHHHHhCCC
Q 036340           82 LFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG------------------------RDSASLSALVSGLIQNGE  137 (579)
Q Consensus        82 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------------------------~~~~~~~~l~~~~~~~g~  137 (579)
                      ++.   .||..-...+++-|...|.++.|.-+|..+..                        .++.+|..+-.+|...++
T Consensus       138 fl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~E  214 (624)
T 3lvg_A          138 FIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKE  214 (624)
T ss_dssp             TTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCT
T ss_pred             HHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchH
Confidence            211   35555556666777777777777666665531                        245566666666666666


Q ss_pred             HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCC-cchHHHHHHHHHHHhcC
Q 036340          138 LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFK-RNIVSWNSMIMCYAKAG  216 (579)
Q Consensus       138 ~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  216 (579)
                      +.-|..+--.++-..  .     -...++..|-..|.+++-+.+++...          |++ .....|+.|.-.|++- 
T Consensus       215 frLAqicGLniIvha--d-----eL~elv~~YE~~G~f~ELIsLlEagl----------glErAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          215 FRLAQMCGLHIVVHA--D-----ELEELINYYQDRGYFEELITMLEAAL----------GLERAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             TTTTTHHHHHHHCCS--S-----CCSGGGSSSSTTCCCTTSTTTHHHHT----------TSTTCCHHHHHHHHHHHHSS-
T ss_pred             HHHHHHhcchhcccH--H-----HHHHHHHHHHhCCCHHHHHHHHHHHh----------CCCchhHHHHHHHHHHHHhc-
Confidence            555544433332210  0     11224445566666666666666654          222 3455666666666655 


Q ss_pred             CHHHHHHHHHhcCCC-----------ChhHHHHHHHHHHhcCChHHHH
Q 036340          217 DVVSAREIFEQMLER-----------DTFSWNTMISGYIHVLDMEEAS  253 (579)
Q Consensus       217 ~~~~A~~~~~~~~~~-----------~~~~~~~l~~~~~~~~~~~~a~  253 (579)
                      ++++..+.++..-.+           ....|..++-.|.+-.+++.|.
T Consensus       277 ~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          277 KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            455555555443221           2344666666666666666544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.56  E-value=2.8e-05  Score=56.83  Aligned_cols=79  Identities=14%  Similarity=0.125  Sum_probs=52.9

Q ss_pred             HHHHhhccCChHHHHHHHHhC-CCCC-CHH-HHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCc
Q 036340          473 LVDIVGRHGRLEDAMDLIKGM-PFEP-DKA-VWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRW  549 (579)
Q Consensus       473 l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  549 (579)
                      .+..+.+.|++++|+..++++ ...| +.. .+..++.++...|++++|+..|+++++.+|+++.++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            455666777777777777766 2233 556 77777777888888888888888888888887654422        445


Q ss_pred             hHHHHHHHHH
Q 036340          550 DDANEVRLLM  559 (579)
Q Consensus       550 ~~A~~~~~~~  559 (579)
                      .++...+++.
T Consensus        78 ~~a~~~~~~~   87 (99)
T 2kc7_A           78 MDILNFYNKD   87 (99)
T ss_dssp             HHHHHHHCCT
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.55  E-value=4.3e-05  Score=57.74  Aligned_cols=57  Identities=11%  Similarity=0.103  Sum_probs=27.6

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHh
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKG  492 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~  492 (579)
                      .+..+...+...|++++|+..+++++..   .| +...+..++.++...|++++|...+++
T Consensus        21 ~~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A           21 LRFTLGKTYAEHEQFDAALPHLRAALDF---DPTYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            4444444555555555555555554432   22 234444455555555555555555444

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.47  E-value=0.00013  Score=69.13  Aligned_cols=81  Identities=9%  Similarity=0.012  Sum_probs=55.7

Q ss_pred             cCChHHHHHHHHhC---------CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhh-----cCCCCCC---Cchhhhh
Q 036340          480 HGRLEDAMDLIKGM---------PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMK-----VEPENST---PYVLLYN  541 (579)
Q Consensus       480 ~g~~~~A~~~~~~~---------~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~p~~~~---~~~~l~~  541 (579)
                      .|++++|+.++++.         +..|+ ..+++.++.+|...|++++|+.+++++++     +.|+.|.   .++.|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            45666666666554         12232 24677777888888888888888888874     3455443   4778888


Q ss_pred             hhhhcCCchHHHHHHHHHH
Q 036340          542 MYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       542 ~~~~~g~~~~A~~~~~~~~  560 (579)
                      +|..+|++++|+.++++..
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            8888888888888887764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.46  E-value=0.00011  Score=53.60  Aligned_cols=62  Identities=23%  Similarity=0.298  Sum_probs=56.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCC-CchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENST-PYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      .+..+...|++++|+..++++++.+|+++. ++..++.+|...|++++|.+.+++..+.....
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~   68 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDS   68 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCc
Confidence            456678899999999999999999999998 99999999999999999999999998766543

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.38  E-value=0.003  Score=57.29  Aligned_cols=139  Identities=10%  Similarity=-0.004  Sum_probs=75.5

Q ss_pred             CCCeeeHHHHHHHHH--hcC---ChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcc---cC-----cHHHHHHHHHHhH
Q 036340          393 LKNVVSWNAMIGGCA--SHG---FATEALELFKSMRSFKVLPTYI-TFISVLSACAH---AG-----LVEEGRQHFKSMV  458 (579)
Q Consensus       393 ~~~~~~~~~l~~~~~--~~~---~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~---~~-----~~~~a~~~~~~~~  458 (579)
                      +.+...|...+++..  ..+   +..+|+.+|++.++  ..|+.. .+..+..+|..   .+     ........++...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            456667777666543  333   34788999999885  467643 55544444421   00     1111111111111


Q ss_pred             HhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC
Q 036340          459 NEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENS  533 (579)
Q Consensus       459 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  533 (579)
                      .....+.++.++..++..+...|++++|...++++ ...|+...|..+...+...|++++|.+.|++++.++|..+
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            00011334555555555555567777777776665 3345655555566666667777777777777777777653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.34  E-value=0.00034  Score=51.02  Aligned_cols=62  Identities=15%  Similarity=0.159  Sum_probs=34.8

Q ss_pred             eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          396 VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       396 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      ...+..+..++...|++++|+..|++..+.  .|+ ...|..+..+|...|++++|...|++.++
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344555555666666666666666665543  232 23555555566666666666666665543

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.21  E-value=0.00043  Score=65.77  Aligned_cols=84  Identities=13%  Similarity=0.101  Sum_probs=49.4

Q ss_pred             hhccCChHHHHHHHHhC------CCCCC----HHHHHHHHHHHhhcCCHHHHHHHHHHHhh-----cCCCCC---CCchh
Q 036340          477 VGRHGRLEDAMDLIKGM------PFEPD----KAVWGALLGACRVHNNVELAQVAAEALMK-----VEPENS---TPYVL  538 (579)
Q Consensus       477 ~~~~g~~~~A~~~~~~~------~~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~p~~~---~~~~~  538 (579)
                      +.++|++++|+.++++.      ...|+    ..+++.++.+|...|++++|+.++++++.     +.|++|   ..++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            33455666666555443      01121    23556666667777777777777777664     234433   23666


Q ss_pred             hhhhhhhcCCchHHHHHHHHHH
Q 036340          539 LYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       539 l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      |+.+|..+|++++|+.++++..
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Confidence            7777777777777777776653

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.15  E-value=0.0011  Score=62.94  Aligned_cols=92  Identities=10%  Similarity=0.037  Sum_probs=67.8

Q ss_pred             ccCcHHHHHHHHHHhHHhhC--CCCC----cchhHHHHHHhhccCChHHHHHHHHhC---------CCCCC-HHHHHHHH
Q 036340          443 HAGLVEEGRQHFKSMVNEYG--IEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM---------PFEPD-KAVWGALL  506 (579)
Q Consensus       443 ~~~~~~~a~~~~~~~~~~~~--~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~~~-~~~~~~l~  506 (579)
                      ..|++++|..++++.+....  +.|+    ..+++.|+.+|..+|++++|+.++++.         +..|+ ..+++.++
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            45778888888887765321  1222    356778888888899999888888775         23444 34788899


Q ss_pred             HHHhhcCCHHHHHHHHHHHhh-----cCCCCCC
Q 036340          507 GACRVHNNVELAQVAAEALMK-----VEPENST  534 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~-----~~p~~~~  534 (579)
                      ..|...|++++|+.+|+++++     +.|+.|.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~  422 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPY  422 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChH
Confidence            999999999999999999985     4576654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.05  E-value=0.021  Score=59.89  Aligned_cols=154  Identities=18%  Similarity=0.146  Sum_probs=100.3

Q ss_pred             hhcCCCHHHHHH-HhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHh
Q 036340            5 YVKRREMAKARK-LFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLF   83 (579)
Q Consensus         5 ~~~~~~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~   83 (579)
                      ....+++++|.+ ++..+.  +......++..+.+.+.   +++|+++.+.     +   ..-.......|+++.|.++.
T Consensus       609 ~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~---~~~a~~~~~~-----~---~~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEY---YEEALNISPD-----Q---DQKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTC---HHHHHHHCCC-----H---HHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCC---hHHheecCCC-----c---chheehhhhcCCHHHHHHHH
Confidence            445788888888 664433  12223666666777776   8988887642     2   12234456789999999998


Q ss_pred             hcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHH
Q 036340           84 NSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYN  163 (579)
Q Consensus        84 ~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  163 (579)
                      +.+  .+...|..+...+.+.++++.|++.|.++..     +..+...+...|+.+...++.+.+...  +      .+.
T Consensus       676 ~~~--~~~~~W~~la~~al~~~~~~~A~~~y~~~~d-----~~~l~~l~~~~~~~~~~~~~~~~a~~~--~------~~~  740 (814)
T 3mkq_A          676 TDE--SAEMKWRALGDASLQRFNFKLAIEAFTNAHD-----LESLFLLHSSFNNKEGLVTLAKDAETT--G------KFN  740 (814)
T ss_dssp             TTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC-----HHHHHHHHHHTTCHHHHHHHHHHHHHT--T------CHH
T ss_pred             Hhh--CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC-----hhhhHHHHHHcCCHHHHHHHHHHHHHc--C------chH
Confidence            877  5667899999999999999999999998754     344444455566666555555444442  1      123


Q ss_pred             HHHHHHhhCCCHHHHHHHHcccc
Q 036340          164 TLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       164 ~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ....++.+.|++++|.+++.++.
T Consensus       741 ~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          741 LAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHcC
Confidence            33344555666666666666654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.03  E-value=0.0022  Score=58.15  Aligned_cols=135  Identities=14%  Similarity=0.075  Sum_probs=92.8

Q ss_pred             CCCChhhHHHHHHHhc--c---cCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhc---cC-C-------hHHHHHH
Q 036340          427 VLPTYITFISVLSACA--H---AGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGR---HG-R-------LEDAMDL  489 (579)
Q Consensus       427 ~~p~~~~~~~l~~~~~--~---~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g-~-------~~~A~~~  489 (579)
                      .+.+...|...+++..  .   .....+|..+|+++++.   .|+ ...+..++.+|.-   .+ .       ...+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            3455667777776543  2   34468899999999854   675 3444444444421   11 1       1122222


Q ss_pred             HHhCC-CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          490 IKGMP-FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       490 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      ...+. .+.++..+..+...+...|++++|+..+++++.++|+ ...|..+++++.-.|++++|.+.++++...++.
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~  342 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRPG  342 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCS
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            22333 2447778888877777789999999999999999975 455778899999999999999999998876653

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.03  E-value=0.0011  Score=57.44  Aligned_cols=86  Identities=14%  Similarity=0.102  Sum_probs=58.1

Q ss_pred             HHHHHHHHhC-CCCCC---HHHHHHHHHHHhh-----cCCHHHHHHHHHHHhhcCCCC-CCCchhhhhhhhh-cCCchHH
Q 036340          484 EDAMDLIKGM-PFEPD---KAVWGALLGACRV-----HNNVELAQVAAEALMKVEPEN-STPYVLLYNMYAD-VGRWDDA  552 (579)
Q Consensus       484 ~~A~~~~~~~-~~~~~---~~~~~~l~~~~~~-----~~~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~-~g~~~~A  552 (579)
                      ..|...+++. ...|+   ...|..++..|.+     -|+.++|.+.|+++++++|+. ..++..++..++. .|++++|
T Consensus       180 ~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a  259 (301)
T 3u64_A          180 HAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGF  259 (301)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHH
Confidence            3444444444 34454   4466666666666     378888888888888888864 7777777877776 4788888


Q ss_pred             HHHHHHHHhCCCCCCCc
Q 036340          553 NEVRLLMKSNNIKKPTG  569 (579)
Q Consensus       553 ~~~~~~~~~~~~~~~~~  569 (579)
                      .+++++.....+...|+
T Consensus       260 ~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          260 DEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHcCCCCCCCC
Confidence            88888877766664454

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.01  E-value=0.022  Score=42.32  Aligned_cols=141  Identities=10%  Similarity=0.041  Sum_probs=98.9

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED  485 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  485 (579)
                      +.-.|..++..++..+....   .+..-|+.++--....-+-+-..+.++.+-+-+.+              ..+|+...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi--------------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCc--------------HhhhcHHH
Confidence            34578889999999888753   34445666665555555666666777666433222              23444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          486 AMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       486 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      ....+-.++  .+...+...+..+..+|.-+.-.+++..++..+|.++..+..++.+|.+.|+..+|.++++++-++|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            444444443  244455666777788899999889998887777777888999999999999999999999999999975

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.00  E-value=0.0019  Score=46.01  Aligned_cols=69  Identities=12%  Similarity=0.083  Sum_probs=53.2

Q ss_pred             CCCcchhHHHHHHhhccCC---hHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC
Q 036340          464 EPRIEHFASLVDIVGRHGR---LEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN  532 (579)
Q Consensus       464 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  532 (579)
                      ++++..+..++.++...++   .++|..++++. ...| ++.....++..+.+.|++++|+..|+++++.+|.+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            3456677777777765444   68888888877 4445 67778888888899999999999999999999883

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.98  E-value=0.025  Score=59.41  Aligned_cols=75  Identities=15%  Similarity=0.099  Sum_probs=36.2

Q ss_pred             HHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHH
Q 036340           64 NTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAAR  143 (579)
Q Consensus        64 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  143 (579)
                      ..++..+.+.|..++|+++.+.-        ..-.......|+++.|.++.+.+  .+...|..++..+.+.|+++.|++
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~--------~~~f~~~l~~~~~~~A~~~~~~~--~~~~~W~~la~~al~~~~~~~A~~  702 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQ--------DQKFELALKVGQLTLARDLLTDE--SAEMKWRALGDASLQRFNFKLAIE  702 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCH--------HHHHHHHHHHTCHHHHHHHHTTC--CCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCCChHHheecCCCc--------chheehhhhcCCHHHHHHHHHhh--CcHhHHHHHHHHHHHcCCHHHHHH
Confidence            44455555555555555544311        01122334455555555555444  233455555555555555555555


Q ss_pred             HHHHh
Q 036340          144 VLVKC  148 (579)
Q Consensus       144 ~~~~~  148 (579)
                      +|.++
T Consensus       703 ~y~~~  707 (814)
T 3mkq_A          703 AFTNA  707 (814)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            55554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.89  E-value=0.52  Score=48.68  Aligned_cols=260  Identities=10%  Similarity=0.011  Sum_probs=132.6

Q ss_pred             HHHHhcCChHHHHHHhhcCCC----CChh--hHHHHHHHHHhcCCHHHHHHHHccCCC-CC----------hhhHHHHHH
Q 036340          241 SGYIHVLDMEEASNLFVKMPH----PDTL--TWNAMVSGYAQIGNLELALDFFKRMPQ-KN----------LVSWNSMIA  303 (579)
Q Consensus       241 ~~~~~~~~~~~a~~~~~~~~~----~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~----------~~~~~~l~~  303 (579)
                      -+....|+.++++.++.....    .+..  .-..+.-+....|..+++..++..... .+          +..-..+.-
T Consensus       382 LGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          382 LGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            346677888888888888774    1222  222333445555655567766655432 22          111222333


Q ss_pred             HHHhCCC-chHHHHHHHHHHHcCCCCChhhHH--HHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCH
Q 036340          304 GCETNKD-YEGAIKLFIQMQVEGEKPDRHTFS--SILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAI  380 (579)
Q Consensus       304 ~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  380 (579)
                      +.+..|. -+++.+.+..+..... +......  .+...+...|+.+....++.........+..-...+.-++...|+.
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            3333332 2456666666654321 1111111  2223455777777777776663333222222223333444466788


Q ss_pred             HHHHHHHHhccCCCCeee-HH---HHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHH
Q 036340          381 VEARIIFEEMKLLKNVVS-WN---AMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKS  456 (579)
Q Consensus       381 ~~A~~~~~~~~~~~~~~~-~~---~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  456 (579)
                      +.+..+++.+....++.. |.   ++.-+|+..|+.....++++.+.+. ...+......+.-++...|+.+.+.++++.
T Consensus       541 e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          541 ELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            888777777653333332 22   3444566788876666688888753 222222333333355555666666666655


Q ss_pred             hHHhhCCCCCcchhHHHHHHhhccCCh-HHHHHHHHhCCCCCCHHHHHH
Q 036340          457 MVNEYGIEPRIEHFASLVDIVGRHGRL-EDAMDLIKGMPFEPDKAVWGA  504 (579)
Q Consensus       457 ~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~~~~  504 (579)
                      +.+  ...|.+..-..++-+....|.. .+|.+.+..+...+|..+-..
T Consensus       620 L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~  666 (963)
T 4ady_A          620 LSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQA  666 (963)
T ss_dssp             GGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHH
T ss_pred             HHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHH
Confidence            543  2234443333444444445443 567777777755555544433

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.89  E-value=0.0022  Score=60.93  Aligned_cols=97  Identities=10%  Similarity=-0.067  Sum_probs=67.9

Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhC--CCCC----cchhHHHHHHhhccCChHHHHHHHHhC---------CCCCC-HHHH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYG--IEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM---------PFEPD-KAVW  502 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~--~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~~~-~~~~  502 (579)
                      ..+..+|++++|+.++++.+....  +.|+    ..+++.++.+|..+|++++|+.++++.         +..|+ ..++
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            345567788888888877764311  1221    346677888888888888888887765         23343 3477


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhh-----cCCCCCCC
Q 036340          503 GALLGACRVHNNVELAQVAAEALMK-----VEPENSTP  535 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~-----~~p~~~~~  535 (579)
                      +.++..|...|++++|+.+++++++     +.|+.|.+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~  412 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLI  412 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHH
Confidence            8888889999999999999999875     56776543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.79  E-value=0.0021  Score=49.91  Aligned_cols=89  Identities=15%  Similarity=0.078  Sum_probs=62.0

Q ss_pred             CcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccC---ChHHHHHHHHhC-CCC-C--CHHHHHHHHHHHhhcCCHHH
Q 036340          445 GLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHG---RLEDAMDLIKGM-PFE-P--DKAVWGALLGACRVHNNVEL  517 (579)
Q Consensus       445 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~-~--~~~~~~~l~~~~~~~~~~~~  517 (579)
                      .....+.+.|.+.... + .++..+...++.++.+.+   +.++++.++++. ... |  ....+-.+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            3445555566655442 2 367777777888888877   555777777766 222 4  34566667777889999999


Q ss_pred             HHHHHHHHhhcCCCCCCC
Q 036340          518 AQVAAEALMKVEPENSTP  535 (579)
Q Consensus       518 A~~~~~~~~~~~p~~~~~  535 (579)
                      |.+.++++++.+|++..+
T Consensus        90 A~~y~~~lL~ieP~n~QA  107 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQA  107 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHhcCCCCHHH
Confidence            999999999999987553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.72  E-value=0.0025  Score=46.69  Aligned_cols=42  Identities=19%  Similarity=0.224  Sum_probs=34.2

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhh
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      ....+..+..++.+.|+++.|+..+++++++.|+++.+...+
T Consensus        45 ~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A           45 KVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            456778888889999999999999999999999986654443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.70  E-value=0.0014  Score=50.82  Aligned_cols=82  Identities=9%  Similarity=-0.094  Sum_probs=66.2

Q ss_pred             HHHHHHHHhC--CCCCCHHHHHHHHHHHhhcC---CHHHHHHHHHHHhhcC-C-CCCCCchhhhhhhhhcCCchHHHHHH
Q 036340          484 EDAMDLIKGM--PFEPDKAVWGALLGACRVHN---NVELAQVAAEALMKVE-P-ENSTPYVLLYNMYADVGRWDDANEVR  556 (579)
Q Consensus       484 ~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~  556 (579)
                      ..+.+.|.+.  ...++..+...+.+++.+.+   +.++++.+++.+.+.+ | ++...++.|+-+|.+.|++++|++++
T Consensus        15 ~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~   94 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYV   94 (152)
T ss_dssp             HHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3444444433  23468888889999998888   7779999999999988 7 55788999999999999999999999


Q ss_pred             HHHHhCCCC
Q 036340          557 LLMKSNNIK  565 (579)
Q Consensus       557 ~~~~~~~~~  565 (579)
                      +.+.+..+.
T Consensus        95 ~~lL~ieP~  103 (152)
T 1pc2_A           95 RGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHCTT
T ss_pred             HHHHhcCCC
Confidence            999876654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.62  E-value=0.11  Score=41.40  Aligned_cols=103  Identities=13%  Similarity=0.262  Sum_probs=67.3

Q ss_pred             HHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHh
Q 036340           69 GYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKC  148 (579)
Q Consensus        69 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  148 (579)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...     +..+.-.|...|+.+.-.++-+.+
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~kla~iA   86 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSKMQNIA   86 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHHHHHHH
Confidence            344667777777777665  4566777777777777777777777777533     445555556667776666665555


Q ss_pred             ccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          149 GSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       149 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ..+  +      -++.....+...|+++++.++|.+..
T Consensus        87 ~~~--g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           87 QTR--E------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHT--T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHC--c------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            443  1      24455555666788888888876653

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.60  E-value=0.66  Score=46.03  Aligned_cols=303  Identities=9%  Similarity=-0.018  Sum_probs=153.5

Q ss_pred             HHhcCCHHHHHHHHHhcCCCChhHHHHHHHHHH--hcCChHHHHHHhhcCCCCChh----hHHHHHHHHHhcCCHHHHHH
Q 036340          212 YAKAGDVVSAREIFEQMLERDTFSWNTMISGYI--HVLDMEEASNLFVKMPHPDTL----TWNAMVSGYAQIGNLELALD  285 (579)
Q Consensus       212 ~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~  285 (579)
                      ..+.|++..+..+...+..--...|...-..-.  ......+....+.+-  |+..    .-...+..+.+.+++.....
T Consensus        16 a~~~~~~~~~~~l~~~l~~~pL~~yl~y~~l~~~l~~~~~~ev~~Fl~~~--~~~p~~~~Lr~~~l~~l~~~~~w~~~l~   93 (618)
T 1qsa_A           16 AWDNRQMDVVEQMMPGLKDYPLYPYLEYRQITDDLMNQPAVTVTNFVRAN--PTLPPARTLQSRFVNELARREDWRGLLA   93 (618)
T ss_dssp             HHHTTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTGGGCCHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhhcCCCcHHHHHHHHHHhCcccCCHHHHHHHHHHC--CCChhHHHHHHHHHHHHHhCCCHHHHHH
Confidence            446688887777766663322222222111111  222456666666654  3322    22344566677888888888


Q ss_pred             HHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHH---Hh-----
Q 036340          286 FFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQM---VT-----  357 (579)
Q Consensus       286 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~-----  357 (579)
                      ++.. ...+...-.....+....|+...|....+.+-..|.. .......++..+...|........-+.   ..     
T Consensus        94 ~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~~~~~~  171 (618)
T 1qsa_A           94 FSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTG  171 (618)
T ss_dssp             HCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHH
T ss_pred             hccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHH
Confidence            7776 3334444444566677778877777777776655532 334455556555544443322211111   11     


Q ss_pred             ------hcCCCCch-HHHHHHHHhhhcCCHHHHHHHHHhccCCCCeee---HHHHHHHHHhcCChHHHHHHHHHhHhCC-
Q 036340          358 ------KTVIPDVP-INNALITMYARCGAIVEARIIFEEMKLLKNVVS---WNAMIGGCASHGFATEALELFKSMRSFK-  426 (579)
Q Consensus       358 ------~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  426 (579)
                            ..++++.. ....++..+.   +...+.......  .++...   +...+.-+. ..+.+.|...+....+.. 
T Consensus       172 ~a~~l~~~l~~~~~~~a~~~~al~~---~p~~~~~~~~~~--~~~~~~~~~~~~~~~rla-r~d~~~A~~~~~~~~~~~~  245 (618)
T 1qsa_A          172 LVTVLAGQMPADYQTIASAIISLAN---NPNTVLTFARTT--GATDFTRQMAAVAFASVA-RQDAENARLMIPSLAQAQQ  245 (618)
T ss_dssp             HHHHHHHTCCGGGHHHHHHHHHHHH---CGGGHHHHHHHS--CCCHHHHHHHHHHHHHHH-HHCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHh---ChHhHHHHHhcc--CCChhhHHHHHHHHHHHH-hcCHHHHHHHHHhhhhccC
Confidence                  11111111 1111111111   122222222211  122111   111122222 347788888888876433 


Q ss_pred             CCCChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCC--CHHHH
Q 036340          427 VLPTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEP--DKAVW  502 (579)
Q Consensus       427 ~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~  502 (579)
                      +.+...  ....+.......+...++...+......   .++.......+....+.|+++.|...|..++..+  .....
T Consensus       246 ~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~~  322 (618)
T 1qsa_A          246 LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWR  322 (618)
T ss_dssp             CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHHHHHHHHccccccccHhHH
Confidence            222221  3334444555666345555555554322   2333334444445557799999999999885433  23334


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhh
Q 036340          503 GALLGACRVHNNVELAQVAAEALMK  527 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~  527 (579)
                      --+.+++...|+.++|...|+++.+
T Consensus       323 YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          323 YWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            4455677788999999999998875

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.30  E-value=0.0059  Score=44.64  Aligned_cols=67  Identities=9%  Similarity=-0.083  Sum_probs=55.5

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC-------CCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVE-------PENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +..-+..++..+...|++..|...|+++++..       +..+.++..|+.+|.+.|++++|..+++++.+..+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P   77 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            45566788888999999999999999998743       22345688999999999999999999999886554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.82  E-value=0.058  Score=40.18  Aligned_cols=89  Identities=16%  Similarity=0.071  Sum_probs=59.1

Q ss_pred             cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH---HHHHHHhC-CCC-C--CHHHHHHHHHHHhhcCCHHHH
Q 036340          446 LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED---AMDLIKGM-PFE-P--DKAVWGALLGACRVHNNVELA  518 (579)
Q Consensus       446 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~-~--~~~~~~~l~~~~~~~~~~~~A  518 (579)
                      ....+.+-|...... + .|+..+-..++.++.+..+..+   ++.+++.. ... |  .....-.+.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            344445555554432 2 3666777777778877776665   67777765 222 3  223445566778899999999


Q ss_pred             HHHHHHHhhcCCCCCCCc
Q 036340          519 QVAAEALMKVEPENSTPY  536 (579)
Q Consensus       519 ~~~~~~~~~~~p~~~~~~  536 (579)
                      ...++.+++.+|+|..+.
T Consensus        94 ~~~~~~lL~~eP~n~QA~  111 (126)
T 1nzn_A           94 LKYVRGLLQTEPQNNQAK  111 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHHHhCCCCHHHH
Confidence            999999999999886543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.70  E-value=0.38  Score=38.37  Aligned_cols=46  Identities=20%  Similarity=0.215  Sum_probs=22.2

Q ss_pred             HhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          133 IQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       133 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ...|+++.|.++.+.+        .+...|..|+......|+++-|.+.|.+..
T Consensus        16 L~lg~l~~A~e~a~~l--------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL--------NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HHTTCHHHHHHHHHHH--------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             HhcCCHHHHHHHHHHh--------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            3445555555554442        123345555555555555555555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.56  E-value=0.079  Score=53.49  Aligned_cols=54  Identities=11%  Similarity=-0.021  Sum_probs=50.1

Q ss_pred             HHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          506 LGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       506 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ..-|...|+++-|+.+.+++....|.+..+|..|+.+|...|+|+.|+-.+.-+
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            355678899999999999999999999999999999999999999999998876

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=95.40  E-value=0.012  Score=44.82  Aligned_cols=102  Identities=11%  Similarity=0.045  Sum_probs=67.3

Q ss_pred             ChhhHHHHHHHhcccCcH------HHHHHHHHHhHHhhCCCCCc-chhHHHHHH------hhccCChHHHHHHHHhC-C-
Q 036340          430 TYITFISVLSACAHAGLV------EEGRQHFKSMVNEYGIEPRI-EHFASLVDI------VGRHGRLEDAMDLIKGM-P-  494 (579)
Q Consensus       430 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~------~~~~g~~~~A~~~~~~~-~-  494 (579)
                      |..+|...+....+.|+.      ++.+++|++++.  .++|+. ..+...+..      +...++.++|.++|+.+ . 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            445888888877777888      888899998876  456643 222233322      23457788888887776 1 


Q ss_pred             -CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          495 -FEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       495 -~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                       .+- ...|.....--.++|+...|.+++.+++.+.|....
T Consensus        90 hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~  129 (161)
T 4h7y_A           90 CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLE  129 (161)
T ss_dssp             CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHH
T ss_pred             hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHH
Confidence             111 555655556566788888888888888887776433

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.37  E-value=0.021  Score=49.65  Aligned_cols=105  Identities=13%  Similarity=0.111  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHhHHhhCCCCC---cchhHHHHHHhhc-----cCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHhh-cCC
Q 036340          447 VEEGRQHFKSMVNEYGIEPR---IEHFASLVDIVGR-----HGRLEDAMDLIKGM-PFEPD--KAVWGALLGACRV-HNN  514 (579)
Q Consensus       447 ~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~-~~~~~--~~~~~~l~~~~~~-~~~  514 (579)
                      ...|...++++++   +.|+   -..|..++..|..     -|+.++|.+.|++. .+.|+  ...+......++. .|+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            4556666666653   3555   4567777777777     38888888888877 45552  5666666776666 488


Q ss_pred             HHHHHHHHHHHhhcCCCC-CCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          515 VELAQVAAEALMKVEPEN-STPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      .+++...+++++...|.. |.  ..+.+    .+.-++|..+++++.
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~--~~lan----~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPH--NKLLV----ILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSS--CHHHH----HHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCC--hhHHH----HHHHHHHHHHHHHhH
Confidence            888888888888887774 33  23333    334466776666553

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.77  E-value=0.064  Score=40.98  Aligned_cols=98  Identities=9%  Similarity=0.087  Sum_probs=68.4

Q ss_pred             CCCeeeHHHHHHHHHhcCCh------HHHHHHHHHhHhCCCCCChh-hHHHHHH------HhcccCcHHHHHHHHHHhHH
Q 036340          393 LKNVVSWNAMIGGCASHGFA------TEALELFKSMRSFKVLPTYI-TFISVLS------ACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       393 ~~~~~~~~~l~~~~~~~~~~------~~A~~~~~~~~~~~~~p~~~-~~~~l~~------~~~~~~~~~~a~~~~~~~~~  459 (579)
                      +.|..+|-..+...-+.|++      ++..++|++... .++|+.. .+...+.      .+...++.++|.++|+.+++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45677788888888777888      888888888887 4666543 2222222      22345788888999988865


Q ss_pred             hhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC
Q 036340          460 EYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       460 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      . .-. =...|...++.-.++|+..+|.+++.+.
T Consensus        89 ~-hKk-FAKiwi~~AqFEiRqgnl~kARkILg~A  120 (161)
T 4h7y_A           89 N-CKK-FAFVHISFAQFELSQGNVKKSKQLLQKA  120 (161)
T ss_dssp             H-CTT-BHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             H-hHH-HHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            4 212 2566666777777899999999988776

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.68  E-value=0.14  Score=40.14  Aligned_cols=116  Identities=12%  Similarity=0.024  Sum_probs=57.0

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhcc----CCCCee-------eHHHHHHHHHhcCChHHHHHHHHHhHhCC-CCCChh-hH
Q 036340          368 NALITMYARCGAIVEARIIFEEMK----LLKNVV-------SWNAMIGGCASHGFATEALELFKSMRSFK-VLPTYI-TF  434 (579)
Q Consensus       368 ~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~-------~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~-~~  434 (579)
                      ..-+..+...|.++.|+-+.+-+.    ..|+..       ++..+..++...+++.+|...|++.+... .-+... +.
T Consensus        24 ~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~  103 (167)
T 3ffl_A           24 IDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVR  103 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC-------
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence            344555666666776666655432    233321       23445566666666666666666654221 111111 11


Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCC
Q 036340          435 ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEP  497 (579)
Q Consensus       435 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  497 (579)
                      ..+.    ......          ......++.+.-..++.+|.+.|++++|+.+++.++.+.
T Consensus       104 ~~~~----~~ss~p----------~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~  152 (167)
T 3ffl_A          104 PSTG----NSASTP----------QSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ  152 (167)
T ss_dssp             ---------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG
T ss_pred             cccc----ccCCCc----------ccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh
Confidence            0000    000000          000122334555668888888888888888888875443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.36  E-value=0.039  Score=41.11  Aligned_cols=71  Identities=10%  Similarity=-0.091  Sum_probs=58.4

Q ss_pred             CCCHHHHHHHHHHHhhcCCHHH---HHHHHHHHhhcC-C-CCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCCC
Q 036340          496 EPDKAVWGALLGACRVHNNVEL---AQVAAEALMKVE-P-ENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIKK  566 (579)
Q Consensus       496 ~~~~~~~~~l~~~~~~~~~~~~---A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  566 (579)
                      .|+..+-..+.+++.+..+...   ++.+++.+.+.. | ..-..++.|+-.+.+.|+|++|+.+++.+.+..+.+
T Consensus        32 ~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n  107 (126)
T 1nzn_A           32 SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQN  107 (126)
T ss_dssp             CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            4788888888889888776655   899999988876 5 455678899999999999999999999998766543

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=94.24  E-value=2.1  Score=35.71  Aligned_cols=120  Identities=13%  Similarity=0.101  Sum_probs=56.4

Q ss_pred             HHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHH
Q 036340           50 YLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALV  129 (579)
Q Consensus        50 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~  129 (579)
                      .+.+.+..+|...-...+..+.+.|+.+....+.+.+..++...-...+.++...++.+....+.+.+..+++..-...+
T Consensus        23 ~L~~~L~~~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~  102 (211)
T 3ltm_A           23 MYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAA  102 (211)
T ss_dssp             HHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHH
Confidence            33333445555555555555555555444444444444555555555555555555544444444444445555545555


Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCH
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRV  175 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  175 (579)
                      .++...|+.+ +...+..+..     .++...-...+.++...|+.
T Consensus       103 ~aL~~~~~~~-~~~~L~~~l~-----d~~~~vr~~a~~aL~~~~~~  142 (211)
T 3ltm_A          103 VALGQIGDER-AVEPLIKALK-----DEDWFVRIAAAFALGEIGDE  142 (211)
T ss_dssp             HHHHHHCCGG-GHHHHHHHTT-----CSSHHHHHHHHHHHHHHCCG
T ss_pred             HHHHHhCcHH-HHHHHHHHHh-----CCCHHHHHHHHHHHHHcCCH
Confidence            5555555432 3333333332     22333444444445544543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.16  E-value=0.8  Score=34.26  Aligned_cols=130  Identities=9%  Similarity=0.084  Sum_probs=84.7

Q ss_pred             CChHHHHHHHhhCC-CCCcchHHHHHHHHHccCCHHHHHHHhhcCCC-CchhhHHHHHHHHHhcCChhhHHHHHccCCCC
Q 036340           43 GFLEEARYLFDIMP-ERDCVTWNTVISGYAKTGEMEEALRLFNSMPA-RNVVSWNAMISGFLQNGDVANAIEFFDRMPGR  120 (579)
Q Consensus        43 ~~~~~A~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  120 (579)
                      |..++..++..+.. ..+..-||.++.-....-+-+-..+.++.+-. -|.          ...|++......+-.+ ..
T Consensus        21 G~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi----------s~C~NlKrVi~C~~~~-n~   89 (172)
T 1wy6_A           21 GYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKCQNLKSVVECGVIN-NT   89 (172)
T ss_dssp             TCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGCSCTHHHHHHHHHT-TC
T ss_pred             hhHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHHhhhcCc----------HhhhcHHHHHHHHHHh-cc
Confidence            33666666666655 34445566666666666666666666665541 111          1123333333333222 12


Q ss_pred             CcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          121 DSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       121 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      +.......+..+..+|+-++-.+++..+..   ..++++.....+..+|.+.|+..+|.+++.++-
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~---n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC  152 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK---NNEVSASILVAIANALRRVGDERDATTLLIEAC  152 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC-----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc---cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            344555667788899999999999999766   567778889999999999999999999998886

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.15  E-value=0.32  Score=36.93  Aligned_cols=72  Identities=10%  Similarity=0.051  Sum_probs=53.7

Q ss_pred             CCCCcchhHHHHHHhhccCChH---HHHHHHHhC-CCCC-C-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC
Q 036340          463 IEPRIEHFASLVDIVGRHGRLE---DAMDLIKGM-PFEP-D-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENST  534 (579)
Q Consensus       463 ~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~-~~~~-~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  534 (579)
                      -.|+..+-..++.++.+..+.+   +++.+++.. ...| + ....-.+.-++.+.|++++|.+..+.+++.+|+|..
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~Q  112 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQ  112 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHH
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHH
Confidence            3577888888888998887655   566677666 2234 2 334455667788999999999999999999999865

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.83  E-value=1.1  Score=33.97  Aligned_cols=70  Identities=13%  Similarity=0.016  Sum_probs=38.4

Q ss_pred             CCChhhHHHHHHHhcccCc---HHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCC
Q 036340          428 LPTYITFISVLSACAHAGL---VEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPD  498 (579)
Q Consensus       428 ~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~  498 (579)
                      .|+..+-..+..++.+...   ..+++.+++.+.+. +.....+....|+-++.+.|++++|+++.+.+ ..+|+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~-~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHH-CCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-CccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            4455554445555555443   34566666666553 21123445555666667777777777766665 44553

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.51  E-value=0.13  Score=38.42  Aligned_cols=74  Identities=11%  Similarity=0.072  Sum_probs=53.4

Q ss_pred             CCCCCcchhHHHHHHhhccCChH---HHHHHHHhC-CCCC--CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          462 GIEPRIEHFASLVDIVGRHGRLE---DAMDLIKGM-PFEP--DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       462 ~~~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~-~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      +-.|++.+-..++.++.+..+.+   +++.++++. ...|  ....+-.+.-++.+.|++++|.+..+.+++.+|+|..+
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA  114 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  114 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHH
Confidence            33567777778888888877654   566666665 2234  23455666677889999999999999999999988653

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=92.51  E-value=3.8  Score=33.66  Aligned_cols=83  Identities=13%  Similarity=0.131  Sum_probs=36.7

Q ss_pred             CCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHh
Q 036340           55 MPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQ  134 (579)
Q Consensus        55 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~  134 (579)
                      +..+|+..-...+..+.+.|+.+....+.+.+..++.......+.++...++.+....+.+.+..+++..-...+.++..
T Consensus        23 L~~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~  102 (201)
T 3ltj_A           23 LQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQ  102 (201)
T ss_dssp             TTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHH
T ss_pred             hcCCCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            33444444444444444444433333334444444444444444444444444333333333334444444444444444


Q ss_pred             CCC
Q 036340          135 NGE  137 (579)
Q Consensus       135 ~g~  137 (579)
                      .++
T Consensus       103 ~~~  105 (201)
T 3ltj_A          103 IGD  105 (201)
T ss_dssp             HCC
T ss_pred             hCc
Confidence            444

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=92.46  E-value=0.46  Score=35.56  Aligned_cols=71  Identities=13%  Similarity=0.020  Sum_probs=42.1

Q ss_pred             CCChhhHHHHHHHhcccC---cHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCCCH
Q 036340          428 LPTYITFISVLSACAHAG---LVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDK  499 (579)
Q Consensus       428 ~p~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~  499 (579)
                      .|+..|-..+..++.+..   +..+++.+++++.+. +..-..+.+..|+-++.+.|++++|.++.+.+ ...|+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~-~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE-AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH-CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-CcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC
Confidence            455555444555555544   344677777777654 21113455666777777777777777777766 555643

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.23  E-value=0.74  Score=36.05  Aligned_cols=104  Identities=8%  Similarity=-0.043  Sum_probs=52.4

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCc-------hhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCC-
Q 036340          124 SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDL-------VRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGN-  195 (579)
Q Consensus       124 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-  195 (579)
                      ++..-+..+...|.++.|+-+...+.... ..+++       ..++..++.++...|++.+|...|+++........+. 
T Consensus        22 ~l~dqik~L~d~~LY~sA~~La~lLlSl~-~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~  100 (167)
T 3ffl_A           22 NVIDHVRDMAAAGLHSNVRLLSSLLLTLS-NNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTS  100 (167)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHH-HHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhh-cCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            34444555666666666666655543321 11111       1245666777777777777777777653221100000 


Q ss_pred             ---------------ccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          196 ---------------VRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       196 ---------------~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                                     ....++...-.-+..+|.+.++++.|+.+++.+
T Consensus       101 s~~~~~~~~ss~p~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          101 KVRPSTGNSASTPQSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             ----------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             CccccccccCCCcccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                           011223334444556666666666666666655

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=92.13  E-value=13  Score=38.77  Aligned_cols=450  Identities=10%  Similarity=0.011  Sum_probs=215.2

Q ss_pred             HHHHHHHHHccCCHHHHHHHhhcCCCC-------------c-hhhHHHHH----HHHHhcCC--------hhhHHHHHcc
Q 036340           63 WNTVISGYAKTGEMEEALRLFNSMPAR-------------N-VVSWNAMI----SGFLQNGD--------VANAIEFFDR  116 (579)
Q Consensus        63 ~~~l~~~~~~~g~~~~A~~~~~~~~~~-------------~-~~~~~~l~----~~~~~~~~--------~~~A~~~~~~  116 (579)
                      ...++..|.+.|.+.+|..+.-+...-             + ...+..++    .+....-.        +.-+.++|.+
T Consensus       148 v~~iv~~cl~hnae~~AvdLalE~erLD~Le~~vd~~~~~~~~~n~~rvclYlls~v~~lv~p~~fr~~vLr~l~~Iy~k  227 (963)
T 4ady_A          148 FERMIEKCLKASELKLALGIALEGYRLDIIESALKSKLDQDSTSENVKIINYLLTLAITTVTNSKFRSSILRKSFDFLMN  227 (963)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhhHHHHHHHHHhhccccccccHHHHHHHHHHHhhccCCChHHHHHHHHHHHHHHHh
Confidence            455666677778888777776655421             1 12333322    22221111        2234555555


Q ss_pred             CCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCc
Q 036340          117 MPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNV  196 (579)
Q Consensus       117 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  196 (579)
                      +.   ..-|..+++.+.+.++.+.+.++|..+...    ......|. +.-.+.+.+...--.++.+.+.... ...+-.
T Consensus       228 ~~---~~dy~~a~~~ai~LnD~~li~~if~~l~~~----~d~l~ayQ-iAFdL~~~~~Q~fL~~v~~~l~~~e-~~~kL~  298 (963)
T 4ady_A          228 MP---NCDYLTLNKVVVNLNDAGLALQLFKKLKEE----NDEGLSAQ-IAFDLVSSASQQLLEILVTELTAQG-YDPALL  298 (963)
T ss_dssp             SS---SCCHHHHHHHHHHHTCHHHHHHHHHHHHTT----CCHHHHHH-HHHHHHHHSCHHHHHHHHHHHHHTT-CCHHHH
T ss_pred             CC---chhHHHHHHHHHHcCCHHHHHHHHHHHHhc----ccHHHHHH-HHHHHhcccchHHHHHHHHhccccc-hhHHHH
Confidence            43   234667788888899999999999997641    11122233 2222333222111111111110000 000000


Q ss_pred             cC---CcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-Chh--HHHHHHHHHHhcCChHHH-HHHhhcCC--CCChhhH
Q 036340          197 RF---KRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-DTF--SWNTMISGYIHVLDMEEA-SNLFVKMP--HPDTLTW  267 (579)
Q Consensus       197 ~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~--~~~~l~~~~~~~~~~~~a-~~~~~~~~--~~~~~~~  267 (579)
                      .+   .+....|...+.-. +.-+...-. .++..++. +..  +-..+.+++...|-.... +.......  ..+-.-+
T Consensus       299 ~ILsg~~~~~Lyl~FL~~~-n~~d~~~l~-~~K~~ld~r~s~~~~A~~f~Naf~naG~~~D~~l~~~~~Wl~k~~~~~k~  376 (963)
T 4ady_A          299 NILSGLPTCDYYNTFLLNN-KNIDIGLLN-KSKSSLDGKFSLFHTAVSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKF  376 (963)
T ss_dssp             HHTTSHHHHHHHHHHHHHH-CCCCHHHHH-HHHHHSCTTSHHHHHHHHHHHHHHTTTTCCCHHHHHCHHHHHHCCTHHHH
T ss_pred             HHhCCCChHHHHHHHHHhc-cccchhhHH-HHHhhhcchhhHHHHHHHHHHHHHhCCCCcchhhhcchhhhhccchHHHH
Confidence            11   11123333333211 112332222 23444432 221  233456777777654332 11111111  1221122


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHccCCCC----Chh--hHHHHHHHHHhCCCchHHHHHHHHHHHcCC--CCC---h----h
Q 036340          268 -NAMVSGYAQIGNLELALDFFKRMPQK----NLV--SWNSMIAGCETNKDYEGAIKLFIQMQVEGE--KPD---R----H  331 (579)
Q Consensus       268 -~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~---~----~  331 (579)
                       ....-+....|+.++++.+++.....    +..  .-..+.-+....|..+++..++.......-  .-+   .    .
T Consensus       377 sA~aSLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~g  456 (963)
T 4ady_A          377 TATASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHG  456 (963)
T ss_dssp             HHHHHHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHH
T ss_pred             HHHHHhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHH
Confidence             22234566789999999999987751    222  223334455666666678888777665321  000   1    1


Q ss_pred             hHHHHHHhccCCCchhhHHHHHHHHhhcCC-CCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeee--HHHHHHHHHh
Q 036340          332 TFSSILSMSSGIVDLHLGMQIHQMVTKTVI-PDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVS--WNAMIGGCAS  408 (579)
Q Consensus       332 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~l~~~~~~  408 (579)
                      ....+..++...++.+....+......... .....-.++...+.-.|+.+....++..+....+...  ...+.-++..
T Consensus       457 AaLGLGla~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~  536 (963)
T 4ady_A          457 ASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALIN  536 (963)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhh
Confidence            111222344455554444434333322111 0112223444556667887777777776542222222  2333444557


Q ss_pred             cCChHHHHHHHHHhHhCCCCCChh--hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHH
Q 036340          409 HGFATEALELFKSMRSFKVLPTYI--TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDA  486 (579)
Q Consensus       409 ~~~~~~A~~~~~~~~~~~~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  486 (579)
                      .|+.+.+..+++.+... ..|...  ....+.-+|+..|+.....+++..+...  ...++.-...++-++...|+.+.+
T Consensus       537 ~g~~e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v  613 (963)
T 4ady_A          537 YGRQELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTV  613 (963)
T ss_dssp             TTCGGGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSH
T ss_pred             CCChHHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHH
Confidence            88989888888888753 122222  1223455788999988888888887652  222333333444445556777767


Q ss_pred             HHHHHhCCCCCCHHHHHHHH--HHHhhcCC-HHHHHHHHHHHh
Q 036340          487 MDLIKGMPFEPDKAVWGALL--GACRVHNN-VELAQVAAEALM  526 (579)
Q Consensus       487 ~~~~~~~~~~~~~~~~~~l~--~~~~~~~~-~~~A~~~~~~~~  526 (579)
                      .++++.+....|+.+-....  -+....|. ..+++..+.++.
T Consensus       614 ~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          614 PRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            77776553233443333322  22333333 256777777775

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=92.11  E-value=4.5  Score=33.56  Aligned_cols=162  Identities=12%  Similarity=0.090  Sum_probs=106.7

Q ss_pred             HHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhH
Q 036340           15 RKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSW   94 (579)
Q Consensus        15 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~   94 (579)
                      ..+.+.+..+++..-...+..+...+.   .+..-.+.+.+..+|+.+-...+.++.+.|+.+....+.+.+..++...-
T Consensus        22 ~~L~~~L~~~~~~vR~~A~~~L~~~~~---~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr   98 (211)
T 3ltm_A           22 EMYIKNLQDDSYYVRRAAAYALGKIGD---ERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVR   98 (211)
T ss_dssp             HHHHHHTTCSSHHHHHHHHHHHHHHCC---GGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHHhCC---ccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHH
Confidence            334444455777777777777777766   44444555555577887777888888888876655566666667888877


Q ss_pred             HHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCC
Q 036340           95 NAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGR  174 (579)
Q Consensus        95 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  174 (579)
                      ...+.++.+.++.+....+.+.+..++...-...+.++...|.. ++...+..+..     .++..+-...+.++.+.+.
T Consensus        99 ~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~-----d~~~~vr~~a~~aL~~~~~  172 (211)
T 3ltm_A           99 QSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK-----DEDGWVRQSAADALGEIGG  172 (211)
T ss_dssp             HHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCG-GGHHHHHHHTT-----CSSHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHc-----CCCHHHHHHHHHHHHHhCc
Confidence            78888888888866555555656667777777777778777764 35555555554     2344556666677777665


Q ss_pred             HHHHHHHHcccc
Q 036340          175 VEEARKLFDKIP  186 (579)
Q Consensus       175 ~~~A~~~~~~~~  186 (579)
                       .++...+..+.
T Consensus       173 -~~~~~~L~~~l  183 (211)
T 3ltm_A          173 -ERVRAAMEKLA  183 (211)
T ss_dssp             -HHHHHHHHHHH
T ss_pred             -hhHHHHHHHHH
Confidence             34455555544

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=90.97  E-value=5.7  Score=32.56  Aligned_cols=166  Identities=11%  Similarity=0.078  Sum_probs=109.2

Q ss_pred             HHHHHHHhccCCCCchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCc
Q 036340           11 MAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARN   90 (579)
Q Consensus        11 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~   90 (579)
                      ...--.+++.+..+++......+.++...+.   ......+.+.+..+|+.+-...+.++.+.|+.+....+.+.+..++
T Consensus        13 ~~~~~~~i~~L~~~~~~vr~~A~~~L~~~~~---~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~   89 (201)
T 3ltj_A           13 PEKVEMYIKNLQDDSYYVRRAAAYALGKIGD---ERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDED   89 (201)
T ss_dssp             HHHHHHHHHHTTCSCHHHHHHHHHHHHHHCC---GGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSS
T ss_pred             CcchHHHHHHhcCCCHHHHHHHHHHHHhcCC---hhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCC
Confidence            3334445555666888777777777777766   4445555555557787777777788888887666666666666788


Q ss_pred             hhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHh
Q 036340           91 VVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYG  170 (579)
Q Consensus        91 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  170 (579)
                      +..-...+.++.+.++.+....+.+.+..++...-...+.++...++. ++...+..+..     .++...-...+.++.
T Consensus        90 ~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~-----d~~~~vr~~A~~aL~  163 (201)
T 3ltj_A           90 GWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK-----DEDGWVRQSAADALG  163 (201)
T ss_dssp             HHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCG-GGHHHHHHHTT-----CSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCH-HHHHHHHHHHc-----CCCHHHHHHHHHHHH
Confidence            887778888888888876655566666667776767777777777764 45555555554     234555666667777


Q ss_pred             hCCCHHHHHHHHcccc
Q 036340          171 QRGRVEEARKLFDKIP  186 (579)
Q Consensus       171 ~~g~~~~A~~~~~~~~  186 (579)
                      ..|+. ++...+..+.
T Consensus       164 ~~~~~-~~~~~L~~~l  178 (201)
T 3ltj_A          164 EIGGE-RVRAAMEKLA  178 (201)
T ss_dssp             HHCSH-HHHHHHHHHH
T ss_pred             HhCch-hHHHHHHHHH
Confidence            76654 4444444443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.50  E-value=5.7  Score=36.69  Aligned_cols=159  Identities=11%  Similarity=-0.022  Sum_probs=76.7

Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhcc----CCC---CeeeHHHHHHHHHhcC-ChHHHHHHHHHhHhCCCCCChhhH----
Q 036340          367 NNALITMYARCGAIVEARIIFEEMK----LLK---NVVSWNAMIGGCASHG-FATEALELFKSMRSFKVLPTYITF----  434 (579)
Q Consensus       367 ~~~l~~~~~~~~~~~~A~~~~~~~~----~~~---~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~p~~~~~----  434 (579)
                      ...++..|.+.|+.++..+++....    .-+   .......++..+.... ..+.-+++..+..+-. .-+..+|    
T Consensus        22 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~r~flr~~  100 (394)
T 3txn_A           22 ILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWA-KQEKRTFLRQS  100 (394)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHH-HHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            3456666777777777766666553    011   1112344555554432 2222233332222100 0011122    


Q ss_pred             --HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC----cchhHHHHHHhhccCChHHHHHHHHhC-----CCCCCHHHHH
Q 036340          435 --ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR----IEHFASLVDIVGRHGRLEDAMDLIKGM-----PFEPDKAVWG  503 (579)
Q Consensus       435 --~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~~~~~  503 (579)
                        ..++..|...|++.+|.+++..+.++..-..+    .+++..-+.+|...|++.++...+...     ...+++....
T Consensus       101 l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a  180 (394)
T 3txn_A          101 LEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQG  180 (394)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHH
Confidence              24556667777777777777766655332111    233444455666777777777666554     1113332221


Q ss_pred             HH----HHHHh-hcCCHHHHHHHHHHHh
Q 036340          504 AL----LGACR-VHNNVELAQVAAEALM  526 (579)
Q Consensus       504 ~l----~~~~~-~~~~~~~A~~~~~~~~  526 (579)
                      .+    +..+. ..+++..|...|-++.
T Consensus       181 ~i~~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          181 ALDLQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHhccCHHHHHHHHHHHH
Confidence            11    12234 5667777766655554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=90.33  E-value=4  Score=44.37  Aligned_cols=52  Identities=8%  Similarity=0.154  Sum_probs=28.3

Q ss_pred             HHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccC
Q 036340           65 TVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRM  117 (579)
Q Consensus        65 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  117 (579)
                      .++..+...|.++-+..+..... .++..-..++.++...|++++|.+.|++.
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-~~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-SDPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-CCcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            34444555555555555444332 33333345556666666666666666654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=90.07  E-value=3.8  Score=38.90  Aligned_cols=90  Identities=14%  Similarity=0.185  Sum_probs=60.9

Q ss_pred             HHHHHHhhccCChHHHHHHHHhCC-----CCCC---HHHHHHHHHHHhhcCCHHHHHHHHHHHhh---cCCCCC----CC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGMP-----FEPD---KAVWGALLGACRVHNNVELAQVAAEALMK---VEPENS----TP  535 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~p~~~----~~  535 (579)
                      ..|+..+...|++.+|.+++..+.     ..+.   ...+...++.|...+|+..|...+.++..   ..+..+    ..
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            467778888888888888887762     1111   23555566778888888888888888742   122222    24


Q ss_pred             chhhhhhhhhcCCchHHHHHHHHHH
Q 036340          536 YVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       536 ~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +...+..+...++|.+|...|.++-
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            5666777788888888887776653

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=89.57  E-value=18  Score=35.98  Aligned_cols=402  Identities=11%  Similarity=-0.013  Sum_probs=194.8

Q ss_pred             ccCCHHHHHHHhhcCCCCchhhHHHHHHHHH--hcCChhhHHHHHccCCCC-Cc-chHHHHHHHHHhCCCHHHHHHHHHH
Q 036340           72 KTGEMEEALRLFNSMPARNVVSWNAMISGFL--QNGDVANAIEFFDRMPGR-DS-ASLSALVSGLIQNGELDEAARVLVK  147 (579)
Q Consensus        72 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~A~~~~~~~~~~-~~-~~~~~l~~~~~~~g~~~~A~~~~~~  147 (579)
                      +.|++..+.++...+...-...|...-..-.  ......+...++++.... -. ..-...+..+.+.+++...+..+..
T Consensus        18 ~~~~~~~~~~l~~~l~~~pL~~yl~y~~l~~~l~~~~~~ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~~   97 (618)
T 1qsa_A           18 DNRQMDVVEQMMPGLKDYPLYPYLEYRQITDDLMNQPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSPE   97 (618)
T ss_dssp             HTTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTGGGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCCS
T ss_pred             HCCCHHHHHHHHHhhcCCCcHHHHHHHHHHhCcccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHHHhccC
Confidence            5677777777766664221222211111111  122455666666654431 11 1223344555666666655553321


Q ss_pred             hccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHh
Q 036340          148 CGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQ  227 (579)
Q Consensus       148 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  227 (579)
                             .|.+...-.....+....|+..+|....+.+-        ..| ...+..+..++..+.+.|.....      
T Consensus        98 -------~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW--------~~~-~~~p~~c~~l~~~~~~~g~lt~~------  155 (618)
T 1qsa_A           98 -------KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELW--------LTG-KSQPNACDKLFSVWRASGKQDPL------  155 (618)
T ss_dssp             -------CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHH--------SCS-SCCCTHHHHHHHHHHHTTCSCHH------
T ss_pred             -------CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH--------hCC-CCCcHHHHHHHHHHHHCCCCCHH------
Confidence                   24445555556666666777655554444432        111 22334566666666655543221      


Q ss_pred             cCCCChhHHHHHHHHHHhcCChHHHHHHhhcCCCCChh-hHHHHHHHHHhcCCHHHHHHHHccCCCCChhh---HHHHHH
Q 036340          228 MLERDTFSWNTMISGYIHVLDMEEASNLFVKMPHPDTL-TWNAMVSGYAQIGNLELALDFFKRMPQKNLVS---WNSMIA  303 (579)
Q Consensus       228 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~l~~  303 (579)
                             ..-.-+......|+...|..+...+ +++.. ....++..+..   ...+....... .++...   +..-+.
T Consensus       156 -------~~~~R~~~al~~~~~~~a~~l~~~l-~~~~~~~a~~~~al~~~---p~~~~~~~~~~-~~~~~~~~~~~~~~~  223 (618)
T 1qsa_A          156 -------AYLERIRLAMKAGNTGLVTVLAGQM-PADYQTIASAIISLANN---PNTVLTFARTT-GATDFTRQMAAVAFA  223 (618)
T ss_dssp             -------HHHHHHHHHHHTTCHHHHHHHHHTC-CGGGHHHHHHHHHHHHC---GGGHHHHHHHS-CCCHHHHHHHHHHHH
T ss_pred             -------HHHHHHHHHHHCCCHHHHHHHHHhC-CHHHHHHHHHHHHHHhC---hHhHHHHHhcc-CCChhhHHHHHHHHH
Confidence                   1112224455566667776666655 23322 22333333332   33333333332 222221   111222


Q ss_pred             HHHhCCCchHHHHHHHHHHHcCCCCChhhHH----HHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCC
Q 036340          304 GCETNKDYEGAIKLFIQMQVEGEKPDRHTFS----SILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGA  379 (579)
Q Consensus       304 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  379 (579)
                      -+. ..+.+.|...+........ .+.....    .+.......+....+...+..... ...+.......+....+.|+
T Consensus       224 rla-r~d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~e~~~r~Alr~~d  300 (618)
T 1qsa_A          224 SVA-RQDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM-RSQSTSLIERRVRMALGTGD  300 (618)
T ss_dssp             HHH-HHCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH-TCCCHHHHHHHHHHHHHHTC
T ss_pred             HHH-hcCHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc-cCCChHHHHHHHHHHHHCCC
Confidence            233 3478999999988875442 2332222    222334444524444445444222 22344444555555667899


Q ss_pred             HHHHHHHHHhccCCC-C-eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHh
Q 036340          380 IVEARIIFEEMKLLK-N-VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSM  457 (579)
Q Consensus       380 ~~~A~~~~~~~~~~~-~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  457 (579)
                      ++.|...|..+...+ + ....-=+..++...|+.++|..+|+.+...   .   +|..++. ..+.|....       .
T Consensus       301 ~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~~---~---~fYg~lA-a~~Lg~~~~-------~  366 (618)
T 1qsa_A          301 RRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQQ---R---GFYPMVA-AQRIGEEYE-------L  366 (618)
T ss_dssp             HHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS---C---SHHHHHH-HHHTTCCCC-------C
T ss_pred             HHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhcC---C---ChHHHHH-HHHcCCCCC-------C
Confidence            999999999986322 1 222233556777889999999999998741   2   2332221 112221000       0


Q ss_pred             HHhhCCCCC-cc-----hhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 036340          458 VNEYGIEPR-IE-----HFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEAL  525 (579)
Q Consensus       458 ~~~~~~~~~-~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  525 (579)
                       ......+. ..     ....-+..+...|....|...+..+....+......+.......|.+..++....+.
T Consensus       367 -~~~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~~  439 (618)
T 1qsa_A          367 -KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAG  439 (618)
T ss_dssp             -CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             -CCCCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence             00000010 00     111234456678888888777666522334444445555556677777776655443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=89.46  E-value=11  Score=33.64  Aligned_cols=112  Identities=14%  Similarity=0.114  Sum_probs=64.0

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHH----HHHHhHhCCCCCChhhHHHHHHHh
Q 036340          366 INNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE----LFKSMRSFKVLPTYITFISVLSAC  441 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~----~~~~~~~~~~~p~~~~~~~l~~~~  441 (579)
                      .|.++..-|.+.+++++|.+++-.-.            ..+.+.|+...|.+    +++-+.+.+++++......++..+
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~GA------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILASVS------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHH------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            34556666778888888888765432            23444455444333    334455556777776666666655


Q ss_pred             cccCc--HHHHHHHHHHhH---HhhCCCC--CcchhHHHHHHhhccCChHHHHHHH
Q 036340          442 AHAGL--VEEGRQHFKSMV---NEYGIEP--RIEHFASLVDIVGRHGRLEDAMDLI  490 (579)
Q Consensus       442 ~~~~~--~~~a~~~~~~~~---~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~  490 (579)
                      .....  .+. ..+.++++   .+.+-.|  ++.....++..|.+.+++.+|...|
T Consensus       105 ~~~~~~~p~r-~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          105 RLFQPGEPVR-KRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             TTSCTTCHHH-HHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhCCCCCcHH-HHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            44332  111 11222221   1223223  5677778888888888888887776

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=88.42  E-value=0.57  Score=43.70  Aligned_cols=67  Identities=19%  Similarity=0.041  Sum_probs=45.6

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH-----hCCCCCCCc
Q 036340          503 GALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK-----SNNIKKPTG  569 (579)
Q Consensus       503 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~  569 (579)
                      ..++.++...|++++++..++.+...+|-+-..+..|+.+|.+.|+..+|++.|+++.     +.|+.|.+.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            3445556667777777777777777777777777777777777777777777776653     346655544

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.17  E-value=1.8  Score=30.39  Aligned_cols=63  Identities=16%  Similarity=0.106  Sum_probs=46.1

Q ss_pred             CchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          310 DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       310 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      |.-+..+-++.+....+.|++......+.+|.+.+++..|.++++..+....+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHHH
Confidence            344566666777777788888888888888888888888888888866655555556666553

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.62  E-value=19  Score=34.06  Aligned_cols=94  Identities=9%  Similarity=0.088  Sum_probs=65.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhC--CCCCC---hhhHHHHHHHhcccCcHHHHHHHHHHhHHhh-CCCCC----cch
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSF--KVLPT---YITFISVLSACAHAGLVEEGRQHFKSMVNEY-GIEPR----IEH  469 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~----~~~  469 (579)
                      ..|...+...|++.+|..++..+...  |..+.   ...+...++.|...+++.+|..++.++.... ...++    ...
T Consensus       141 ~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~  220 (445)
T 4b4t_P          141 KDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEY  220 (445)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHH
Confidence            45777888899999999999887642  22221   1255666778889999999999988874321 12222    235


Q ss_pred             hHHHHHHhhccCChHHHHHHHHhC
Q 036340          470 FASLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       470 ~~~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      +...+..+...+++.+|-+.|.++
T Consensus       221 ~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          221 YNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHH
Confidence            566777788899999988877665

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=86.49  E-value=4.8  Score=28.27  Aligned_cols=61  Identities=15%  Similarity=0.259  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHH
Q 036340          412 ATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLV  474 (579)
Q Consensus       412 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  474 (579)
                      .-+..+-+..+....+.|++......+++|.+.+++..|.++++.+..+.+  +...+|..++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~l   86 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHH
Confidence            345666667777777888888888888888888888888888887765533  2234565554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=86.46  E-value=7.1  Score=42.43  Aligned_cols=82  Identities=7%  Similarity=-0.031  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHhcCC----CCh----hHHHHHHHHHHhcCChHHHHHHhhcCC--CCChhhHHHHH
Q 036340          202 IVSWNSMIMCYAKAGDVVSAREIFEQMLE----RDT----FSWNTMISGYIHVLDMEEASNLFVKMP--HPDTLTWNAMV  271 (579)
Q Consensus       202 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~  271 (579)
                      ..-|..++..+.+.+.++.+.++-...++    .+.    ..|..+.+.+...|++++|...+-.+.  ..-......|+
T Consensus       899 ~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV  978 (1139)
T 4fhn_B          899 SCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFV  978 (1139)
T ss_dssp             HHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            34566777777788887777766655432    221    246777788888888888877775543  12234456666


Q ss_pred             HHHHhcCCHHHH
Q 036340          272 SGYAQIGNLELA  283 (579)
Q Consensus       272 ~~~~~~g~~~~A  283 (579)
                      ..+++.|..+.-
T Consensus       979 ~~lce~~~~~~L  990 (1139)
T 4fhn_B          979 NQLTKQGKINQL  990 (1139)
T ss_dssp             HHHHHHCCHHHH
T ss_pred             HHHHhCCChhhh
Confidence            666666665443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=86.12  E-value=6.8  Score=27.34  Aligned_cols=53  Identities=17%  Similarity=0.129  Sum_probs=39.5

Q ss_pred             HHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcC
Q 036340          271 VSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEG  325 (579)
Q Consensus       271 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  325 (579)
                      +..+.+.|++++|..+.+..--||...|..|...  +.|-.+++..-+.++..+|
T Consensus        46 ~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           46 ISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHHHHTCS
T ss_pred             HHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHhCC
Confidence            3457788888888888888888888888766544  6777777777776776554

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=85.97  E-value=18  Score=32.07  Aligned_cols=114  Identities=9%  Similarity=-0.025  Sum_probs=68.0

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHH----HHHHhHhCCCCCChhhHHHHHHHh
Q 036340          366 INNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALE----LFKSMRSFKVLPTYITFISVLSAC  441 (579)
Q Consensus       366 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~----~~~~~~~~~~~p~~~~~~~l~~~~  441 (579)
                      .|.++..-|.+.+++++|.+++..-.            ..+.+.|+...|.+    +++-..+.+++++......++..+
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga------------~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGA------------LSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHH------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            34566667778888888888765432            23445566555444    455555667777777776666655


Q ss_pred             cccCcHH-HHHHHHHHhH---HhhCCC--CCcchhHHHHHHhhccCChHHHHHHHH
Q 036340          442 AHAGLVE-EGRQHFKSMV---NEYGIE--PRIEHFASLVDIVGRHGRLEDAMDLIK  491 (579)
Q Consensus       442 ~~~~~~~-~a~~~~~~~~---~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~  491 (579)
                      .....-+ .=.+++++++   .+.+-.  -++.....++..|.+.|++.+|...|-
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i  158 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM  158 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH
Confidence            4322111 1122222222   111222  267788889999999999999988663

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.49  E-value=3.5  Score=38.32  Aligned_cols=72  Identities=11%  Similarity=0.093  Sum_probs=48.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH----hhCCCCCcchhHH
Q 036340          400 NAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN----EYGIEPRIEHFAS  472 (579)
Q Consensus       400 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~~  472 (579)
                      ..++..+...|++++++..+..+.... +-+...+..++.++...|+..+|.+.|+.+.+    +.|+.|+..+-..
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            345566677788888888777776431 23555777888888888888888887776533    4577777665443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.35  E-value=4.9  Score=37.99  Aligned_cols=92  Identities=10%  Similarity=-0.004  Sum_probs=46.8

Q ss_pred             chhHHHHHHhhccCChHHHHHHHHhC-----CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCC--CCC----c
Q 036340          468 EHFASLVDIVGRHGRLEDAMDLIKGM-----PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPEN--STP----Y  536 (579)
Q Consensus       468 ~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~----~  536 (579)
                      .+...++..|.+.|++++|.+.+.++     ....-...+..+++.+...+|+..+...++++.......  +..    .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            34455666666666666666666555     112223345555566666666666666666665432111  111    1


Q ss_pred             hhhhhhhhhcCCchHHHHHHHHH
Q 036340          537 VLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       537 ~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ..-+..+...++|.+|...|-++
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~  234 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDS  234 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHH
Confidence            12233445556666666665544

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.34  E-value=7.5  Score=27.13  Aligned_cols=72  Identities=21%  Similarity=0.160  Sum_probs=40.7

Q ss_pred             CChHHHHHHHhhCC-CCCcchHHHH--HHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccC
Q 036340           43 GFLEEARYLFDIMP-ERDCVTWNTV--ISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRM  117 (579)
Q Consensus        43 ~~~~~A~~~~~~~~-~~~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  117 (579)
                      ...++|..+-+-+. .++ .-...+  +..+.++|+|++|..+.+...-||...|.+|-  -.+.|-.+++..-+.++
T Consensus        20 H~HqEA~tIAdwL~~~~~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALc--e~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ-DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALC--EWHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHH--HHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHH--HHhcccHHHHHHHHHHH
Confidence            34667766555443 333 222223  33456777777777777777777777765553  23555555555555443

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=85.10  E-value=18  Score=31.40  Aligned_cols=18  Identities=6%  Similarity=0.064  Sum_probs=8.0

Q ss_pred             cchHHHHHHHHHHHhcCC
Q 036340          200 RNIVSWNSMIMCYAKAGD  217 (579)
Q Consensus       200 ~~~~~~~~l~~~~~~~~~  217 (579)
                      ++..+-...+.++...|+
T Consensus       140 ~~~~vR~~a~~aL~~~~~  157 (280)
T 1oyz_A          140 KSTNVRRATAFAISVIND  157 (280)
T ss_dssp             SCHHHHHHHHHHHHTC--
T ss_pred             CCHHHHHHHHHHHHhcCC
Confidence            444444455555555554

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=84.98  E-value=7.9  Score=27.07  Aligned_cols=74  Identities=16%  Similarity=0.234  Sum_probs=40.5

Q ss_pred             CChHHHHHHHhhCC-CCCcchHHHH--HHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCChhhHHHHHccCCC
Q 036340           43 GFLEEARYLFDIMP-ERDCVTWNTV--ISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDVANAIEFFDRMPG  119 (579)
Q Consensus        43 ~~~~~A~~~~~~~~-~~~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  119 (579)
                      ...++|..+-+-+. .++ .-...+  +..+.++|+|++|..+.+...-||...|.+|-.  .+.|-.+++..-+.++..
T Consensus        21 H~HqEA~tIAdwL~~~~~-~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE-EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC-HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            34666666555443 233 222223  334566777777777777777777776655532  345555555555544433

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.88  E-value=21  Score=31.91  Aligned_cols=166  Identities=11%  Similarity=0.025  Sum_probs=96.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHH----HHHHHcCCCCChhhHHHHHHhccC
Q 036340          267 WNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLF----IQMQVEGEKPDRHTFSSILSMSSG  342 (579)
Q Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~l~~~~~~  342 (579)
                      |.++..-|.+.+++++|++++-.           -...+.+.|+...+.++.    +-..+.++++|..+...++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            34566668888999999887643           233455667766555544    455667888888888888877765


Q ss_pred             CCchhhHHH-----HHHH-Hhhc--CCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHH
Q 036340          343 IVDLHLGMQ-----IHQM-VTKT--VIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATE  414 (579)
Q Consensus       343 ~~~~~~a~~-----~~~~-~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  414 (579)
                      ....+..+.     .... .+.+  ..-++.....+...|.+.+++.+|+..|-- ...+.+..+..++.-+...+...+
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~il-g~~~s~~~~a~mL~ew~~~~~~~e  185 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVL-GTKESPEVLARMEYEWYKQDESHT  185 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTT-SCTTHHHHHHHHHHHHHHTSCGGG
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHh-cCCchHHHHHHHHHHHHHhcCCcc
Confidence            543221111     1222 2222  334677888899999999999999888742 212233455444444433332111


Q ss_pred             HHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          415 ALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       415 A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                                    ++...-..++ -|.-.++...|..+++...+
T Consensus       186 --------------~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 --------------APLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             --------------HHHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence                          1111222222 34556788888877666654

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=84.76  E-value=24  Score=32.54  Aligned_cols=25  Identities=28%  Similarity=0.155  Sum_probs=20.8

Q ss_pred             HHHHHHHhCCCchHHHHHHHHHHHc
Q 036340          300 SMIAGCETNKDYEGAIKLFIQMQVE  324 (579)
Q Consensus       300 ~l~~~~~~~~~~~~a~~~~~~~~~~  324 (579)
                      .++..|...|++.+|..++.++.+.
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~  128 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRE  128 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            5678888999999999988888764

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=83.36  E-value=0.53  Score=40.27  Aligned_cols=56  Identities=20%  Similarity=0.288  Sum_probs=38.4

Q ss_pred             HhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          476 IVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       476 ~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      .+.+.|++++|+..+... ...| |...-..++..++-.|++++|..-++...+++|.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            345677777777766544 3344 5666666677777777777777777777777776

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.30  E-value=3.5  Score=41.84  Aligned_cols=120  Identities=17%  Similarity=0.134  Sum_probs=78.5

Q ss_pred             HHHHHHHHccCC-HHHHHHHhhcCC--CCchhhHH--HHHHHHHhcCC-hhhHHHHHccC-----------CCCCcc---
Q 036340           64 NTVISGYAKTGE-MEEALRLFNSMP--ARNVVSWN--AMISGFLQNGD-VANAIEFFDRM-----------PGRDSA---  123 (579)
Q Consensus        64 ~~l~~~~~~~g~-~~~A~~~~~~~~--~~~~~~~~--~l~~~~~~~~~-~~~A~~~~~~~-----------~~~~~~---  123 (579)
                      ..++..+...|+ ++.|+.+|+++.  .|...++.  +++..+...++ --+|.+++.+.           ...+..   
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            455666666666 588999999887  34333322  23333323222 22333333322           122211   


Q ss_pred             -------hHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          124 -------SLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       124 -------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                             ....-+..+...|+++-|+++-+++..   ..|.+..+|..|..+|...|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                   122224456679999999999999998   668888999999999999999999999998884

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.99  E-value=2.1  Score=36.69  Aligned_cols=54  Identities=15%  Similarity=0.161  Sum_probs=42.8

Q ss_pred             HHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHcccc
Q 036340          130 SGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIP  186 (579)
Q Consensus       130 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  186 (579)
                      ..+.+.|+++++++.+..-++   ..|.+...-..+++.+|-.|++++|.+-++...
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR---~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIK---ASPKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHH---TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHH---hCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            445678888888888888777   567777778888888888888888888887765

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=82.72  E-value=23  Score=30.73  Aligned_cols=175  Identities=9%  Similarity=-0.001  Sum_probs=78.1

Q ss_pred             CCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHhcCCh----hhHHHHHcc--CCCCCcchHHHHHH
Q 036340           57 ERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQNGDV----ANAIEFFDR--MPGRDSASLSALVS  130 (579)
Q Consensus        57 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~A~~~~~~--~~~~~~~~~~~l~~  130 (579)
                      .+|+.+-...+..+.+.|..+....+.+.+..++.......+.++...|..    .....++..  ...++...-...+.
T Consensus        34 ~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~d~~~~vR~~A~~aL~~l~~~~~~~~~l~~~L~~~~~~d~~~~vr~~a~~  113 (280)
T 1oyz_A           34 DHNSLKRISSARVLQLRGGQDAVRLAIEFCSDKNYIRRDIGAFILGQIKICKKCEDNVFNILNNMALNDKSACVRATAIE  113 (280)
T ss_dssp             CSSHHHHHHHHHHHHHHCCHHHHHHHHHHHTCSSHHHHHHHHHHHHHSCCCTTTHHHHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHccCCchHHHHHHHHHcCCCHHHHHHHHHHHHHhccccccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            455555445555555555544333334434455555544555555555532    222233321  12344444444455


Q ss_pred             HHHhCCC-----HHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHH
Q 036340          131 GLIQNGE-----LDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSW  205 (579)
Q Consensus       131 ~~~~~g~-----~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  205 (579)
                      ++...+.     ...+...+..+..     .++..+-...+.++...|+.+ +...+..+.        .   .++..+-
T Consensus       114 aL~~l~~~~~~~~~~~~~~L~~~l~-----d~~~~vR~~a~~aL~~~~~~~-~~~~L~~~l--------~---d~~~~vr  176 (280)
T 1oyz_A          114 STAQRCKKNPIYSPKIVEQSQITAF-----DKSTNVRRATAFAISVINDKA-TIPLLINLL--------K---DPNGDVR  176 (280)
T ss_dssp             HHHHHHHHCGGGHHHHHHHHHHHTT-----CSCHHHHHHHHHHHHTC---C-CHHHHHHHH--------T---CSSHHHH
T ss_pred             HHHHHhccCCcccHHHHHHHHHHhh-----CCCHHHHHHHHHHHHhcCCHH-HHHHHHHHH--------c---CCCHHHH
Confidence            5544431     3445555555544     334445555666666666533 333333332        0   3444455


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHhc-CCCChhHHHHHHHHHHhcCC
Q 036340          206 NSMIMCYAKAG-DVVSAREIFEQM-LERDTFSWNTMISGYIHVLD  248 (579)
Q Consensus       206 ~~l~~~~~~~~-~~~~A~~~~~~~-~~~~~~~~~~l~~~~~~~~~  248 (579)
                      ...+.++...+ +...+...+..+ .+++...-...+.++...|+
T Consensus       177 ~~a~~aL~~~~~~~~~~~~~L~~~l~d~~~~vR~~A~~aL~~~~~  221 (280)
T 1oyz_A          177 NWAAFAININKYDNSDIRDCFVEMLQDKNEEVRIEAIIGLSYRKD  221 (280)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhhccCcHHHHHHHHHHhcCCCHHHHHHHHHHHHHhCC
Confidence            55555555544 122333333333 33455444445555555553

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=82.33  E-value=4.3  Score=30.30  Aligned_cols=62  Identities=15%  Similarity=0.083  Sum_probs=45.8

Q ss_pred             chHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHH
Q 036340          311 YEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALIT  372 (579)
Q Consensus       311 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~  372 (579)
                      .-+..+-++.+...++.|++......+.+|.+.+++..|..+++-.+.+..+...+|..+++
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lq  130 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHH
Confidence            33455666666677788888888888888888888888888888866666666666666553

---

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	579
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	2e-06
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	8e-06

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (121), Expect = 2e-07
 Identities = 40/390 (10%), Positives = 115/390 (29%), Gaps = 26/390 (6%)

Query: 171 QRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE 230
           Q G  E A +   ++           +   N      +   + +   +  +       ++
Sbjct: 11  QAGDFEAAERHCMQL---------WRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK 61

Query: 231 RD---TFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFF 287
           ++     +++ + + Y     ++EA   +           +  ++  A +          
Sbjct: 62  QNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAV 121

Query: 288 KRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLH 347
           +        + +      +     +   +L        +  +     ++   + G V   
Sbjct: 122 QAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNA 181

Query: 348 LG-----MQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLK--NVVSWN 400
            G     +   +         +     L  +         A   +     L   + V   
Sbjct: 182 QGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG 241

Query: 401 AMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVL-SACAHAGLVEEGRQHFKSMVN 459
            +       G    A++ ++  R+ ++ P +      L +A    G V E    + + + 
Sbjct: 242 NLACVYYEQGLIDLAIDTYR--RAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALR 299

Query: 460 EYGIEPRIEHFASLVDIVGRHGRLEDAMDLI-KGMPFEPDKAVWGALLGACRVH-NNVEL 517
                    +   L +I    G +E+A+ L  K +   P+ A   + L +       ++ 
Sbjct: 300 LCPTHADSLNN--LANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQE 357

Query: 518 AQVAAEALMKVEPENSTPYVLLYNMYADVG 547
           A +  +  +++ P  +  Y  + N   ++ 
Sbjct: 358 ALMHYKEAIRISPTFADAYSNMGNTLKEMQ 387

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.1 bits (113), Expect = 2e-06
 Identities = 39/354 (11%), Positives = 102/354 (28%), Gaps = 17/354 (4%)

Query: 212 YAKAGDVVSAREIFEQMLERD---TFSWNTMISGYIHVLDMEEASNLFVKM-----PHPD 263
             +AGD  +A     Q+  ++   T     + S +     ++ +++             +
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAE 68

Query: 264 TLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQV 323
             +    V          +         + + +     +A                   +
Sbjct: 69  AYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSAL 128

Query: 324 EGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEA 383
           +         S + ++   +  L      +    +T        + L  ++   G I  A
Sbjct: 129 QYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLA 188

Query: 384 RIIFEEMKLL--KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSAC 441
              FE+   L    + ++  +            A+  +    S       +   ++    
Sbjct: 189 IHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVY 247

Query: 442 AHAGLVEEGRQHFKSMVNEYGIEPRI-EHFASLVDIVGRHGRLEDAMDLIK--GMPFEPD 498
              GL++     ++  +    ++P   + + +L + +   G + +A D            
Sbjct: 248 YEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTH 304

Query: 499 KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDA 552
                 L    R   N+E A       ++V PE +  +  L ++    G+  +A
Sbjct: 305 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEA 358

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.2 bits (108), Expect = 8e-06
 Identities = 30/223 (13%), Positives = 80/223 (35%), Gaps = 23/223 (10%)

Query: 5   YVKRREMAKARKLFDEMPQRDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCV--- 61
           +  + E+  A   F++    D    +  I+     + +   + A   +            
Sbjct: 179 FNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAV 238

Query: 62  TWNTVISGYAKTGEMEEALRLFN---SMPARNVVSWNAMISGFLQNGDVANAIEFFDR-- 116
               +   Y + G ++ A+  +     +      ++  + +   + G VA A + ++   
Sbjct: 239 VHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTAL 298

Query: 117 -MPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRV 175
            +    + SL+ L +   + G ++EA R+  K         +   A++ L     Q+G++
Sbjct: 299 RLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF---PEFAAAHSNLASVLQQQGKL 355

Query: 176 EEARKLFDK-IPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGD 217
           +EA   + + I ++               ++++M     +  D
Sbjct: 356 QEALMHYKEAIRIS----------PTFADAYSNMGNTLKEMQD 388

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	579
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.62
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.19
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.15
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.12
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.08
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.06
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.04
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.03
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.97
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.82
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.8
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.77
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.77
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.67
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.66
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.65
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.6
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.59
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.58
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.52
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.39
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.38
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.36
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.29
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.28
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.28
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.27
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.24
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.24
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.19
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.15
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.15
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.14
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.05
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.96
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.89
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.88
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.85
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.85
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.8
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.72
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.61
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.32
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.28
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.9
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.33
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.0
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.93
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.92
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.85
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.12
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	89.76
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.07
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.78

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.7e-24  Score=204.28  Aligned_cols=373  Identities=12%  Similarity=0.104  Sum_probs=257.6

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHH
Q 036340          128 LVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNS  207 (579)
Q Consensus       128 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  207 (579)
                      ++..+.+.|++++|++.++++++   ..|.+..++..++.++...|++++|...++++...        . +.+..++..
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~---~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--------~-p~~~~a~~~   72 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWR---QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--------N-PLLAEAYSN   72 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------C-TTCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--------C-CCCHHHHHH
Confidence            45566677888888888888877   34566777888888888888888888888887621        1 335677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCCC---hhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLERD---TFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      ++.++.+.|++++|...+....+.+   ..............+....+........   .............        
T Consensus        73 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------  144 (388)
T d1w3ba_          73 LGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNL--------  144 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHH--------
T ss_pred             HHHHhhhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc--------
Confidence            8888888888888888887765432   2222222233333333322222222111   1222222223333        


Q ss_pred             HHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCC
Q 036340          282 LALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVI  361 (579)
Q Consensus       282 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  361 (579)
                                             ....+....+...+.+..... +.+...+..+...+...++.+.|...++......|
T Consensus       145 -----------------------~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  200 (388)
T d1w3ba_         145 -----------------------LKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP  200 (388)
T ss_dssp             -----------------------HHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT
T ss_pred             -----------------------ccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc
Confidence                                   333444444444444433322 11223333344444445555555555544333334


Q ss_pred             CCchHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHH
Q 036340          362 PDVPINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVL  438 (579)
Q Consensus       362 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~  438 (579)
                      .+...+..+...+...|++++|...+....  .+.+...+..+...+.+.|++++|+..|++..+.  .|+ ..++..+.
T Consensus       201 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~  278 (388)
T d1w3ba_         201 NFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLA  278 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHH
T ss_pred             ccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            455666778888888899999988888764  3445567788888999999999999999998864  565 44888888


Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVE  516 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~  516 (579)
                      ..+...|++++|.+.++.....  .+.+...+..++.++...|++++|+..+++. ...| +..++..++.++...|+++
T Consensus       279 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~  356 (388)
T d1w3ba_         279 NALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQ  356 (388)
T ss_dssp             HHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCH
T ss_pred             HHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            8999999999999999988754  3446678888999999999999999999886 5556 5778888999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC
Q 036340          517 LAQVAAEALMKVEPENSTPYVLLYNMYADVGR  548 (579)
Q Consensus       517 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  548 (579)
                      +|+..|+++++++|+++.+|..|+.+|.+.||
T Consensus       357 ~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         357 EALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999998875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.4e-22  Score=192.23  Aligned_cols=351  Identities=13%  Similarity=0.084  Sum_probs=289.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-ChhHHHHHHHHHHhcCChHHHHHHhhcCC---CCChhhHHHHHHHHHhcCCHH
Q 036340          208 MIMCYAKAGDVVSAREIFEQMLE--R-DTFSWNTMISGYIHVLDMEEASNLFVKMP---HPDTLTWNAMVSGYAQIGNLE  281 (579)
Q Consensus       208 l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~  281 (579)
                      ++..+.+.|++++|.+.++++++  | ++..+..+..++...|++++|+..|+++.   +.+..++..++.++.+.|+++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            56778899999999999999865  3 56788899999999999999999999887   455678999999999999999


Q ss_pred             HHHHHHccCCC---CChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhh
Q 036340          282 LALDFFKRMPQ---KNLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTK  358 (579)
Q Consensus       282 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  358 (579)
                      +|...+....+   .+...+..........+....+............. ...............+....+.........
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhhc
Confidence            99999988775   33344555555566667777777666666554433 334444455556667777777777777666


Q ss_pred             cCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHH
Q 036340          359 TVIPDVPINNALITMYARCGAIVEARIIFEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFIS  436 (579)
Q Consensus       359 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  436 (579)
                      ..+.+...+..+...+...|++++|...+++.. ..| +...|..+...+...|++++|+..+++..... +.+...+..
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  242 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGN  242 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHH
Confidence            667778888999999999999999999998764 334 56678899999999999999999999988643 334557888


Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~  513 (579)
                      +...+...|++++|...|+++++.   .| +...+..++.++...|++++|+..++..  ..+.+...+..+...+...|
T Consensus       243 l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            888999999999999999998753   45 5678889999999999999999999887  24457788899999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ++++|+..|+++++..|+++.++..++.+|...|++++|.+.++++.+..
T Consensus       320 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~  369 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999998654

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.4e-15  Score=137.86  Aligned_cols=244  Identities=11%  Similarity=0.003  Sum_probs=146.8

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhh
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYAR  376 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~  376 (579)
                      ..-.....+.+.|++++|+..|+++++.... +..++..+..++...|+++.|...+.......|.+...+..++.+|..
T Consensus        21 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          21 QPFEEGLRRLQEGDLPNAVLLFEAAVQQDPK-HMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTN   99 (323)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccc
Confidence            3445677788999999999999999876422 456677777777788888888888877555556667777777778888


Q ss_pred             cCCHHHHHHHHHhcc-CCCCeee----------------HHHHHHHHHhcCChHHHHHHHHHhHhCCC-CCChhhHHHHH
Q 036340          377 CGAIVEARIIFEEMK-LLKNVVS----------------WNAMIGGCASHGFATEALELFKSMRSFKV-LPTYITFISVL  438 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~~~~~----------------~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~~~~~~~l~  438 (579)
                      .|++++|.+.++... ..|+...                ....+..+...+.+.+|.+.+.+..+... .++...+..+.
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~  179 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLG  179 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhH
Confidence            888888887777653 2221100                11112223334455566666666553221 11233455555


Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNV  515 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~  515 (579)
                      ..+...|++++|+..+++.+..   .| +...+..++.++...|++++|.+.+++. ...| +...|..++.++...|++
T Consensus       180 ~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~  256 (323)
T d1fcha_         180 VLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAH  256 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCH
Confidence            5666666666666666666543   23 3455566666666666666666666655 2333 455566666666666666


Q ss_pred             HHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          516 ELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      ++|+..|+++++++|++..++..++..+.
T Consensus       257 ~~A~~~~~~al~l~p~~~~~~~~~~~~~~  285 (323)
T d1fcha_         257 REAVEHFLEALNMQRKSRGPRGEGGAMSE  285 (323)
T ss_dssp             HHHHHHHHHHHHHHHTC------CCCCCH
T ss_pred             HHHHHHHHHHHHhCCcChhhhhhhHHHHH
Confidence            66666666666666666655555544443

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=1.2e-14  Score=133.08  Aligned_cols=222  Identities=15%  Similarity=0.073  Sum_probs=103.2

Q ss_pred             hccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHH
Q 036340          339 MSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARIIFEEMK-L-LKNVVSWNAMIGGCASHGFATEAL  416 (579)
Q Consensus       339 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~  416 (579)
                      .+...|+++.|...++......|.+..++..++.++...|++++|...|.+.. . +.+...|..++.+|...|++++|+
T Consensus        28 ~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~  107 (323)
T d1fcha_          28 RRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQAC  107 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccccccccccccc
Confidence            34455555555555555444444445555555555555555555555555432 1 223344444555555555555555


Q ss_pred             HHHHHhHhCCCC--------------CChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCC
Q 036340          417 ELFKSMRSFKVL--------------PTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGR  482 (579)
Q Consensus       417 ~~~~~~~~~~~~--------------p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  482 (579)
                      +.+++.......              .+.......+..+...+.+.+|...+.+++......++...+..++.++...|+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         108 EILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             HHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             cchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            555554422100              000111112222233344455555555444331222233344445555555555


Q ss_pred             hHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH
Q 036340          483 LEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK  560 (579)
Q Consensus       483 ~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  560 (579)
                      +++|+..+++. ...| +...|..++..+...|++++|+..|+++++.+|+++.++..++.+|.+.|++++|.+.+++..
T Consensus       188 ~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  267 (323)
T d1fcha_         188 YDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEAL  267 (323)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555544 2222 344455555555555555555555555555555555555555555555555555555555544

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=2.1e-11  Score=109.74  Aligned_cols=188  Identities=10%  Similarity=0.085  Sum_probs=87.0

Q ss_pred             HhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcC-CHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHH
Q 036340          338 SMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCG-AIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATE  414 (579)
Q Consensus       338 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  414 (579)
                      ..+.+.+..+.|...++....-.|.+..+|+....++...| ++++|...++...  .+.+..+|..+...+.+.|++++
T Consensus        51 ~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~e  130 (315)
T d2h6fa1          51 AVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQ  130 (315)
T ss_dssp             HHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHH
Confidence            34444455555555555544444455555555555554443 2555555555442  22234445555555555555555


Q ss_pred             HHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCC------hHHH
Q 036340          415 ALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGR------LEDA  486 (579)
Q Consensus       415 A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~------~~~A  486 (579)
                      |+..++++.+  +.|+ ...|..+...+...|++++|++.++.+++.   .| +...|..++.++.+.+.      +++|
T Consensus       131 Al~~~~kal~--~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~---~p~n~~a~~~r~~~l~~~~~~~~~~~~~~a  205 (315)
T d2h6fa1         131 ELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYNDRAVLERE  205 (315)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCSHHHHHHH
T ss_pred             HHHHHhhhhh--hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---CCccHHHHHHHHHHHHHccccchhhhhHHh
Confidence            5555555553  2332 235555555555555555555555555432   23 33444444444333332      3344


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCC
Q 036340          487 MDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPE  531 (579)
Q Consensus       487 ~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  531 (579)
                      +..+.++ ...| +...|..+...+... ..+++...++++.++.|+
T Consensus       206 i~~~~~al~~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~  251 (315)
T d2h6fa1         206 VQYTLEMIKLVPHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPS  251 (315)
T ss_dssp             HHHHHHHHHHSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCC
Confidence            4444433 2222 344444444333222 234445555555554444

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.19  E-value=6.2e-10  Score=102.72  Aligned_cols=263  Identities=8%  Similarity=-0.069  Sum_probs=123.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHccCCC--CC------hhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCC-CC----hhhH
Q 036340          267 WNAMVSGYAQIGNLELALDFFKRMPQ--KN------LVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEK-PD----RHTF  333 (579)
Q Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~  333 (579)
                      .......+...|++++|+.++++..+  |+      ...+..+..++...|++++|+..|++..+.... ++    ..++
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            33445667788888888888876543  22      135666777888888888888888877643211 11    1222


Q ss_pred             HHHHHhccCCCchhhHHHHHHH-Hh---h-cCCC---CchHHHHHHHHhhhcCCHHHHHHHHHhcc-C------CCCeee
Q 036340          334 SSILSMSSGIVDLHLGMQIHQM-VT---K-TVIP---DVPINNALITMYARCGAIVEARIIFEEMK-L------LKNVVS  398 (579)
Q Consensus       334 ~~l~~~~~~~~~~~~a~~~~~~-~~---~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~------~~~~~~  398 (579)
                      ..+...+...|++..+...+.. ..   . ..+.   ....+..+...+...|+++.+...+.... .      ......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            3333444555555555555443 11   0 1111   11223334455555555555555554432 0      001112


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhHhCC--CCCC----hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC--Ccchh
Q 036340          399 WNAMIGGCASHGFATEALELFKSMRSFK--VLPT----YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP--RIEHF  470 (579)
Q Consensus       399 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~  470 (579)
                      +......+...++...+...+.+.....  ....    ...+..+...+...|+++.|...++.........+  ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            3333444445555555555554433211  0110    01223333344555555555555554432111000  01122


Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-------CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcC
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-------PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVE  529 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-------~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  529 (579)
                      ..++.++...|++++|...++++       +..| ....+..+..++...|++++|...+++++++.
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            33445555555555555555443       1222 12244444455555555555555555555443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.15  E-value=4.8e-11  Score=104.71  Aligned_cols=115  Identities=10%  Similarity=-0.099  Sum_probs=61.9

Q ss_pred             CchHHHHHHHHHHHcCCCCC---hhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHH
Q 036340          310 DYEGAIKLFIQMQVEGEKPD---RHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARII  386 (579)
Q Consensus       310 ~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  386 (579)
                      +.+.++.-+++........+   ..++..+..++...|+++.|...++......|.++.++..++.+|.+.|++++|...
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            34555555666554322111   123333444555666666666666664444555555666666666666666666666


Q ss_pred             HHhcc-CCC-CeeeHHHHHHHHHhcCChHHHHHHHHHhHh
Q 036340          387 FEEMK-LLK-NVVSWNAMIGGCASHGFATEALELFKSMRS  424 (579)
Q Consensus       387 ~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  424 (579)
                      |++.. ..| +..++..++.++...|++++|+..|++..+
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  133 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ  133 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            65543 222 344555555666666666666666666554

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.12  E-value=2.3e-10  Score=100.24  Aligned_cols=194  Identities=16%  Similarity=0.090  Sum_probs=100.8

Q ss_pred             hHHHHHHHHhhhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCCh-hhHHHHHHHh
Q 036340          365 PINNALITMYARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTY-ITFISVLSAC  441 (579)
Q Consensus       365 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~  441 (579)
                      .++..++.+|.+.|++++|...|++..  .+.++.+|..++.++.+.|++++|+..|+++.+.  .|+. .++..+..++
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHH
Confidence            355556666677777777777666653  2334556666666777777777777777766643  4433 3566666666


Q ss_pred             cccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhCC-CCCCHHHHHHHHHHH----hhcCCH
Q 036340          442 AHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGMP-FEPDKAVWGALLGAC----RVHNNV  515 (579)
Q Consensus       442 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~----~~~~~~  515 (579)
                      ...|++++|...++..++.   .| +......+...+.+.+..+.+..+..... ..+....+.. +..+    ...+..
T Consensus       116 ~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNI-VEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHH-HHHHTTSSCHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhH-HHHHHHHHHHHHHH
Confidence            6677777777777666543   23 23333333334444444333333322221 1111111111 1111    112223


Q ss_pred             HHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          516 ELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +.+...+.......|....++..++.+|...|++++|...+++..+.++
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            3333333333344455455566666666666677777666666665443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.11  E-value=1.2e-09  Score=100.82  Aligned_cols=271  Identities=9%  Similarity=-0.065  Sum_probs=143.3

Q ss_pred             hHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCCC-----C---
Q 036340          161 AYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLER-----D---  232 (579)
Q Consensus       161 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~---  232 (579)
                      ........+...|++++|++++++.....+.    ........++..+..++...|++++|...|++.++.     +   
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~----~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~   89 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPP----GWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHY   89 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT----TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcC----CCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHH
Confidence            4445567778899999999999887632110    000001346777888888999999999998877541     1   


Q ss_pred             -hhHHHHHHHHHHhcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCC----hhhHHHHHHHHHh
Q 036340          233 -TFSWNTMISGYIHVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKN----LVSWNSMIAGCET  307 (579)
Q Consensus       233 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~  307 (579)
                       ...+..+...+...|++..+...+....                        .+......+.    ...+..+...+..
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~a~~~~~~al------------------------~~~~~~~~~~~~~~~~~~~~la~~~~~  145 (366)
T d1hz4a_          90 ALWSLIQQSEILFAQGFLQTAWETQEKAF------------------------QLINEQHLEQLPMHEFLVRIRAQLLWA  145 (366)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------------HHHHHTTCTTSTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------------HHhHhcccchhhHHHHHHHHHHHHHHH
Confidence             1233444455555566555555554432                        0000000000    0122333344444


Q ss_pred             CCCchHHHHHHHHHHHcCCCCC----hhhHHHHHHhccCCCchhhHHHHHHH-Hh--hcCCC----CchHHHHHHHHhhh
Q 036340          308 NKDYEGAIKLFIQMQVEGEKPD----RHTFSSILSMSSGIVDLHLGMQIHQM-VT--KTVIP----DVPINNALITMYAR  376 (579)
Q Consensus       308 ~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~-~~--~~~~~----~~~~~~~l~~~~~~  376 (579)
                      .|+++.+...+...........    ..++......+...++...+...+.. ..  .....    ....+..+...+..
T Consensus       146 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  225 (366)
T d1hz4a_         146 WARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQM  225 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH
T ss_pred             hcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHh
Confidence            4555555554444433221111    11222222233333444444433332 00  01111    12234455666777


Q ss_pred             cCCHHHHHHHHHhcc-CCC-----CeeeHHHHHHHHHhcCChHHHHHHHHHhHh----CCCCCChh-hHHHHHHHhcccC
Q 036340          377 CGAIVEARIIFEEMK-LLK-----NVVSWNAMIGGCASHGFATEALELFKSMRS----FKVLPTYI-TFISVLSACAHAG  445 (579)
Q Consensus       377 ~~~~~~A~~~~~~~~-~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~p~~~-~~~~l~~~~~~~~  445 (579)
                      .|+++.|...+.... ..+     ....+..+..++...|++++|...+++...    .+..|+.. ++..+...|...|
T Consensus       226 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  305 (366)
T d1hz4a_         226 TGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAG  305 (366)
T ss_dssp             TTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCC
Confidence            788888888877654 111     122345567777888888888888877652    23344333 5666677777888


Q ss_pred             cHHHHHHHHHHhHH
Q 036340          446 LVEEGRQHFKSMVN  459 (579)
Q Consensus       446 ~~~~a~~~~~~~~~  459 (579)
                      ++++|.+.+++.++
T Consensus       306 ~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         306 RKSDAQRVLLDALK  319 (366)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            88888887776653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=6.7e-10  Score=99.66  Aligned_cols=223  Identities=11%  Similarity=0.063  Sum_probs=160.3

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC-hhhHHHHHHhccCCC-chhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          297 SWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPD-RHTFSSILSMSSGIV-DLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       297 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      .++.+...+.+.+.+++|+.+++++++.  .|+ ...|.....++...+ +++.|...++......+.+..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            5677777888999999999999999886  344 445566666666655 589999999998788888999999999999


Q ss_pred             hhcCCHHHHHHHHHhcc--CCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcc------cC
Q 036340          375 ARCGAIVEARIIFEEMK--LLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAH------AG  445 (579)
Q Consensus       375 ~~~~~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~------~~  445 (579)
                      .+.|++++|+..++.+.  .+.+...|..++..+...|++++|++.++++++.  .|+ ...|+.+...+..      .+
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchhh
Confidence            99999999999999875  3456778999999999999999999999999964  564 4467666555443      34


Q ss_pred             cHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC----CCCCCHHHHHHHHHHHhh--cCCHHHH
Q 036340          446 LVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM----PFEPDKAVWGALLGACRV--HNNVELA  518 (579)
Q Consensus       446 ~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~~l~~~~~~--~~~~~~A  518 (579)
                      .+++|++.+..+++.   .| +...+..+...+...| .+++.+.++..    +...+...+..++..+..  .+..+.+
T Consensus       201 ~~~~ai~~~~~al~~---~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         201 VLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhHHhHHHHHHHHHh---CCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence            478899888888754   45 5666766666655443 45666655544    222345555555555432  2444455


Q ss_pred             HHHHHHHhh
Q 036340          519 QVAAEALMK  527 (579)
Q Consensus       519 ~~~~~~~~~  527 (579)
                      ...++++.+
T Consensus       277 ~~~~~ka~~  285 (315)
T d2h6fa1         277 EDILNKALE  285 (315)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555554

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=4.2e-09  Score=94.40  Aligned_cols=220  Identities=7%  Similarity=0.014  Sum_probs=142.3

Q ss_pred             chHHHHHHHHHHHcCCCCChhhHHHHHHhccCC--------------CchhhHHHHHHH-HhhcCCCCchHHHHHHHHhh
Q 036340          311 YEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGI--------------VDLHLGMQIHQM-VTKTVIPDVPINNALITMYA  375 (579)
Q Consensus       311 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~  375 (579)
                      .+++..+|++++..- ..+...|...+.-+...              +..+.+..+++. .....+.+...+...+..+.
T Consensus        32 ~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            456777888877642 22344444444433221              123556667776 33334555667777777788


Q ss_pred             hcCCHHHHHHHHHhcc-CCCC--eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHH-HhcccCcHHHHH
Q 036340          376 RCGAIVEARIIFEEMK-LLKN--VVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLS-ACAHAGLVEEGR  451 (579)
Q Consensus       376 ~~~~~~~A~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~-~~~~~~~~~~a~  451 (579)
                      +.|+++.|..+|+.+. ..|.  ...|...+..+.+.|+.+.|.++|+++.+.+ +.+...|...+. -+...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHH
Confidence            8888888888888764 2332  2357777777778888888888888887543 222233433333 233457788888


Q ss_pred             HHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC----CCCCC--HHHHHHHHHHHhhcCCHHHHHHHHHHH
Q 036340          452 QHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM----PFEPD--KAVWGALLGACRVHNNVELAQVAAEAL  525 (579)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~  525 (579)
                      .+|+.++..+  +.+...+..++..+.+.|++++|..+|++.    +..|+  ...|...+..-...|+.+.+..+++++
T Consensus       190 ~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         190 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888887642  335667777888888888888888888775    22332  346777777667778888888888888


Q ss_pred             hhcCCCCCC
Q 036340          526 MKVEPENST  534 (579)
Q Consensus       526 ~~~~p~~~~  534 (579)
                      .+..|.+..
T Consensus       268 ~~~~~~~~~  276 (308)
T d2onda1         268 FTAFREEYE  276 (308)
T ss_dssp             HHHTTTTTS
T ss_pred             HHHCccccc
Confidence            888887655

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.04  E-value=2e-10  Score=104.76  Aligned_cols=229  Identities=7%  Similarity=-0.086  Sum_probs=151.5

Q ss_pred             CCchHHHHHHHHHHHcCCCCChhhHHHHHHhc--cCCCchhhHHHHHHHHhhcCCCCchHH-HHHHHHhhhcCCHHHHHH
Q 036340          309 KDYEGAIKLFIQMQVEGEKPDRHTFSSILSMS--SGIVDLHLGMQIHQMVTKTVIPDVPIN-NALITMYARCGAIVEARI  385 (579)
Q Consensus       309 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~A~~  385 (579)
                      |++++|+..+++..+...+ +...+.....++  ...++.+.+...+.......+++...+ ......+...+.++.|..
T Consensus        87 ~~~~~al~~~~~~l~~~pk-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~  165 (334)
T d1dcea1          87 ALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELA  165 (334)
T ss_dssp             HHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC-cHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHH
Confidence            3455666666666554321 333333333333  233345566666655333444444444 344567777888999999


Q ss_pred             HHHhcc-C-CCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCC
Q 036340          386 IFEEMK-L-LKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGI  463 (579)
Q Consensus       386 ~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  463 (579)
                      .++.+. . +.+...|+.+..++.+.|++++|...+++....  .|+..   .+...+...+..+++...+...+..  .
T Consensus       166 ~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~--~  238 (334)
T d1dcea1         166 FTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLG--R  238 (334)
T ss_dssp             HHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHS--C
T ss_pred             HHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHh--C
Confidence            988775 2 335667888888888888888876666554431  22222   2223344556667777777777643  3


Q ss_pred             CCCcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          464 EPRIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       464 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      +++...+..++..+...|+..+|...+.+. ...| +...+..++.++...|++++|+..++++++++|.+...|..|..
T Consensus       239 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~  318 (334)
T d1dcea1         239 AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRS  318 (334)
T ss_dssp             CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHH
T ss_pred             cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHH
Confidence            445666777788888899999999988876 4455 55678888899999999999999999999999998887887776


Q ss_pred             hhhh
Q 036340          542 MYAD  545 (579)
Q Consensus       542 ~~~~  545 (579)
                      .+.-
T Consensus       319 ~~~~  322 (334)
T d1dcea1         319 KFLL  322 (334)
T ss_dssp             HHHH
T ss_pred             HHhH
Confidence            6654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.03  E-value=1e-08  Score=91.73  Aligned_cols=211  Identities=12%  Similarity=0.022  Sum_probs=151.7

Q ss_pred             hHHHHHHHHhhcCCCCchHHHHHHHHhh--------------hcCCHHHHHHHHHhcc--CCC-CeeeHHHHHHHHHhcC
Q 036340          348 LGMQIHQMVTKTVIPDVPINNALITMYA--------------RCGAIVEARIIFEEMK--LLK-NVVSWNAMIGGCASHG  410 (579)
Q Consensus       348 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~--------------~~~~~~~A~~~~~~~~--~~~-~~~~~~~l~~~~~~~~  410 (579)
                      .+..+|+......+.++.+|...+..+.              ..+..++|..+|+...  ..| +...|...+..+...|
T Consensus        34 Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~  113 (308)
T d2onda1          34 RVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  113 (308)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcc
Confidence            3344555544444555555544444332              2234578888888764  133 4456778888888999


Q ss_pred             ChHHHHHHHHHhHhCCCCCC--hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHh-hccCChHHHH
Q 036340          411 FATEALELFKSMRSFKVLPT--YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIV-GRHGRLEDAM  487 (579)
Q Consensus       411 ~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~  487 (579)
                      +.+.|..+|+++.+.  .|.  ...|...+..+.+.|+++.|.++|+++++.  .+.+...+...+... ...|+.+.|.
T Consensus       114 ~~~~a~~i~~~~l~~--~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         114 KYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             CHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cHHHHHHHHHHHHHH--hcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHH
Confidence            999999999999854  443  336788888888999999999999998753  222445555555443 3468899999


Q ss_pred             HHHHhC--CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC----CchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          488 DLIKGM--PFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST----PYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       488 ~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      .+++.+  ..+.++..|...+..+...|+++.|..+|+++++..|.++.    .|...+......|+.+.+..+.+++.+
T Consensus       190 ~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         190 KIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999887  23446788999999999999999999999999998776553    466777777788999999999998755


Q ss_pred             C
Q 036340          562 N  562 (579)
Q Consensus       562 ~  562 (579)
                      .
T Consensus       270 ~  270 (308)
T d2onda1         270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.97  E-value=2.4e-10  Score=104.21  Aligned_cols=249  Identities=9%  Similarity=-0.055  Sum_probs=175.6

Q ss_pred             HhCCCchHHHHHHHHHHHcCCCCChhhH-H---HHHHhcc-------CCCchhhHHHHHHHHhhcCCCCchHHHHHHHHh
Q 036340          306 ETNKDYEGAIKLFIQMQVEGEKPDRHTF-S---SILSMSS-------GIVDLHLGMQIHQMVTKTVIPDVPINNALITMY  374 (579)
Q Consensus       306 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~---~l~~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~  374 (579)
                      ...+..++|++++++.++.  .|+..+. +   .++....       ..+.++.+..+++......|.+...+..+..++
T Consensus        40 ~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~  117 (334)
T d1dcea1          40 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLL  117 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHH
Confidence            3334457888888888764  4554432 1   1222222       234466777778876667777888888777777


Q ss_pred             hhcC--CHHHHHHHHHhcc--CCCCeeeHH-HHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHH
Q 036340          375 ARCG--AIVEARIIFEEMK--LLKNVVSWN-AMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVE  448 (579)
Q Consensus       375 ~~~~--~~~~A~~~~~~~~--~~~~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  448 (579)
                      ...+  ++++|...+..+.  .+++...+. .....+...+.+++|+..++++.+.  .|+ ...|..+..++...|+++
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~~~~~~~  195 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQP  195 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCC
T ss_pred             HHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCHH
Confidence            6655  4788988888764  234455554 4446677789999999999998854  554 458888888888899888


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhC--CCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHh
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGM--PFEPDKAVWGALLGACRVHNNVELAQVAAEALM  526 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  526 (579)
                      +|...++.....   .|.   ...+...+...+..+++...+...  ..+++...+..++..+...|+..+|...+.++.
T Consensus       196 ~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  269 (334)
T d1dcea1         196 DSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELE  269 (334)
T ss_dssp             CSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            877666555432   121   112333445566667777766655  233355566667777778899999999999999


Q ss_pred             hcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          527 KVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       527 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      +.+|.+..++..++.++...|++++|.++++++.+..+
T Consensus       270 ~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         270 PENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             TTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             hhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            99999999999999999999999999999999987553

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.82  E-value=2.8e-09  Score=88.95  Aligned_cols=121  Identities=7%  Similarity=-0.070  Sum_probs=100.5

Q ss_pred             CCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHH
Q 036340          428 LPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGA  504 (579)
Q Consensus       428 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~  504 (579)
                      .|+...+......+.+.|++++|+..|++++..   .| ++..|..++.+|.+.|++++|+..++++ ...| +...|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHH
Confidence            367777888888999999999999999998864   44 6788889999999999999999999887 5666 5778999


Q ss_pred             HHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchH
Q 036340          505 LLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDD  551 (579)
Q Consensus       505 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  551 (579)
                      ++.++...|++++|+..|++++++.|++...+...+..+...+....
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~  124 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKR  124 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHhH
Confidence            99999999999999999999999999887777777666665544333

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=7.4e-09  Score=77.06  Aligned_cols=98  Identities=14%  Similarity=0.102  Sum_probs=47.6

Q ss_pred             HHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCH
Q 036340          439 SACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNV  515 (579)
Q Consensus       439 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~  515 (579)
                      ..+...|++++|+.+|+++++.   .| +...|..++.+|...|++++|+..+.+. .. +.++..|..++.++...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3445555555555555555432   22 3444455555555555555555555444 11 22444455555555555555


Q ss_pred             HHHHHHHHHHhhcCCCCCCCchhh
Q 036340          516 ELAQVAAEALMKVEPENSTPYVLL  539 (579)
Q Consensus       516 ~~A~~~~~~~~~~~p~~~~~~~~l  539 (579)
                      ++|+..|+++++.+|+++.++..+
T Consensus        88 ~~A~~~~~~a~~~~p~~~~~~~~l  111 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHH
Confidence            555555555555555554444333

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=1.7e-08  Score=82.67  Aligned_cols=137  Identities=12%  Similarity=0.006  Sum_probs=103.0

Q ss_pred             HHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccC
Q 036340          403 IGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHG  481 (579)
Q Consensus       403 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  481 (579)
                      +..+...|++++|++.|.++    .+|+..++..+..+|...|++++|++.|++.++-   .| .+..|..++.++.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l---dp~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DKHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH---hhhhhhhHHHHHHHHHhhc
Confidence            55667889999999988764    2567778888888999999999999999988853   45 5678888888999999


Q ss_pred             ChHHHHHHHHhC--CCCCC----------------HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhh
Q 036340          482 RLEDAMDLIKGM--PFEPD----------------KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMY  543 (579)
Q Consensus       482 ~~~~A~~~~~~~--~~~~~----------------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  543 (579)
                      ++++|+..|++.  -.+++                ..++..+..++...|++++|.+.+++++++.|+.           
T Consensus        85 ~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~-----------  153 (192)
T d1hh8a_          85 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------  153 (192)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------
T ss_pred             cHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-----------
Confidence            999998888775  11111                2345567777888899999999999988888862           


Q ss_pred             hhcCCchHHHHHHHH
Q 036340          544 ADVGRWDDANEVRLL  558 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~  558 (579)
                       ..+..+.|+..+.+
T Consensus       154 -~~~~~~~Al~~~~~  167 (192)
T d1hh8a_         154 -RHSKIDKAMECVWK  167 (192)
T ss_dssp             -GGGHHHHHHHHHHT
T ss_pred             -chHHHHHHHHHHHh
Confidence             44445666655544

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=1.4e-08  Score=75.56  Aligned_cols=93  Identities=11%  Similarity=0.123  Sum_probs=78.3

Q ss_pred             HHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCc
Q 036340          472 SLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRW  549 (579)
Q Consensus       472 ~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  549 (579)
                      .-+..+...|++++|+..|++. ...| ++..|..++.++.+.|++++|+..++++++++|+++.+|..++.++...|++
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            3456778889999999998887 3334 7778888888888999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhCCC
Q 036340          550 DDANEVRLLMKSNNI  564 (579)
Q Consensus       550 ~~A~~~~~~~~~~~~  564 (579)
                      ++|...+++..+..+
T Consensus        88 ~~A~~~~~~a~~~~p  102 (117)
T d1elwa_          88 EEAKRTYEEGLKHEA  102 (117)
T ss_dssp             HHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999998886554

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=6e-08  Score=79.35  Aligned_cols=148  Identities=9%  Similarity=-0.052  Sum_probs=115.5

Q ss_pred             HHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChh-hHHHHHHHhcccCcHHH
Q 036340          371 ITMYARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYI-TFISVLSACAHAGLVEE  449 (579)
Q Consensus       371 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~  449 (579)
                      ...+...|+++.|++.|.++. +|++.+|..++.+|...|++++|++.|++.++  +.|+.. .|..+..++.+.|++++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHH--HhhhhhhhHHHHHHHHHhhccHHH
Confidence            556778899999999999987 77888899999999999999999999999996  456544 88889999999999999


Q ss_pred             HHHHHHHhHHhhCCCCC--------------cchhHHHHHHhhccCChHHHHHHHHhC-CCCCCHHHHHHHHHHHhhcCC
Q 036340          450 GRQHFKSMVNEYGIEPR--------------IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEPDKAVWGALLGACRVHNN  514 (579)
Q Consensus       450 a~~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~l~~~~~~~~~  514 (579)
                      |...|++.+....-.+.              ..++..++.++.+.|++++|.+.+... ...|+.           ..+.
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~-----------~~~~  157 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------RHSK  157 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------GGGH
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-----------chHH
Confidence            99999988753111111              134567788899999999999999876 455543           3445


Q ss_pred             HHHHHHHHHHHhhcCCCC
Q 036340          515 VELAQVAAEALMKVEPEN  532 (579)
Q Consensus       515 ~~~A~~~~~~~~~~~p~~  532 (579)
                      .+.|+..+.+.....|..
T Consensus       158 ~~~Al~~~~~~~~~~~~~  175 (192)
T d1hh8a_         158 IDKAMECVWKQKLYEPVV  175 (192)
T ss_dssp             HHHHHHHHHTTCCCCCCC
T ss_pred             HHHHHHHHHhhhhCCccc
Confidence            567777666666566643

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.76  E-value=4.7e-09  Score=77.40  Aligned_cols=92  Identities=13%  Similarity=0.010  Sum_probs=82.2

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV  546 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  546 (579)
                      ....++..+.+.|++++|+..+++. ...| ++..|..++.++.+.|++++|+..++++++++|+++.++..++.+|...
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHC
Confidence            3445677888999999999999887 3445 6889999999999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHH
Q 036340          547 GRWDDANEVRLLMK  560 (579)
Q Consensus       547 g~~~~A~~~~~~~~  560 (579)
                      |++++|.+.+++..
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999999864

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.76  E-value=1.3e-08  Score=84.72  Aligned_cols=95  Identities=6%  Similarity=-0.034  Sum_probs=78.2

Q ss_pred             CCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhH
Q 036340          394 KNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFA  471 (579)
Q Consensus       394 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~  471 (579)
                      |+...+...+..+.+.|++++|+..|++.+..  .|+ ...|..+..+|...|++++|+..|+.++   .+.| +...|.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~   76 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHF   76 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHH
Confidence            55556667788899999999999999988864  454 4578888889999999999999999887   4566 567888


Q ss_pred             HHHHHhhccCChHHHHHHHHhC
Q 036340          472 SLVDIVGRHGRLEDAMDLIKGM  493 (579)
Q Consensus       472 ~l~~~~~~~g~~~~A~~~~~~~  493 (579)
                      .++.+|.+.|++++|+..|+++
T Consensus        77 ~lg~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          77 FLGQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHH
Confidence            8999999999999999998876

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.67  E-value=6.5e-08  Score=85.51  Aligned_cols=194  Identities=9%  Similarity=-0.053  Sum_probs=127.8

Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhcc----CCCC----eeeHHHHHHHHHhcCChHHHHHHHHHhHhCCC---CCC--hhh
Q 036340          367 NNALITMYARCGAIVEARIIFEEMK----LLKN----VVSWNAMIGGCASHGFATEALELFKSMRSFKV---LPT--YIT  433 (579)
Q Consensus       367 ~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~p~--~~~  433 (579)
                      |...+..|...+++++|.+.|.+..    ...+    ..+|..++.+|.+.|++++|++.+++..+...   .+.  ..+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            3456778888899999999888763    1111    34688889999999999999999988654211   111  235


Q ss_pred             HHHHHHHhc-ccCcHHHHHHHHHHhHHhh---CCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CC---CC----CH-
Q 036340          434 FISVLSACA-HAGLVEEGRQHFKSMVNEY---GIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PF---EP----DK-  499 (579)
Q Consensus       434 ~~~l~~~~~-~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~---~~----~~-  499 (579)
                      +..+...|. ..|++++|++.++++..-.   +.++ ...++..++.++...|++++|...++++ ..   .+    .. 
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            566666664 4699999999998876432   1111 1345778899999999999999999886 11   11    11 


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC-----chhhhhhhhh--cCCchHHHHHHHHHH
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP-----YVLLYNMYAD--VGRWDDANEVRLLMK  560 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~~--~g~~~~A~~~~~~~~  560 (579)
                      ..+...+..+...|+++.|...++++.+.+|..+..     +..++.++..  .+.+++|+..++++.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            223444556678899999999999999998875543     2344555544  345778887776544

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=3.5e-08  Score=78.26  Aligned_cols=116  Identities=9%  Similarity=-0.001  Sum_probs=90.4

Q ss_pred             HHHHhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcC
Q 036340          437 VLSACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHN  513 (579)
Q Consensus       437 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~  513 (579)
                      -...|.+.|++++|+..|+++++.   .| +...|..++.++...|++++|+..|+++ ...| +...|..++.++...|
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            345677888888888888888754   44 6677888888888889999998888877 4344 6678888999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhh--hhcCCchHHHHH
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMY--ADVGRWDDANEV  555 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  555 (579)
                      ++++|+..+++++++.|+++.++..+..+.  ...+.+++|...
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            999999999999999999888777766553  344556666544

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=2e-08  Score=79.69  Aligned_cols=93  Identities=11%  Similarity=0.033  Sum_probs=84.2

Q ss_pred             HHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCc
Q 036340          472 SLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRW  549 (579)
Q Consensus       472 ~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  549 (579)
                      ..+..+.+.|++++|+..|+++ ...| +...|..++.++...|++++|+..|+++++++|+++.+|..++.++...|++
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456788999999999999988 3444 7889999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHhCCC
Q 036340          550 DDANEVRLLMKSNNI  564 (579)
Q Consensus       550 ~~A~~~~~~~~~~~~  564 (579)
                      ++|...+++..+...
T Consensus        95 ~eA~~~~~~a~~~~p  109 (159)
T d1a17a_          95 RAALRDYETVVKVKP  109 (159)
T ss_dssp             HHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCC
Confidence            999999999987653

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.60  E-value=4.3e-07  Score=80.10  Aligned_cols=167  Identities=14%  Similarity=0.055  Sum_probs=115.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHhhcCCC-----Cc----hhhHHHHHHHHHhcCChhhHHHHHccCCC-----CC----cch
Q 036340           63 WNTVISGYAKTGEMEEALRLFNSMPA-----RN----VVSWNAMISGFLQNGDVANAIEFFDRMPG-----RD----SAS  124 (579)
Q Consensus        63 ~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~  124 (579)
                      |......|...|++++|...|+++..     .+    ..+|..++.+|.+.|++++|++.+++...     .+    ...
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            44557788888899988888887751     12    24678888899999999999988887543     11    234


Q ss_pred             HHHHHHHHH-hCCCHHHHHHHHHHhccCCC--CC-CCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCc
Q 036340          125 LSALVSGLI-QNGELDEAARVLVKCGSRCD--GG-EDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKR  200 (579)
Q Consensus       125 ~~~l~~~~~-~~g~~~~A~~~~~~~~~~~~--~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  200 (579)
                      +..+...+. ..|++++|++.++++.....  +. +....++..++..+...|++++|.+.|+++.......   .....
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~---~~~~~  196 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGN---RLSQW  196 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSC---TTTGG
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccc---hhhhh
Confidence            555666664 46999999999998764210  11 1224468889999999999999999999976332111   01111


Q ss_pred             c-hHHHHHHHHHHHhcCCHHHHHHHHHhcCCCC
Q 036340          201 N-IVSWNSMIMCYAKAGDVVSAREIFEQMLERD  232 (579)
Q Consensus       201 ~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  232 (579)
                      . ...+...+.++...|+++.|...+++..+.+
T Consensus       197 ~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             hHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            2 1234456667788999999999999987754

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=9.3e-08  Score=76.46  Aligned_cols=84  Identities=13%  Similarity=0.071  Sum_probs=70.8

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV  546 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  546 (579)
                      +|..++.+|.+.|++++|+..+++. ...| ++..+..++.++...|++++|+..|+++++++|+++.+...+..+....
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4667888999999999999999887 4445 7889999999999999999999999999999999998888888877666


Q ss_pred             CCchHH
Q 036340          547 GRWDDA  552 (579)
Q Consensus       547 g~~~~A  552 (579)
                      +...+.
T Consensus       144 ~~~~~~  149 (170)
T d1p5qa1         144 RRQLAR  149 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.58  E-value=3.8e-08  Score=73.19  Aligned_cols=104  Identities=14%  Similarity=0.026  Sum_probs=79.6

Q ss_pred             HHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCC---hHHHHHHHHhC-CCCCCH---HHHHHHHH
Q 036340          435 ISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGR---LEDAMDLIKGM-PFEPDK---AVWGALLG  507 (579)
Q Consensus       435 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~~~~---~~~~~l~~  507 (579)
                      ..++..+...+++++|.+.|++.+..  -+.++.++..++.++.+.++   +++|+.+++++ ...|++   ..|..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            34666777888999999999988754  13367888888888887554   45688888886 444433   36778889


Q ss_pred             HHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhh
Q 036340          508 ACRVHNNVELAQVAAEALMKVEPENSTPYVLLY  540 (579)
Q Consensus       508 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  540 (579)
                      +|.+.|++++|+..|+++++++|++..+...+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~  113 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELER  113 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            999999999999999999999999876555443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.52  E-value=5.5e-06  Score=71.72  Aligned_cols=232  Identities=11%  Similarity=-0.073  Sum_probs=133.8

Q ss_pred             ChhhHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHH
Q 036340          294 NLVSWNSMIAGCETNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITM  373 (579)
Q Consensus       294 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~  373 (579)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..+...+...                              
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G------------------------------   47 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQG------------------------------   47 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT------------------------------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC------------------------------
Confidence            45566677777778888888888888887765   223332222222110                              


Q ss_pred             hhhcCCHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHhCCCCCChhhHH-HHHHHhcccCcHH
Q 036340          374 YARCGAIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRSFKVLPTYITFI-SVLSACAHAGLVE  448 (579)
Q Consensus       374 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~  448 (579)
                      .....++..|...+.......++.....+...+..    .++.+.|...++...+.|..+....+. .............
T Consensus        48 ~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~  127 (265)
T d1ouva_          48 QGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFK  127 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             CCcchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhH
Confidence            00123444555554444322233333334333332    345677777777776655322211111 1111223344566


Q ss_pred             HHHHHHHHhHHhhCCCCCcchhHHHHHHhhc----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHH
Q 036340          449 EGRQHFKSMVNEYGIEPRIEHFASLVDIVGR----HGRLEDAMDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQV  520 (579)
Q Consensus       449 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~  520 (579)
                      .+...+.....    ..+...+..++..+..    ..+...+...++......+......+...+..    ..++++|+.
T Consensus       128 ~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~  203 (265)
T d1ouva_         128 KAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALA  203 (265)
T ss_dssp             HHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHH
T ss_pred             HHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhh
Confidence            66666665433    2344555566666654    44566666666665333466666666666554    568999999


Q ss_pred             HHHHHhhcCCCCCCCchhhhhhhhh----cCCchHHHHHHHHHHhCCC
Q 036340          521 AAEALMKVEPENSTPYVLLYNMYAD----VGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       521 ~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  564 (579)
                      .|+++.+..  ++.++..|+.+|.+    ..++++|.++|++..+.|.
T Consensus       204 ~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         204 RYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            999998775  45678888888875    4478899999999887774

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.39  E-value=1.1e-06  Score=69.86  Aligned_cols=91  Identities=13%  Similarity=0.096  Sum_probs=72.4

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhc
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADV  546 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  546 (579)
                      +|..++.+|.+.|++++|+..+++. .. +.+...|..++.++...|++++|+..|+++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4667888899999999999999887 33 447888999999999999999999999999999999988888887777666


Q ss_pred             CCchH-HHHHHHHH
Q 036340          547 GRWDD-ANEVRLLM  559 (579)
Q Consensus       547 g~~~~-A~~~~~~~  559 (579)
                      +...+ ..+.+..|
T Consensus       146 ~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         146 KEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHH
Confidence            55443 34444443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.38  E-value=4e-07  Score=72.64  Aligned_cols=113  Identities=9%  Similarity=-0.050  Sum_probs=84.3

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhc
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVH  512 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  512 (579)
                      .+......+.+.|++++|+..|++++.-.+..+....-            .......+       ...+|..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~------------~~~~~~~~-------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE------------EAQKAQAL-------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH------------HHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH------------HHhhhchh-------HHHHHHHHHHHHHhh
Confidence            34455567788888999988888887542222211100            00000000       123677788889999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      |++++|+..++++++++|+++.++..++.+|...|++++|...|++..+..+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999987664

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.36  E-value=4e-07  Score=71.16  Aligned_cols=73  Identities=12%  Similarity=-0.028  Sum_probs=46.7

Q ss_pred             hhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          469 HFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       469 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      ++..++.+|.+.|++++|+..++++ ...| +..+|..++.++...|++++|+..|+++++++|+++.+...+..
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~  143 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYEL  143 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4555666666777777777666665 3333 55666667777777777777777777777777766655444433

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.32  E-value=2e-07  Score=69.18  Aligned_cols=95  Identities=7%  Similarity=-0.065  Sum_probs=79.6

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHhhcC---CHHHHHHHHHHHhhcCCCC--CCCchhhhhhh
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PF-EPDKAVWGALLGACRVHN---NVELAQVAAEALMKVEPEN--STPYVLLYNMY  543 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~-~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~  543 (579)
                      ..++..+...+++++|.+.|++. .. +.++.++..++.++.+.+   ++++|+.++++++..+|.+  ..++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            46777888999999999999988 33 447889999999987654   5567999999999988765  34789999999


Q ss_pred             hhcCCchHHHHHHHHHHhCCCC
Q 036340          544 ADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       544 ~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      .+.|++++|+++|+++.+..+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~  104 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQ  104 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHhhhHHHHHHHHHHHHhCcC
Confidence            9999999999999999876643

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.29  E-value=8.8e-07  Score=64.80  Aligned_cols=92  Identities=10%  Similarity=0.042  Sum_probs=66.0

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHH
Q 036340          125 LSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVS  204 (579)
Q Consensus       125 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (579)
                      .......+.+.|++++|+..|++++.   ..|.+..+|..++.++.+.|++++|+..|+++...        . +.+..+
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~--------~-p~~~~a   86 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQ---KEPEREEAWRSLGLTQAENEKDGLAIIALNHARML--------D-PKDIAV   86 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--------C-TTCHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcc---cccccchhhhhhhhhhhhhhhHHHhhccccccccc--------c-cccccc
Confidence            44556667777888888888888777   34556777778888888888888888888777621        1 335677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          205 WNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       205 ~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      +..+..+|...|++++|.+.+++.
T Consensus        87 ~~~la~~y~~~g~~~~A~~~l~~~  110 (112)
T d1hxia_          87 HAALAVSHTNEHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHCCCHHHHHHHHHHH
Confidence            777777888888888887777654

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.28  E-value=6.5e-07  Score=67.41  Aligned_cols=91  Identities=13%  Similarity=0.112  Sum_probs=69.4

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchh-------hhh
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVL-------LYN  541 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~-------l~~  541 (579)
                      ..++..+.+.|++++|+..|.+. ...| +...+..+..++.+.|++++|+..++++++++|.++..+..       ++.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            45666777788888888877776 3334 67788888888888999999999999999888888775544       455


Q ss_pred             hhhhcCCchHHHHHHHHHHh
Q 036340          542 MYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       542 ~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ++...+++++|.+.+++...
T Consensus        88 ~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHh
Confidence            66677788888888887654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.28  E-value=5.7e-07  Score=71.82  Aligned_cols=81  Identities=9%  Similarity=0.062  Sum_probs=60.3

Q ss_pred             cchhHHHHHHhhccCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          467 IEHFASLVDIVGRHGRLEDAMDLIKGM-PFEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       467 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      ...+..++.++.+.|++++|+..+.++ ...| ++..|..++.++...|++++|+..|+++++++|+++.+...+..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            445666777888888888888888776 4445 66778888888888888888888888888888888776666665554


Q ss_pred             hcC
Q 036340          545 DVG  547 (579)
Q Consensus       545 ~~g  547 (579)
                      ...
T Consensus       157 ~l~  159 (169)
T d1ihga1         157 KIK  159 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.27  E-value=4.2e-08  Score=93.89  Aligned_cols=149  Identities=12%  Similarity=0.020  Sum_probs=71.2

Q ss_pred             hHHHHHHHHHhHhCCCCCChhhHHHHHH--HhcccCcHHHHHHHHHHhHHhhCCCC-CcchhHHHHHHhhccCChHHHHH
Q 036340          412 ATEALELFKSMRSFKVLPTYITFISVLS--ACAHAGLVEEGRQHFKSMVNEYGIEP-RIEHFASLVDIVGRHGRLEDAMD  488 (579)
Q Consensus       412 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~  488 (579)
                      +..+++.++...+....++..-......  .....+.++.++..++...   ++.| +...+..++..+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            3455666666554443343332221111  1223344555555444332   3334 45556667777777777777776


Q ss_pred             HHHhCCCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          489 LIKGMPFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       489 ~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .+++.- .++ ...+..++..+...|++++|+..|+++++++|++..+|+.||.++...|+..+|...+.+......
T Consensus       142 ~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~  217 (497)
T d1ya0a1         142 PQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKF  217 (497)
T ss_dssp             -CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSB
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            554431 111 235666677777778888888888888888888888888888888888888888887777765443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.24  E-value=1.3e-06  Score=68.16  Aligned_cols=115  Identities=13%  Similarity=0.031  Sum_probs=83.6

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhc
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVH  512 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  512 (579)
                      .+..-...+.+.|++.+|+..|++++.-....+....              ........    .....++..++.++.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~--------------~~~~~~~~----~~~~~~~~Nla~~~~~l   80 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDD--------------QILLDKKK----NIEISCNLNLATCYNKN   80 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCC--------------HHHHHHHH----HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhh--------------HHHHHhhh----hHHHHHHhhHHHHHHHh
Confidence            3444556777888888888888877653211111000              00000000    01234677888999999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      |++++|+..++++++++|.++.+|..++.+|...|++++|...|++..+..+.
T Consensus        81 ~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          81 KDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             cccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999876643

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.24  E-value=0.00094  Score=58.38  Aligned_cols=146  Identities=11%  Similarity=0.131  Sum_probs=93.5

Q ss_pred             CchhHHHHHHHHHHHcCCCCChHHHHHHHhhCCCCCcchHHHHHHHHHccCCHHHHHHHhhcCCCCchhhHHHHHHHHHh
Q 036340           24 RDVVSWNVMISGYISSRGSGFLEEARYLFDIMPERDCVTWNTVISGYAKTGEMEEALRLFNSMPARNVVSWNAMISGFLQ  103 (579)
Q Consensus        24 ~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~  103 (579)
                      ||...-...+..|.+.|.   ++.|..+|..+.     -|..++..+.+.++++.|.+.+.+.  .+..+|..+..++..
T Consensus        12 ~n~~d~~~i~~~c~~~~l---ye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~   81 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKM---YDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVD   81 (336)
T ss_dssp             C----------------C---TTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCC---HHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHh
Confidence            565556666677777777   899999988774     4777888888899999998888766  466688888888887


Q ss_pred             cCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHc
Q 036340          104 NGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFD  183 (579)
Q Consensus       104 ~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  183 (579)
                      .....-|.- .......++.....++..|-..|.+++...+++....   ..+.+...++.++..|++.+ .++-.+.++
T Consensus        82 ~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~---~~~~~~~~~~~L~~lyak~~-~~kl~e~l~  156 (336)
T d1b89a_          82 GKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALG---LERAHMGMFTELAILYSKFK-PQKMREHLE  156 (336)
T ss_dssp             TTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---STTCCHHHHHHHHHHHHTTC-HHHHHHHHH
T ss_pred             CcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHc---CCccchHHHHHHHHHHHHhC-hHHHHHHHH
Confidence            766654422 2222334555666788888889999999999998765   34556667788888887764 455555554


Q ss_pred             c
Q 036340          184 K  184 (579)
Q Consensus       184 ~  184 (579)
                      .
T Consensus       157 ~  157 (336)
T d1b89a_         157 L  157 (336)
T ss_dssp             H
T ss_pred             h
Confidence            4

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.19  E-value=5.2e-05  Score=65.33  Aligned_cols=78  Identities=10%  Similarity=-0.026  Sum_probs=36.2

Q ss_pred             CHHHHHHHHHhccCCCCeeeHHHHHHHHHh----cCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcc----cCcHHHH
Q 036340          379 AIVEARIIFEEMKLLKNVVSWNAMIGGCAS----HGFATEALELFKSMRSFKVLPTYITFISVLSACAH----AGLVEEG  450 (579)
Q Consensus       379 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a  450 (579)
                      +...+...++......+..+...+...|..    ..++++|+.+|++..+.|   ++..+..|...|..    ..++++|
T Consensus       161 ~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A  237 (265)
T d1ouva_         161 DLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQA  237 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             ccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHH
Confidence            344444444444323344444444444443    345566666666665544   22333334443332    2345556


Q ss_pred             HHHHHHhHH
Q 036340          451 RQHFKSMVN  459 (579)
Q Consensus       451 ~~~~~~~~~  459 (579)
                      .+.|++...
T Consensus       238 ~~~~~kAa~  246 (265)
T d1ouva_         238 IENFKKGCK  246 (265)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.15  E-value=1.1e-06  Score=70.18  Aligned_cols=67  Identities=7%  Similarity=-0.051  Sum_probs=61.8

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      ....+..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++++.+...
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p  142 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  142 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            4557778888899999999999999999999999999999999999999999999999999987654

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.15  E-value=3e-06  Score=67.31  Aligned_cols=113  Identities=9%  Similarity=-0.054  Sum_probs=82.4

Q ss_pred             hHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCCCCHHHHHHHHHHHhhc
Q 036340          433 TFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFEPDKAVWGALLGACRVH  512 (579)
Q Consensus       433 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  512 (579)
                      .+......+.+.|++++|...|++.+.-....+....-            .......+       ....|..+..++.+.
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~------------~~~~~~~~-------~~~~~~Nla~~~~~l   77 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK------------ESKASESF-------LLAAFLNLAMCYLKL   77 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHH------------HHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchh------------hhhhcchh-------HHHHHHhHHHHHHHh
Confidence            45555667777788888888877766432221111100            00000000       134567788889999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      |++++|+..++++++++|+++.++..++.+|...|++++|...++++.+..+
T Consensus        78 ~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P  129 (168)
T d1kt1a1          78 REYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  129 (168)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT
T ss_pred             hhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999987654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.14  E-value=0.0017  Score=56.67  Aligned_cols=289  Identities=11%  Similarity=0.073  Sum_probs=144.9

Q ss_pred             CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHH
Q 036340           88 ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIV  167 (579)
Q Consensus        88 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~  167 (579)
                      .||..--...+..|.+.|.++.|..++..+.     .|..++..+.+.++++.|.+.+.+.        .+..+|..+..
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--------~~~~~~k~~~~   77 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--------NSTRTWKEVCF   77 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--------TCHHHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--------CCHHHHHHHHH
Confidence            4555555667778888888888888887653     4667778888888888888887763        23447777777


Q ss_pred             HHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhcCC---CChhHHHHHHHHHH
Q 036340          168 GYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQMLE---RDTFSWNTMISGYI  244 (579)
Q Consensus       168 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  244 (579)
                      .+........+.-+ ..            ....++.....++..|-..|.++....+++....   .+...++.++..|+
T Consensus        78 ~l~~~~e~~la~i~-~~------------~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lya  144 (336)
T d1b89a_          78 ACVDGKEFRLAQMC-GL------------HIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYS  144 (336)
T ss_dssp             HHHHTTCHHHHHHT-TT------------TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHH-HH------------HhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHH
Confidence            77777666554221 11            1123344455677888888888888888886643   24445666666665


Q ss_pred             hcCChHHHHHHhhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHccCCCCChhhHHHHHHHHHhCCCchHHHHHHHHHHHc
Q 036340          245 HVLDMEEASNLFVKMPHPDTLTWNAMVSGYAQIGNLELALDFFKRMPQKNLVSWNSMIAGCETNKDYEGAIKLFIQMQVE  324 (579)
Q Consensus       245 ~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  324 (579)
                      +.+ .++..+.++..               ...=+.+++.++.++     ...|..++..|.+.|+++.|..++-.   .
T Consensus       145 k~~-~~kl~e~l~~~---------------s~~y~~~k~~~~c~~-----~~l~~elv~Ly~~~~~~~~A~~~~i~---~  200 (336)
T d1b89a_         145 KFK-PQKMREHLELF---------------WSRVNIPKVLRAAEQ-----AHLWAELVFLYDKYEEYDNAIITMMN---H  200 (336)
T ss_dssp             TTC-HHHHHHHHHHH---------------STTSCHHHHHHHHHT-----TTCHHHHHHHHHHTTCHHHHHHHHHH---S
T ss_pred             HhC-hHHHHHHHHhc---------------cccCCHHHHHHHHHH-----cCChHHHHHHHHhcCCHHHHHHHHHH---c
Confidence            543 23333333221               111122222222221     12345555666666777766655422   1


Q ss_pred             CCCCChhhHHHHHHhccCCCchhhHHHHHHH-HhhcCCCCchHHHHHHHHhhhcCCHHHHHHHHHhccCCCCeeeHHHHH
Q 036340          325 GEKPDRHTFSSILSMSSGIVDLHLGMQIHQM-VTKTVIPDVPINNALITMYARCGAIVEARIIFEEMKLLKNVVSWNAMI  403 (579)
Q Consensus       325 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~l~  403 (579)
                        .++.......+..+.+..+.+...+.... ...    ++...+.++......-+..+                   ++
T Consensus       201 --~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~~v~~~~d~~r-------------------~V  255 (336)
T d1b89a_         201 --PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTR-------------------AV  255 (336)
T ss_dssp             --TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHHHHGGGCCHHH-------------------HH
T ss_pred             --chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHHHhccCCCHHH-------------------HH
Confidence              22333333334444444444433333332 111    12233333333333333333                   33


Q ss_pred             HHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHH
Q 036340          404 GGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHF  454 (579)
Q Consensus       404 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  454 (579)
                      ..+.+.++..-...+++.....+   +....+.+...|...++++.-.+..
T Consensus       256 ~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         256 NYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             HHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            44444555556666666655433   3356677777777777766544444

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.05  E-value=1.7e-06  Score=66.63  Aligned_cols=44  Identities=16%  Similarity=0.146  Sum_probs=33.3

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCC
Q 036340          514 NVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       514 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  564 (579)
                      .+++|...|+++++++|++..++..|...       .+|.+++.++.+.|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            46889999999999999987655555543       566777777776664

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.96  E-value=6.7e-06  Score=65.56  Aligned_cols=123  Identities=16%  Similarity=-0.001  Sum_probs=87.3

Q ss_pred             HHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChH-HHHHHHHhCCCCCCHHHHHHHHHHHhhc
Q 036340          434 FISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLE-DAMDLIKGMPFEPDKAVWGALLGACRVH  512 (579)
Q Consensus       434 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~A~~~~~~~~~~~~~~~~~~l~~~~~~~  512 (579)
                      ...........|++++|.+.|...+.-   .+....-.      ...+.+- ....-+..    .....+..++.++...
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l---~rG~~l~~------~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALRE---WRGPVLDD------LRDFQFVEPFATALVE----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT---CCSSTTGG------GTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh---Cccccccc------CcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            334445678899999999999988743   22211100      0011111 11111111    1245677788889999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHH-----hCCCCCCCc
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMK-----SNNIKKPTG  569 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~  569 (579)
                      |++++|+..++++++.+|.+...|..++.+|...|++.+|++.|+++.     +.|+.|.+.
T Consensus        81 g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          81 GRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             CCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            999999999999999999999999999999999999999999999873     468877654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.89  E-value=6.6e-06  Score=57.73  Aligned_cols=71  Identities=13%  Similarity=0.052  Sum_probs=51.1

Q ss_pred             HHHHHHhhccCChHHHHHHHHhC----C----CCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhh
Q 036340          471 ASLVDIVGRHGRLEDAMDLIKGM----P----FEP-DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYN  541 (579)
Q Consensus       471 ~~l~~~~~~~g~~~~A~~~~~~~----~----~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  541 (579)
                      ..++..+.+.|++++|+..|++.    +    ..+ ...++..++.++.+.|++++|+..++++++++|+++.++..+..
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~   88 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKY   88 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            34555555666666666655544    0    112 24578889999999999999999999999999999887776643

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.88  E-value=3.9e-05  Score=57.29  Aligned_cols=57  Identities=11%  Similarity=0.094  Sum_probs=34.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHH
Q 036340          401 AMIGGCASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVN  459 (579)
Q Consensus       401 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  459 (579)
                      .++..+.+.|++++|+..|.+.++.  .|+ ..++..+..+|...|++++|+..++.++.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            4555666666666666666666643  333 33566666666666666666666666553

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.85  E-value=1.6e-06  Score=66.70  Aligned_cols=52  Identities=13%  Similarity=0.132  Sum_probs=45.0

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCC-----------chHHHHHHHHHHhCCC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGR-----------WDDANEVRLLMKSNNI  564 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~  564 (579)
                      +.+++|+..|+++++++|+++.+|..++.+|...|+           +++|.+.|++..+..+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P  117 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQP  117 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCC
Confidence            456789999999999999999999999999988764           6889999998876554

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.85  E-value=1.3e-05  Score=68.38  Aligned_cols=134  Identities=14%  Similarity=-0.003  Sum_probs=94.0

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCC-hhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCC-cchhHHHHHHhhccCCh
Q 036340          406 CASHGFATEALELFKSMRSFKVLPT-YITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPR-IEHFASLVDIVGRHGRL  483 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~  483 (579)
                      ..+.|++++|+..+++.++.  .|+ ...+..++..++..|++++|...++...+.   .|+ ...+..+..++...+..
T Consensus         6 aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhcccc
Confidence            44679999999999999864  554 458888999999999999999999988754   553 44555555555555555


Q ss_pred             HHHHHHHHhC--CCCCC-HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhh
Q 036340          484 EDAMDLIKGM--PFEPD-KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYA  544 (579)
Q Consensus       484 ~~A~~~~~~~--~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  544 (579)
                      +++..-....  ...|+ ...+...+..+...|+.++|...++++.+..|..+..+........
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~~~~f~wi  144 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLANDTSFSDV  144 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEETTEEESCE
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccccccCHHHH
Confidence            5443332222  12332 2333444566788999999999999999999998877665544333

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.80  E-value=1.7e-05  Score=61.87  Aligned_cols=62  Identities=11%  Similarity=-0.054  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCC-----------CCchhhhhhhhhcCCchHHHHHHHHHHh
Q 036340          500 AVWGALLGACRVHNNVELAQVAAEALMKVEPENS-----------TPYVLLYNMYADVGRWDDANEVRLLMKS  561 (579)
Q Consensus       500 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~-----------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  561 (579)
                      ..|+.+..++...|++++|...+++++++.|...           .++..++.+|...|++++|.+.|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777788888888888888888876544321           2467788999999999999999888754

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.72  E-value=0.0001  Score=57.19  Aligned_cols=97  Identities=11%  Similarity=0.008  Sum_probs=61.2

Q ss_pred             HhcccCcHHHHHHHHHHhHHhhCCCCC----------cchhHHHHHHhhccCChHHHHHHHHhC--------CCCCC---
Q 036340          440 ACAHAGLVEEGRQHFKSMVNEYGIEPR----------IEHFASLVDIVGRHGRLEDAMDLIKGM--------PFEPD---  498 (579)
Q Consensus       440 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~~~---  498 (579)
                      .+...|++++|+..|++.+.-..-.|+          ..+|..++.+|...|++++|...+++.        ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            444556666666666665543222222          134556666777777777766666554        11121   


Q ss_pred             --HHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCc
Q 036340          499 --KAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPY  536 (579)
Q Consensus       499 --~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  536 (579)
                        ...+..++.++...|++++|+..|++++++.|......
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~~  137 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGET  137 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCC
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhchH
Confidence              22566778889999999999999999998877655433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=1.3e-05  Score=76.09  Aligned_cols=133  Identities=11%  Similarity=-0.052  Sum_probs=85.5

Q ss_pred             HccCCHHHHHHHhhcCC---CCchhhHHHHHHHHHhcCChhhHHHHHccCCCCCc-chHHHHHHHHHhCCCHHHHHHHHH
Q 036340           71 AKTGEMEEALRLFNSMP---ARNVVSWNAMISGFLQNGDVANAIEFFDRMPGRDS-ASLSALVSGLIQNGELDEAARVLV  146 (579)
Q Consensus        71 ~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~  146 (579)
                      ...+.++.|+..+....   .++...+..+...+.+.|+.+.|...++....++. .++..+...+...|++++|+..|+
T Consensus        97 ~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~  176 (497)
T d1ya0a1          97 AASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYR  176 (497)
T ss_dssp             HHHHHHHHHHHHHTC-------------------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            34577888888887765   34566788888899999999999988776554432 467778889999999999999999


Q ss_pred             HhccCCCCCCCchhhHHHHHHHHhhCCCHHHHHHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhc
Q 036340          147 KCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEARKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKA  215 (579)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  215 (579)
                      ++.+   ..|.+...|+.++..+...|+..+|...|.+...        .. +|-..++..|...+.+.
T Consensus       177 ~A~~---l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~--------~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         177 HAAQ---LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA--------VK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHH---HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS--------SS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHH---HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--------CC-CCCHHHHHHHHHHHHHh
Confidence            9998   5678888999999999999999999999999872        22 56778888888877654

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=5.1e-05  Score=52.99  Aligned_cols=68  Identities=10%  Similarity=-0.080  Sum_probs=57.1

Q ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCC-------CchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          498 DKAVWGALLGACRVHNNVELAQVAAEALMKVEPENST-------PYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                      +...+..++..+.+.|++++|+..|+++++..|.++.       ++..|+.++.+.|++++|...++++.+..+.
T Consensus         4 saddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~   78 (95)
T d1tjca_           4 TAEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE   78 (95)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC
Confidence            3445567888999999999999999999987766543       4778999999999999999999999877643

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.32  E-value=0.00011  Score=62.47  Aligned_cols=116  Identities=12%  Similarity=0.056  Sum_probs=53.2

Q ss_pred             HhcCChhhHHHHHccCCC---CCcchHHHHHHHHHhCCCHHHHHHHHHHhccCCCCCCCchhhHHHHHHHHhhCCCHHHH
Q 036340          102 LQNGDVANAIEFFDRMPG---RDSASLSALVSGLIQNGELDEAARVLVKCGSRCDGGEDLVRAYNTLIVGYGQRGRVEEA  178 (579)
Q Consensus       102 ~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  178 (579)
                      .+.|++++|++.+++..+   .+...+..++..++..|++++|...++.+.+   ..|.....+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHhccccHHH
Confidence            344555555555555432   2334555555555666666666666665555   2333344444444444333333333


Q ss_pred             HHHHccccccCCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          179 RKLFDKIPVNCDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                      ..-.....        ..+-+++...+...+..+...|+.++|.+.++++
T Consensus        84 ~~~~~~~~--------~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a  125 (264)
T d1zbpa1          84 AQGAATAK--------VLGENEELTKSLVSFNLSMVSQDYEQVSELALQI  125 (264)
T ss_dssp             TTSCCCEE--------CCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHhhhhh--------cccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            22222211        1111222333333444555556666666655554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.28  E-value=0.0012  Score=52.05  Aligned_cols=92  Identities=14%  Similarity=0.104  Sum_probs=45.6

Q ss_pred             HHHHHHhCCCHHHHHHHHHHhccCCCCCCCc-------------------hhhHHHHHHHHhhCCCHHHHHHHHcccccc
Q 036340          128 LVSGLIQNGELDEAARVLVKCGSRCDGGEDL-------------------VRAYNTLIVGYGQRGRVEEARKLFDKIPVN  188 (579)
Q Consensus       128 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-------------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  188 (579)
                      ........|++++|.+.|..++....|....                   ..++..++..+...|++++|+..++.+...
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~   96 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFE   96 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHh
Confidence            4445566777777777777766543222211                   123344444555555555555555554411


Q ss_pred             CCCCCCCccCCcchHHHHHHHHHHHhcCCHHHHHHHHHhc
Q 036340          189 CDRGEGNVRFKRNIVSWNSMIMCYAKAGDVVSAREIFEQM  228 (579)
Q Consensus       189 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  228 (579)
                               -+-+...|..++.++.+.|+..+|++.|+++
T Consensus        97 ---------~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          97 ---------HPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             ---------STTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             ---------CCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence                     0224444555555555555555555555443

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.90  E-value=0.15  Score=46.57  Aligned_cols=51  Identities=16%  Similarity=0.048  Sum_probs=33.0

Q ss_pred             HHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHH
Q 036340          507 GACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLM  559 (579)
Q Consensus       507 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  559 (579)
                      ..+...|....|...+..+....+  +.-...++....+.|.++.|+....+.
T Consensus       389 ~~L~~~g~~~~A~~e~~~l~~~~~--~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         389 RELMYWNLDNTARSEWANLVKSKS--KTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCC--HHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHcCCchHHHHHHHHHHhCCC--HHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            445667777777777776664332  233566677777777777777666554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.33  E-value=0.067  Score=37.41  Aligned_cols=141  Identities=11%  Similarity=0.057  Sum_probs=96.6

Q ss_pred             HHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhccCChHH
Q 036340          406 CASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGRHGRLED  485 (579)
Q Consensus       406 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  485 (579)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+-+.+.|-. ....++.++...+    
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~-Nlk~vv~C~~~~n----   83 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQ-NLKSVVECGVINN----   83 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCS-CTHHHHHHHHHTT----
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhh-cHHHHHHHHHHhc----
Confidence            45578899999999888753   344466666655556666677777777765433333311 1223344444433    


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhhcCCchHHHHHHHHHHhCCCC
Q 036340          486 AMDLIKGMPFEPDKAVWGALLGACRVHNNVELAQVAAEALMKVEPENSTPYVLLYNMYADVGRWDDANEVRLLMKSNNIK  565 (579)
Q Consensus       486 A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  565 (579)
                                 .+...+...+..+.++|.-+.-..++..+++.+.-+|..+..++.+|.+.|...++-+++.++-++|++
T Consensus        84 -----------~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 -----------TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             -----------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             -----------chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                       233445556677778888888888888888776666788899999999999999999999999998874

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.00  E-value=0.54  Score=42.73  Aligned_cols=173  Identities=9%  Similarity=-0.044  Sum_probs=94.4

Q ss_pred             hCCCchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHHHHhhhcCCHHHHHHH
Q 036340          307 TNKDYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALITMYARCGAIVEARII  386 (579)
Q Consensus       307 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  386 (579)
                      ..+..+.+...+......+.  +.......+......+++..+...+............-..-+..++...|+.+.|...
T Consensus       264 ~~~~~~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         264 GNDVTDEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             STTCCHHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCchHHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHH
Confidence            34555666666655544332  2333333333344455666666666553333333344455677777778888888888


Q ss_pred             HHhccCCCCeeeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCC--Ch----hhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          387 FEEMKLLKNVVSWNAMIGGCASHGFATEALELFKSMRSFKVLP--TY----ITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       387 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p--~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      |..+...+   +|-..+.+-.-...+.-        ....+.+  ..    ..-...+..+...|....|...+..+...
T Consensus       342 ~~~~a~~~---~fYG~LAa~~Lg~~~~~--------~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~  410 (450)
T d1qsaa1         342 LHQLMQQR---GFYPMVAAQRIGEEYEL--------KIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS  410 (450)
T ss_dssp             HHHHHTSC---SHHHHHHHHHTTCCCCC--------CCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhcCC---ChHHHHHHHHcCCCCCC--------CcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC
Confidence            87776322   23333322211111100        0000000  00    01112344567889999999998887642


Q ss_pred             hCCCCCcchhHHHHHHhhccCChHHHHHHHHhCCCC
Q 036340          461 YGIEPRIEHFASLVDIVGRHGRLEDAMDLIKGMPFE  496 (579)
Q Consensus       461 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  496 (579)
                          .+......++....+.|.++.|+....+.+.-
T Consensus       411 ----~~~~~~~~la~lA~~~g~~~~aI~a~~~~~~~  442 (450)
T d1qsaa1         411 ----KSKTEQAQLARYAFNNQWWDLSVQATIAGKLW  442 (450)
T ss_dssp             ----CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCT
T ss_pred             ----CCHHHHHHHHHHHHHCCChhHHHHHHHHHHcc
Confidence                24456667788888999999999988887543

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.93  E-value=0.022  Score=41.90  Aligned_cols=50  Identities=8%  Similarity=-0.120  Sum_probs=28.2

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCCchhhhhhhhh----cCCchHHHHHHHHHHhCCC
Q 036340          513 NNVELAQVAAEALMKVEPENSTPYVLLYNMYAD----VGRWDDANEVRLLMKSNNI  564 (579)
Q Consensus       513 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  564 (579)
                      .|.++|...|+++.+..  ++.+...|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            35566666666665543  23345556655554    3456666666666665553

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.92  E-value=0.0043  Score=44.21  Aligned_cols=72  Identities=10%  Similarity=0.032  Sum_probs=51.8

Q ss_pred             CCCcchhHHHHHHhhccC---ChHHHHHHHHhC-CCCC-CH-HHHHHHHHHHhhcCCHHHHHHHHHHHhhcCCCCCCC
Q 036340          464 EPRIEHFASLVDIVGRHG---RLEDAMDLIKGM-PFEP-DK-AVWGALLGACRVHNNVELAQVAAEALMKVEPENSTP  535 (579)
Q Consensus       464 ~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~~-~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  535 (579)
                      .|++.+-..++.++.+..   +.++++.++++. ...| +. ..+-.+..+|.+.|++++|...++++++++|++..+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            345567677777887664   445777887776 2234 33 466677778888899999999999999999987654

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.85  E-value=0.016  Score=41.12  Aligned_cols=66  Identities=9%  Similarity=-0.084  Sum_probs=32.9

Q ss_pred             CHHHHHHHHHHHhhc---CCHHHHHHHHHHHhhcCCCCC-CCchhhhhhhhhcCCchHHHHHHHHHHhCC
Q 036340          498 DKAVWGALLGACRVH---NNVELAQVAAEALMKVEPENS-TPYVLLYNMYADVGRWDDANEVRLLMKSNN  563 (579)
Q Consensus       498 ~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  563 (579)
                      ...+--..++++.++   .+.++++.+++.+.+.+|.+. ..++.|+.+|.+.|++++|.++++.+.+..
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            333444444444433   233455555555555555432 345555555555555555555555555433

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.12  E-value=0.13  Score=37.49  Aligned_cols=111  Identities=11%  Similarity=-0.070  Sum_probs=70.8

Q ss_pred             ChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHHHHhhc----cCChHHH
Q 036340          411 FATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLVDIVGR----HGRLEDA  486 (579)
Q Consensus       411 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  486 (579)
                      |+++|+++|++..+.|.   ......|.  .....+.++|..++++..+. +   ++.....|+..|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            56788888888777662   22222232  34456778888888877543 2   34445556665543    4577888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhh----cCCHHHHHHHHHHHhhcCC
Q 036340          487 MDLIKGMPFEPDKAVWGALLGACRV----HNNVELAQVAAEALMKVEP  530 (579)
Q Consensus       487 ~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p  530 (579)
                      .++|++.-..-++.....+...|..    ..|.++|...|+++.+...
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            8888887323355566666666544    4578889999988876543

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=89.76  E-value=2.2  Score=29.69  Aligned_cols=63  Identities=8%  Similarity=0.015  Sum_probs=39.2

Q ss_pred             eeHHHHHHHHHhcCChHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHh
Q 036340          397 VSWNAMIGGCASHGFATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNE  460 (579)
Q Consensus       397 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  460 (579)
                      ..+...+..+.++|+-++-.+++..+.+.+ .|++.....+..+|.+.|...++-+++.++.++
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            344455566666677666666766655533 566666666667777777777777777666554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.07  E-value=0.88  Score=29.98  Aligned_cols=62  Identities=16%  Similarity=0.108  Sum_probs=45.7

Q ss_pred             CchHHHHHHHHHHHcCCCCChhhHHHHHHhccCCCchhhHHHHHHHHhhcCCCCchHHHHHH
Q 036340          310 DYEGAIKLFIQMQVEGEKPDRHTFSSILSMSSGIVDLHLGMQIHQMVTKTVIPDVPINNALI  371 (579)
Q Consensus       310 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~l~  371 (579)
                      |.-+..+-++.+......|++......+.+|.+.+++..|.++++..+....++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            34456666777777778888888888888888888888888888886655555555665554

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=83.78  E-value=2.8  Score=27.55  Aligned_cols=61  Identities=15%  Similarity=0.259  Sum_probs=43.2

Q ss_pred             hHHHHHHHHHhHhCCCCCChhhHHHHHHHhcccCcHHHHHHHHHHhHHhhCCCCCcchhHHHH
Q 036340          412 ATEALELFKSMRSFKVLPTYITFISVLSACAHAGLVEEGRQHFKSMVNEYGIEPRIEHFASLV  474 (579)
Q Consensus       412 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  474 (579)
                      .-+..+-+..+....+.|++......+++|.+.+++..|.++++.+..+.+  ++...|..++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yil   82 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHH
Confidence            345666667777777888888888888888888888888888887765433  3345555543